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Sample records for african continental ancestry group

  1. Effects of cis and trans genetic ancestry on gene expression in African Americans.

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    Alkes L Price

    2008-12-01

    Full Text Available Variation in gene expression is a fundamental aspect of human phenotypic variation. Several recent studies have analyzed gene expression levels in populations of different continental ancestry and reported population differences at a large number of genes. However, these differences could largely be due to non-genetic (e.g., environmental effects. Here, we analyze gene expression levels in African American cell lines, which differ from previously analyzed cell lines in that individuals from this population inherit variable proportions of two continental ancestries. We first relate gene expression levels in individual African Americans to their genome-wide proportion of European ancestry. The results provide strong evidence of a genetic contribution to expression differences between European and African populations, validating previous findings. Second, we infer local ancestry (0, 1, or 2 European chromosomes at each location in the genome and investigate the effects of ancestry proximal to the expressed gene (cis versus ancestry elsewhere in the genome (trans. Both effects are highly significant, and we estimate that 12+/-3% of all heritable variation in human gene expression is due to cis variants.

  2. Ancestry Informative Marker Sets for Determining Continental Origin and Admixture Proportions in Common Populations in America

    Science.gov (United States)

    Kosoy, Roman; Nassir, Rami; Tian, Chao; White, Phoebe A; Butler, Lesley M.; Silva, Gabriel; Kittles, Rick; Alarcon-Riquelme, Marta E.; Gregersen, Peter K.; Belmont, John W.; De La Vega, Francisco M.; Seldin, Michael F.

    2011-01-01

    To provide a resource for assessing continental ancestry in a wide variety of genetic studies we identified, validated and characterized a set of 128 ancestry informative markers (AIMs). The markers were chosen for informativeness, genome-wide distribution, and genotype reproducibility on two platforms (TaqMan® assays and Illumina arrays). We analyzed genotyping data from 825 subjects with diverse ancestry, including European, East Asian, Amerindian, African, South Asian, Mexican, and Puerto Rican. A comprehensive set of 128 AIMs and subsets as small as 24 AIMs are shown to be useful tools for ascertaining the origin of subjects from particular continents, and to correct for population stratification in admixed population sample sets. Our findings provide general guidelines for the application of specific AIM subsets as a resource for wide application. We conclude that investigators can use TaqMan assays for the selected AIMs as a simple and cost efficient tool to control for differences in continental ancestry when conducting association studies in ethnically diverse populations. PMID:18683858

  3. CoAIMs: a cost-effective panel of ancestry informative markers for determining continental origins.

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    Eric R Londin

    Full Text Available BACKGROUND: Genetic ancestry is known to impact outcomes of genotype-phenotype studies that are designed to identify risk for common diseases in human populations. Failure to control for population stratification due to genetic ancestry can significantly confound results of disease association studies. Moreover, ancestry is a critical factor in assessing lifetime risk of disease, and can play an important role in optimizing treatment. As modern medicine moves towards using personal genetic information for clinical applications, it is important to determine genetic ancestry in an accurate, cost-effective and efficient manner. Self-identified race is a common method used to track and control for population stratification; however, social constructs of race are not necessarily informative for genetic applications. The use of ancestry informative markers (AIMs is a more accurate method for determining genetic ancestry for the purposes of population stratification. METHODOLOGY/PRINCIPAL FINDINGS: Here we introduce a novel panel of 36 microsatellite (MSAT AIMs that determines continental admixture proportions. This panel, which we have named Continental Ancestry Informative Markers or CoAIMs, consists of MSAT AIMs that were chosen based upon their measure of genetic variance (F(st, allele frequencies and their suitability for efficient genotyping. Genotype analysis using CoAIMs along with a Bayesian clustering method (STRUCTURE is able to discern continental origins including Europe/Middle East (Caucasians, East Asia, Africa, Native America, and Oceania. In addition to determining continental ancestry for individuals without significant admixture, we applied CoAIMs to ascertain admixture proportions of individuals of self declared race. CONCLUSION/SIGNIFICANCE: CoAIMs can be used to efficiently and effectively determine continental admixture proportions in a sample set. The CoAIMs panel is a valuable resource for genetic researchers performing case

  4. Genetic ancestry-smoking interactions and lung function in African Americans: a cohort study.

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    Melinda C Aldrich

    Full Text Available BACKGROUND: Smoking tobacco reduces lung function. African Americans have both lower lung function and decreased metabolism of tobacco smoke compared to European Americans. African ancestry is also associated with lower pulmonary function in African Americans. We aimed to determine whether African ancestry modifies the association between smoking and lung function and its rate of decline in African Americans. METHODOLOGY/PRINCIPAL FINDINGS: We evaluated a prospective ongoing cohort of 1,281 African Americans participating in the Health, Aging, and Body Composition (Health ABC Study initiated in 1997. We also examined an ongoing prospective cohort initiated in 1985 of 1,223 African Americans in the Coronary Artery Disease in Young Adults (CARDIA Study. Pulmonary function and tobacco smoking exposure were measured at baseline and repeatedly over the follow-up period. Individual genetic ancestry proportions were estimated using ancestry informative markers selected to distinguish European and West African ancestry. African Americans with a high proportion of African ancestry had lower baseline forced expiratory volume in one second (FEV₁ per pack-year of smoking (-5.7 ml FEV₁/ smoking pack-year compared with smokers with lower African ancestry (-4.6 ml in FEV₁/ smoking pack-year (interaction P value  = 0.17. Longitudinal analyses revealed a suggestive interaction between smoking, and African ancestry on the rate of FEV(1 decline in Health ABC and independently replicated in CARDIA. CONCLUSIONS/SIGNIFICANCE: African American individuals with a high proportion of African ancestry are at greater risk for losing lung function while smoking.

  5. Identification, replication, and fine-mapping of Loci associated with adult height in individuals of african ancestry.

    Science.gov (United States)

    N'Diaye, Amidou; Chen, Gary K; Palmer, Cameron D; Ge, Bing; Tayo, Bamidele; Mathias, Rasika A; Ding, Jingzhong; Nalls, Michael A; Adeyemo, Adebowale; Adoue, Véronique; Ambrosone, Christine B; Atwood, Larry; Bandera, Elisa V; Becker, Lewis C; Berndt, Sonja I; Bernstein, Leslie; Blot, William J; Boerwinkle, Eric; Britton, Angela; Casey, Graham; Chanock, Stephen J; Demerath, Ellen; Deming, Sandra L; Diver, W Ryan; Fox, Caroline; Harris, Tamara B; Hernandez, Dena G; Hu, Jennifer J; Ingles, Sue A; John, Esther M; Johnson, Craig; Keating, Brendan; Kittles, Rick A; Kolonel, Laurence N; Kritchevsky, Stephen B; Le Marchand, Loic; Lohman, Kurt; Liu, Jiankang; Millikan, Robert C; Murphy, Adam; Musani, Solomon; Neslund-Dudas, Christine; North, Kari E; Nyante, Sarah; Ogunniyi, Adesola; Ostrander, Elaine A; Papanicolaou, George; Patel, Sanjay; Pettaway, Curtis A; Press, Michael F; Redline, Susan; Rodriguez-Gil, Jorge L; Rotimi, Charles; Rybicki, Benjamin A; Salako, Babatunde; Schreiner, Pamela J; Signorello, Lisa B; Singleton, Andrew B; Stanford, Janet L; Stram, Alex H; Stram, Daniel O; Strom, Sara S; Suktitipat, Bhoom; Thun, Michael J; Witte, John S; Yanek, Lisa R; Ziegler, Regina G; Zheng, Wei; Zhu, Xiaofeng; Zmuda, Joseph M; Zonderman, Alan B; Evans, Michele K; Liu, Yongmei; Becker, Diane M; Cooper, Richard S; Pastinen, Tomi; Henderson, Brian E; Hirschhorn, Joel N; Lettre, Guillaume; Haiman, Christopher A

    2011-10-01

    Adult height is a classic polygenic trait of high heritability (h(2) approximately 0.8). More than 180 single nucleotide polymorphisms (SNPs), identified mostly in populations of European descent, are associated with height. These variants convey modest effects and explain approximately10% of the variance in height. Discovery efforts in other populations, while limited, have revealed loci for height not previously implicated in individuals of European ancestry. Here, we performed a meta-analysis of genome-wide association (GWA) results for adult height in 20,427 individuals of African ancestry with replication in up to 16,436 African Americans. We found two novel height loci (Xp22-rs12393627, P = 3.4×10(-12) and 2p14-rs4315565, P = 1.2×10(-8)). As a group, height associations discovered in European-ancestry samples replicate in individuals of African ancestry (P = 1.7×10(-4) for overall replication). Fine-mapping of the European height loci in African-ancestry individuals showed an enrichment of SNPs that are associated with expression of nearby genes when compared to the index European height SNPs (P<0.01). Our results highlight the utility of genetic studies in non-European populations to understand the etiology of complex human diseases and traits.

  6. Identification, replication, and fine-mapping of Loci associated with adult height in individuals of african ancestry.

    Directory of Open Access Journals (Sweden)

    Amidou N'Diaye

    2011-10-01

    Full Text Available Adult height is a classic polygenic trait of high heritability (h(2 approximately 0.8. More than 180 single nucleotide polymorphisms (SNPs, identified mostly in populations of European descent, are associated with height. These variants convey modest effects and explain approximately10% of the variance in height. Discovery efforts in other populations, while limited, have revealed loci for height not previously implicated in individuals of European ancestry. Here, we performed a meta-analysis of genome-wide association (GWA results for adult height in 20,427 individuals of African ancestry with replication in up to 16,436 African Americans. We found two novel height loci (Xp22-rs12393627, P = 3.4×10(-12 and 2p14-rs4315565, P = 1.2×10(-8. As a group, height associations discovered in European-ancestry samples replicate in individuals of African ancestry (P = 1.7×10(-4 for overall replication. Fine-mapping of the European height loci in African-ancestry individuals showed an enrichment of SNPs that are associated with expression of nearby genes when compared to the index European height SNPs (P<0.01. Our results highlight the utility of genetic studies in non-European populations to understand the etiology of complex human diseases and traits.

  7. Developing a set of ancestry-sensitive DNA markers reflecting continental origins of humans

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    den Dunnen Johan T

    2009-10-01

    Full Text Available Abstract Background The identification and use of Ancestry-Sensitive Markers (ASMs, i.e. genetic polymorphisms facilitating the genetic reconstruction of geographical origins of individuals, is far from straightforward. Results Here we describe the ascertainment and application of five different sets of 47 single nucleotide polymorphisms (SNPs allowing the inference of major human groups of different continental origin. For this, we first used 74 cell lines, representing human males from six different geographical areas and screened them with the Affymetrix Mapping 10K assay. In addition to using summary statistics estimating the genetic diversity among multiple groups of individuals defined by geography or language, we also used the program STRUCTURE to detect genetically distinct subgroups. Subsequently, we used a pairwise FST ranking procedure among all pairs of genetic subgroups in order to identify a single best performing set of ASMs. Our initial results were independently confirmed by genotyping this set of ASMs in 22 individuals from Somalia, Afghanistan and Sudan and in 919 samples from the CEPH Human Genome Diversity Panel (HGDP-CEPH Conclusion By means of our pairwise population FST ranking approach we identified a set of 47 SNPs that could serve as a panel of ASMs at a continental level.

  8. Paraoxonase1 Genetic Polymorphisms in a Mixed Ancestry African Population

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    M. Macharia

    2014-01-01

    Full Text Available Paraoxonase 1 (PON1 activity is markedly influenced by coding polymorphisms, Q/R at position 192 and M/L at position 55 of the PON1 gene. We investigated the frequencies of these polymorphisms and their effects on PON1 and antioxidant activities in 844 South African mixed ancestry individuals. Genotyping was done using allele-specific TaqMan technology, PON1 activities were measured using paraoxon and phenylacetate, oxidative status was determined by measuring the antioxidant activities of ferric reducing antioxidant power and trolox equivalent antioxidant capacity, and lipid peroxidation markers included malondialdehyde and oxidized LDL. The frequencies of Q192R and L55M were 47.6% and 28.8%, respectively, and the most common corresponding alleles were 192R (60.4% and 55M (82.6%. The Q192 was significantly associated with 5.8 units’ increase in PON1 concentration and 15.4 units’ decrease in PONase activity after adjustment for age, sex, BMI, and diabetes, with suggestion of differential effects by diabetes status. The PON1 L55 variant was associated with none of the measured indices. In conclusion, we have shown that the Q192R polymorphism is a determinant of both PON1 concentration and activity and this association appeared to be enhanced in subjects with diabetes.

  9. A SNP test to identify Africanized honeybees via proportion of 'African' ancestry.

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    Chapman, Nadine C; Harpur, Brock A; Lim, Julianne; Rinderer, Thomas E; Allsopp, Michael H; Zayed, Amro; Oldroyd, Benjamin P

    2015-11-01

    The honeybee, Apis mellifera, is the world's most important pollinator and is ubiquitous in most agricultural ecosystems. Four major evolutionary lineages and at least 24 subspecies are recognized. Commercial populations are mainly derived from subspecies originating in Europe (75-95%). The Africanized honeybee is a New World hybrid of A. m. scutellata from Africa and European subspecies, with the African component making up 50-90% of the genome. Africanized honeybees are considered undesirable for bee-keeping in most countries, due to their extreme defensiveness and poor honey production. The international trade in honeybees is restricted, due in part to bans on the importation of queens (and semen) from countries where Africanized honeybees are extant. Some desirable strains from the United States of America that have been bred for traits such as resistance to the mite Varroa destructor are unfortunately excluded from export to countries such as Australia due to the presence of Africanized honeybees in the USA. This study shows that a panel of 95 single nucleotide polymorphisms, chosen to differentiate between the African, Eastern European and Western European lineages, can detect Africanized honeybees with a high degree of confidence via ancestry assignment. Our panel therefore offers a valuable tool to mitigate the risks of spreading Africanized honeybees across the globe and may enable the resumption of queen and bee semen imports from the Americas. PMID:25846634

  10. Multiplex genotyping system for efficient inference of matrilineal genetic ancestry with continental resolution

    OpenAIRE

    van Oven Mannis; Vermeulen Mark; Kayser Manfred

    2011-01-01

    Abstract Background In recent years, phylogeographic studies have produced detailed knowledge on the worldwide distribution of mitochondrial DNA (mtDNA) variants, linking specific clades of the mtDNA phylogeny with certain geographic areas. However, a multiplex genotyping system for the detection of the mtDNA haplogroups of major continental distribution that would be desirable for efficient DNA-based bio-geographic ancestry testing in various applications is still missing. Results Three mult...

  11. Differences in optic nerve structure between individuals of predominantly African and European ancestry: Implications for disease detection and pathogenesis

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    Christopher A Girkin

    2008-03-01

    Full Text Available Christopher A GirkinUniversity of Alabama at Birmingham School of Medicine, Birmingham, AL, USAAbstract: Glaucoma disproportionately affects individual of African ancestry. Additionally, racial differences in the optic nerve head have been well described that may alter the vulnerability to intraocular pressure related injury and, in addition, alter the clinical ability to detect the presence of early optic nerve injury. This paper will review the literature describing racial differences in the optic nerve head between individuals of African and European ancestry with regards to the potential effects of these differences on the ability to detect glaucoma in different racial groups and to potential differences in the pathogenesis of glaucomatous injury.Keywords: primary open angle glaucoma, African American, optic nerve, optic disc, retinal nerve fiber layer

  12. Multiplex genotyping system for efficient inference of matrilineal genetic ancestry with continental resolution

    Directory of Open Access Journals (Sweden)

    van Oven Mannis

    2011-03-01

    Full Text Available Abstract Background In recent years, phylogeographic studies have produced detailed knowledge on the worldwide distribution of mitochondrial DNA (mtDNA variants, linking specific clades of the mtDNA phylogeny with certain geographic areas. However, a multiplex genotyping system for the detection of the mtDNA haplogroups of major continental distribution that would be desirable for efficient DNA-based bio-geographic ancestry testing in various applications is still missing. Results Three multiplex genotyping assays, based on single-base primer extension technology, were developed targeting a total of 36 coding-region mtDNA variants that together differentiate 43 matrilineal haplo-/paragroups. These include the major diagnostic haplogroups for Africa, Western Eurasia, Eastern Eurasia and Native America. The assays show high sensitivity with respect to the amount of template DNA: successful amplification could still be obtained when using as little as 4 pg of genomic DNA and the technology is suitable for medium-throughput analyses. Conclusions We introduce an efficient and sensitive multiplex genotyping system for bio-geographic ancestry inference from mtDNA that provides resolution on the continental level. The method can be applied in forensics, to aid tracing unknown suspects, as well as in population studies, genealogy and personal ancestry testing. For more complete inferences of overall bio-geographic ancestry from DNA, the mtDNA system provided here can be combined with multiplex systems for suitable autosomal and, in the case of males, Y-chromosomal ancestry-sensitive DNA markers.

  13. A genome-wide association study of breast cancer in women of African ancestry

    OpenAIRE

    Chen, Fang; Chen, Gary K.; Stram, Daniel O.; Millikan, Robert C.; Ambrosone, Christine B.; John, Esther M; Bernstein, Leslie; Zheng, Wei; Palmer, Julie R.; Jennifer J Hu; Rebbeck, Tim R.; Ziegler, Regina G.; Nyante, Sarah; Bandera, Elisa V.; Sue A Ingles

    2012-01-01

    Genome-wide association studies (GWAS) in diverse populations are needed to reveal variants that are more common and/or limited to defined populations. We conducted a GWAS of breast cancer in women of African ancestry, with genotyping of > 1,000,000 SNPs in 3,153 African American cases and 2,831 controls, and replication testing of the top 66 associations in an additional 3,607 breast cancer cases and 11,330 controls of African ancestry. Two of the 66 SNPs replicated (p < 0.05) in stage 2, wh...

  14. Genome-wide association analysis of blood-pressure traits in African-ancestry individuals reveals common associated genes in African and non-African populations.

    Science.gov (United States)

    Franceschini, Nora; Fox, Ervin; Zhang, Zhaogong; Edwards, Todd L; Nalls, Michael A; Sung, Yun Ju; Tayo, Bamidele O; Sun, Yan V; Gottesman, Omri; Adeyemo, Adebawole; Johnson, Andrew D; Young, J Hunter; Rice, Ken; Duan, Qing; Chen, Fang; Li, Yun; Tang, Hua; Fornage, Myriam; Keene, Keith L; Andrews, Jeanette S; Smith, Jennifer A; Faul, Jessica D; Guangfa, Zhang; Guo, Wei; Liu, Yu; Murray, Sarah S; Musani, Solomon K; Srinivasan, Sathanur; Velez Edwards, Digna R; Wang, Heming; Becker, Lewis C; Bovet, Pascal; Bochud, Murielle; Broeckel, Ulrich; Burnier, Michel; Carty, Cara; Chasman, Daniel I; Ehret, Georg; Chen, Wei-Min; Chen, Guanjie; Chen, Wei; Ding, Jingzhong; Dreisbach, Albert W; Evans, Michele K; Guo, Xiuqing; Garcia, Melissa E; Jensen, Rich; Keller, Margaux F; Lettre, Guillaume; Lotay, Vaneet; Martin, Lisa W; Moore, Jason H; Morrison, Alanna C; Mosley, Thomas H; Ogunniyi, Adesola; Palmas, Walter; Papanicolaou, George; Penman, Alan; Polak, Joseph F; Ridker, Paul M; Salako, Babatunde; Singleton, Andrew B; Shriner, Daniel; Taylor, Kent D; Vasan, Ramachandran; Wiggins, Kerri; Williams, Scott M; Yanek, Lisa R; Zhao, Wei; Zonderman, Alan B; Becker, Diane M; Berenson, Gerald; Boerwinkle, Eric; Bottinger, Erwin; Cushman, Mary; Eaton, Charles; Nyberg, Fredrik; Heiss, Gerardo; Hirschhron, Joel N; Howard, Virginia J; Karczewsk, Konrad J; Lanktree, Matthew B; Liu, Kiang; Liu, Yongmei; Loos, Ruth; Margolis, Karen; Snyder, Michael; Psaty, Bruce M; Schork, Nicholas J; Weir, David R; Rotimi, Charles N; Sale, Michele M; Harris, Tamara; Kardia, Sharon L R; Hunt, Steven C; Arnett, Donna; Redline, Susan; Cooper, Richard S; Risch, Neil J; Rao, D C; Rotter, Jerome I; Chakravarti, Aravinda; Reiner, Alex P; Levy, Daniel; Keating, Brendan J; Zhu, Xiaofeng

    2013-09-01

    High blood pressure (BP) is more prevalent and contributes to more severe manifestations of cardiovascular disease (CVD) in African Americans than in any other United States ethnic group. Several small African-ancestry (AA) BP genome-wide association studies (GWASs) have been published, but their findings have failed to replicate to date. We report on a large AA BP GWAS meta-analysis that includes 29,378 individuals from 19 discovery cohorts and subsequent replication in additional samples of AA (n = 10,386), European ancestry (EA) (n = 69,395), and East Asian ancestry (n = 19,601). Five loci (EVX1-HOXA, ULK4, RSPO3, PLEKHG1, and SOX6) reached genome-wide significance (p < 1.0 × 10(-8)) for either systolic or diastolic BP in a transethnic meta-analysis after correction for multiple testing. Three of these BP loci (EVX1-HOXA, RSPO3, and PLEKHG1) lack previous associations with BP. We also identified one independent signal in a known BP locus (SOX6) and provide evidence for fine mapping in four additional validated BP loci. We also demonstrate that validated EA BP GWAS loci, considered jointly, show significant effects in AA samples. Consequently, these findings suggest that BP loci might have universal effects across studied populations, demonstrating that multiethnic samples are an essential component in identifying, fine mapping, and understanding their trait variability.

  15. Validation of two prediction models of undiagnosed chronic kidney disease in mixed-ancestry South Africans

    OpenAIRE

    Mogueo, Amelie; Echouffo-Tcheugui, Justin B; Matsha, Tandi E.; Erasmus, Rajiv T; Kengne, Andre P.

    2015-01-01

    Background Chronic kidney disease (CKD) is a global challenge. Risk models to predict prevalent undiagnosed CKD have been published. However, none was developed or validated in an African population. We validated the Korean and Thai CKD prediction model in mixed-ancestry South Africans. Methods Discrimination and calibration were assessed overall and by major subgroups. CKD was defined as ‘estimated glomerular filtration rate (eGFR)

  16. Genetic ancestry, self-reported race and ethnicity in African Americans and European Americans in the PCaP cohort.

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    Lara E Sucheston

    Full Text Available BACKGROUND: Family history and African-American race are important risk factors for both prostate cancer (CaP incidence and aggressiveness. When studying complex diseases such as CaP that have a heritable component, chances of finding true disease susceptibility alleles can be increased by accounting for genetic ancestry within the population investigated. Race, ethnicity and ancestry were studied in a geographically diverse cohort of men with newly diagnosed CaP. METHODS: Individual ancestry (IA was estimated in the population-based North Carolina and Louisiana Prostate Cancer Project (PCaP, a cohort of 2,106 incident CaP cases (2063 with complete ethnicity information comprising roughly equal numbers of research subjects reporting as Black/African American (AA or European American/Caucasian/Caucasian American/White (EA from North Carolina or Louisiana. Mean genome wide individual ancestry estimates of percent African, European and Asian were obtained and tested for differences by state and ethnicity (Cajun and/or Creole and Hispanic/Latino using multivariate analysis of variance models. Principal components (PC were compared to assess differences in genetic composition by self-reported race and ethnicity between and within states. RESULTS: Mean individual ancestries differed by state for self-reporting AA (p = 0.03 and EA (p = 0.001. This geographic difference attenuated for AAs who answered "no" to all ethnicity membership questions (non-ethnic research subjects; p = 0.78 but not EA research subjects, p = 0.002. Mean ancestry estimates of self-identified AA Louisiana research subjects for each ethnic group; Cajun only, Creole only and both Cajun and Creole differed significantly from self-identified non-ethnic AA Louisiana research subjects. These ethnicity differences were not seen in those who self-identified as EA. CONCLUSIONS: Mean IA differed by race between states, elucidating a potential contributing factor to these differences in AA

  17. Paternal lineages signal distinct genetic contributions from British Loyalists and continental Africans among different Bahamian islands.

    Science.gov (United States)

    Simms, Tanya M; Martinez, Emanuel; Herrera, Kristian J; Wright, Marisil R; Perez, Omar A; Hernandez, Michelle; Ramirez, Evelyn C; McCartney, Quinn; Herrera, Rene J

    2011-12-01

    Over the past 500 years, the Bahamas has been influenced by a wide array of settlers, some of whom have left marked genetic imprints throughout the archipelago. To assess the extent of each group's genetic contributions, high-resolution Y-chromosome analyses were performed, for the first time, to delineate the patriarchal ancestry of six islands in the Northwest (Abaco and Grand Bahama) and Central (Eleuthera, Exuma, Long Island, and New Providence) Bahamas and their genetic relationships with previously published reference populations. Our results reveal genetic signals emanating primarily from African and European sources, with the predominantly sub-Saharan African and Western European haplogroups E1b1a-M2 and R1b1b1-M269, respectively, accounting for greater than 75% of all Bahamian patrilineages. Surprisingly, we observe notable discrepancies among the six Bahamian populations in their distribution of these lineages, with E1b1a-M2 predominating Y-chromosomes in the collections from Abaco, Exuma, Eleuthera, Grand Bahama, and New Providence, whereas R1b1b1-M269 is found at elevated levels in the Long Island population. Substantial Y-STR haplotype variation within sub-haplogroups E1b1a7a-U174 and E1b1ba8-U175 (greater than any continental African collection) is also noted, possibly indicating genetic influences from a variety of West and Central African groups. Furthermore, differential European genetic contributions in each island (with the exception of Exuma) reflect settlement patterns of the British Loyalists subsequent to the American Revolution.

  18. A meta-analysis identifies new loci associated with body mass index in individuals of African ancestry

    NARCIS (Netherlands)

    Monda, Keri L.; Chen, Gary K.; Taylor, Kira C.; Palmer, Cameron; Edwards, Todd L.; Lange, Leslie A.; Ng, Maggie C. Y.; Adeyemo, Adebowale A.; Allison, Matthew A.; Bielak, Lawrence F.; Chen, Guanjie; Graff, Mariaelisa; Irvin, Marguerite R.; Rhie, Suhn K.; Li, Guo; Liu, Yongmei; Liu, Youfang; Lu, Yingchang; Nalls, Michael A.; Sun, Yan V.; Wojczynski, Mary K.; Yanek, Lisa R.; Aldrich, Melinda C.; Ademola, Adeyinka; Amos, Christopher I.; Bandera, Elisa V.; Bock, Cathryn H.; Britton, Angela; Broeckel, Ulrich; Cai, Quiyin; Caporaso, Neil E.; Carlson, Chris S.; Carpten, John; Casey, Graham; Chen, Wei-Min; Chen, Fang; Chen, Yii-Der I.; Chiang, Charleston W. K.; Coetzee, Gerhard A.; Demerath, Ellen; Deming-Halverson, Sandra L.; Driver, Ryan W.; Dubbert, Patricia; Feitosa, Mary F.; Feng, Ye; Freedman, Barry I.; Gillanders, Elizabeth M.; Gottesman, Omri; Guo, Xiuqing; Haritunians, Talin; Harris, Tamara; Harris, Curtis C.; Hennis, Anselm J. M.; Hernandez, Dena G.; McNeill, Lorna H.; Howard, Timothy D.; Howard, Barbara V.; Howard, Virginia J.; Johnson, Karen C.; Kang, Sun J.; Keating, Brendan J.; Kolb, Suzanne; Kuller, Lewis H.; Kutlar, Abdullah; Langefeld, Carl D.; Lettre, Guillaume; Lohman, Kurt; Lotay, Vaneet; Lyon, Helen; Manson, Joann E.; Maixner, William; Meng, Yan A.; Monroe, Kristine R.; Morhason-Bello, Imran; Murphy, Adam B.; Mychaleckyj, Josyf C.; Nadukuru, Rajiv; Nathanson, Katherine L.; Nayak, Uma; N'Diaye, Amidou; Nemesure, Barbara; Wu, Suh-Yuh; Leske, M. Cristina; Neslund-Dudas, Christine; Neuhouser, Marian; Nyante, Sarah; Ochs-Balcom, Heather; Ogunniyi, Adesola; Ogundiran, Temidayo O.; Ojengbede, Oladosu; Olopade, Olufunmilayo I.; Palmer, Julie R.; Ruiz-Narvaez, Edward A.; Palmer, Nicholette D.; Press, Michael F.; Rampersaud, Evandine; Rasmussen-Torvik, Laura J.; Rodriguez-Gil, Jorge L.; Salako, Babatunde; Schadt, Eric E.; Schwartz, Ann G.; Shriner, Daniel A.; Siscovick, David; Smith, Shad B.; Wassertheil-Smoller, Sylvia; Speliotes, Elizabeth K.; Spitz, Margaret R.; Sucheston, Lara; Taylor, Herman; Tayo, Bamidele O.; Tucker, Margaret A.; Van Den Berg, David J.; Edwards, Digna R. Velez; Wang, Zhaoming; Wiencke, John K.; Winkler, Thomas W.; Witte, John S.; Wrensch, Margaret; Wu, Xifeng; Yang, James J.; Levin, Albert M.; Young, Taylor R.; Zakai, Neil A.; Cushman, Mary; Zanetti, Krista A.; Zhao, Jing Hua; Zhao, Wei; Zheng, Yonglan; Zhou, Jie; Ziegler, Regina G.; Zmuda, Joseph M.; Fernandes, Jyotika K.; Gilkeson, Gary S.; Kamen, Diane L.; Hunt, Kelly J.; Spruill, Ida J.; Ambrosone, Christine B.; Ambs, Stefan; Arnett, Donna K.; Atwood, Larry; Becker, Diane M.; Berndt, Sonja I.; Bernstein, Leslie; Blot, William J.; Borecki, Ingrid B.; Bottinger, Erwin P.; Bowden, Donald W.; Burke, Gregory; Chanock, Stephen J.; Cooper, Richard S.; Ding, Jingzhong; Duggan, David; Evans, Michele K.; Fox, Caroline; Garvey, W. Timothy; Bradfield, Jonathan P.; Hakonarson, Hakon; Grant, Struan F. A.; Hsing, Ann; Chu, Lisa; Hu, Jennifer J.; Huo, Dezheng; Ingles, Sue A.; John, Esther M.; Jordan, Joanne M.; Kabagambe, Edmond K.; Kardia, Sharon L. R.; Kittles, Rick A.; Goodman, Phyllis J.; Klein, Eric A.; Kolonel, Laurence N.; Le Marchand, Loic; Liu, Simin; McKnight, Barbara; Millikan, Robert C.; Mosley, Thomas H.; Padhukasahasram, Badri; Williams, L. Keoki; Patel, Sanjay R.; Peters, Ulrike; Pettaway, Curtis A.; Peyser, Patricia A.; Psaty, Bruce M.; Redline, Susan; Rotimi, Charles N.; Rybicki, Benjamin A.; Sale, Michele M.; Schreiner, Pamela J.; Signorello, Lisa B.; Singleton, Andrew B.; Stanford, Janet L.; Strom, Sara S.; Thun, Michael J.; Vitolins, Mara; Zheng, Wei; Moore, Jason H.; Williams, Scott M.; Ketkar, Shamika; Zhu, Xiaofeng; Zonderman, Alan B.; Kooperberg, Charles; Papanicolaou, George J.; Henderson, Brian E.; Reiner, Alex P.; Hirschhorn, Joel N.; Loos, Ruth J. F.; North, Kari E.; Haiman, Christopher A.

    2013-01-01

    Genome-wide association studies (GWAS) have identified 36 loci associated with body mass index (BMI), predominantly in populations of European ancestry. We conducted a meta-analysis to examine the association of >3.2 million SNPs with BMI in 39,144 men and women of African ancestry and followed up t

  19. Genome-Wide Association of Body Fat Distribution in African Ancestry Populations Suggests New Loci

    OpenAIRE

    Liu, Ching-Ti; Keri L Monda; Taylor, Kira C.; Lange, Leslie; Demerath, Ellen W; Palmas, Walter; Wojczynski, Mary K.; Jaclyn C Ellis; Mara Z Vitolins; Liu, Simin; Papanicolaou, George J.; Irvin, Marguerite R.; Xue, Luting; Griffin, Paula J.; Michael A Nalls

    2013-01-01

    Central obesity, measured by waist circumference (WC) or waist-hip ratio (WHR), is a marker of body fat distribution. Although obesity disproportionately affects minority populations, few studies have conducted genome-wide association study (GWAS) of fat distribution among those of predominantly African ancestry (AA). We performed GWAS of WC and WHR, adjusted and unadjusted for BMI, in up to 33,591 and 27,350 AA individuals, respectively. We identified loci associated with fat distribution in...

  20. Genetic association for renal traits among participants of African ancestry reveals new loci for renal function.

    Directory of Open Access Journals (Sweden)

    Ching-Ti Liu

    2011-09-01

    Full Text Available Chronic kidney disease (CKD is an increasing global public health concern, particularly among populations of African ancestry. We performed an interrogation of known renal loci, genome-wide association (GWA, and IBC candidate-gene SNP association analyses in African Americans from the CARe Renal Consortium. In up to 8,110 participants, we performed meta-analyses of GWA and IBC array data for estimated glomerular filtration rate (eGFR, CKD (eGFR 30 mg/g and interrogated the 250 kb flanking region around 24 SNPs previously identified in European Ancestry renal GWAS analyses. Findings were replicated in up to 4,358 African Americans. To assess function, individually identified genes were knocked down in zebrafish embryos by morpholino antisense oligonucleotides. Expression of kidney-specific genes was assessed by in situ hybridization, and glomerular filtration was evaluated by dextran clearance. Overall, 23 of 24 previously identified SNPs had direction-consistent associations with eGFR in African Americans, 2 of which achieved nominal significance (UMOD, PIP5K1B. Interrogation of the flanking regions uncovered 24 new index SNPs in African Americans, 12 of which were replicated (UMOD, ANXA9, GCKR, TFDP2, DAB2, VEGFA, ATXN2, GATM, SLC22A2, TMEM60, SLC6A13, and BCAS3. In addition, we identified 3 suggestive loci at DOK6 (p-value = 5.3×10(-7 and FNDC1 (p-value = 3.0×10(-7 for UACR, and KCNQ1 with eGFR (p = 3.6×10(-6. Morpholino knockdown of kcnq1 in the zebrafish resulted in abnormal kidney development and filtration capacity. We identified several SNPs in association with eGFR in African Ancestry individuals, as well as 3 suggestive loci for UACR and eGFR. Functional genetic studies support a role for kcnq1 in glomerular development in zebrafish.

  1. The Role of Adipose Tissue in Insulin Resistance in Women of African Ancestry

    Directory of Open Access Journals (Sweden)

    Julia H. Goedecke

    2013-01-01

    Full Text Available Women of African ancestry, particularly those living in industrialized countries, experience a disproportionately higher prevalence of type 2 diabetes (T2D compared to their white counterparts. Similarly, obesity and insulin resistance, which are major risk factors for T2D, are greater in black compared to white women. The exact mechanisms underlying these phenomena are not known. This paper will focus on the role of adipose tissue biology. Firstly, the characteristic body fat distribution of women of African ancestry will be discussed, followed by the depot-specific associations with insulin resistance. Factors involved in adipose tissue biology and their relation to insulin sensitivity will then be explored, including the role of sex hormones, glucocorticoid metabolism, lipolysis and adipogenesis, and their consequent effects on adipose tissue hypoxia, oxidative stress, and inflammation. Finally the role of ectopic fat deposition will be discussed. The paper proposes directions for future research, in particular highlighting the need for longitudinal and/or intervention studies to better understand the mechanisms underlying the high prevalence of insulin resistance and T2D in women of African ancestry.

  2. A Meta-Analysis Identifies New Loci Associated with Body Mass index in Individuals of African Ancestry

    OpenAIRE

    Keri L Monda; Chen, Gary K.; Taylor, Kira C.; Palmer, Cameron; Edwards, Todd L.; Lange, Leslie A.; Ng, Maggie C. Y.; Adeyemo, Adebowale A.; Allison, Matthew A.; Bielak, Lawrence F; Chen, Guanji; Graff, Mariaelisa; Irvin, Marguerite R.; Rhie, Suhn K.; Li, Guo

    2013-01-01

    Genome-wide association studies (GWAS) have identified 36 loci associated with body mass index (BMI), predominantly in populations of European ancestry. We conducted a meta-analysis to examine the association of >3.2 million SNPs with BMI in 39,144 men and women of African ancestry, and followed up the most significant associations in an additional 32,268 individuals of African ancestry. We identified one novel locus at 5q33 (GALNT10, rs7708584, p=3.4×10−11) and another at 7p15 when combined ...

  3. Patterns of ancestry, signatures of natural selection, and genetic association with stature in Western African pygmies.

    Directory of Open Access Journals (Sweden)

    Joseph P Jarvis

    Full Text Available African Pygmy groups show a distinctive pattern of phenotypic variation, including short stature, which is thought to reflect past adaptation to a tropical environment. Here, we analyze Illumina 1M SNP array data in three Western Pygmy populations from Cameroon and three neighboring Bantu-speaking agricultural populations with whom they have admixed. We infer genome-wide ancestry, scan for signals of positive selection, and perform targeted genetic association with measured height variation. We identify multiple regions throughout the genome that may have played a role in adaptive evolution, many of which contain loci with roles in growth hormone, insulin, and insulin-like growth factor signaling pathways, as well as immunity and neuroendocrine signaling involved in reproduction and metabolism. The most striking results are found on chromosome 3, which harbors a cluster of selection and association signals between approximately 45 and 60 Mb. This region also includes the positional candidate genes DOCK3, which is known to be associated with height variation in Europeans, and CISH, a negative regulator of cytokine signaling known to inhibit growth hormone-stimulated STAT5 signaling. Finally, pathway analysis for genes near the strongest signals of association with height indicates enrichment for loci involved in insulin and insulin-like growth factor signaling.

  4. Patterns of ancestry, signatures of natural selection, and genetic association with stature in Western African pygmies.

    Science.gov (United States)

    Jarvis, Joseph P; Scheinfeldt, Laura B; Soi, Sameer; Lambert, Charla; Omberg, Larsson; Ferwerda, Bart; Froment, Alain; Bodo, Jean-Marie; Beggs, William; Hoffman, Gabriel; Mezey, Jason; Tishkoff, Sarah A

    2012-01-01

    African Pygmy groups show a distinctive pattern of phenotypic variation, including short stature, which is thought to reflect past adaptation to a tropical environment. Here, we analyze Illumina 1M SNP array data in three Western Pygmy populations from Cameroon and three neighboring Bantu-speaking agricultural populations with whom they have admixed. We infer genome-wide ancestry, scan for signals of positive selection, and perform targeted genetic association with measured height variation. We identify multiple regions throughout the genome that may have played a role in adaptive evolution, many of which contain loci with roles in growth hormone, insulin, and insulin-like growth factor signaling pathways, as well as immunity and neuroendocrine signaling involved in reproduction and metabolism. The most striking results are found on chromosome 3, which harbors a cluster of selection and association signals between approximately 45 and 60 Mb. This region also includes the positional candidate genes DOCK3, which is known to be associated with height variation in Europeans, and CISH, a negative regulator of cytokine signaling known to inhibit growth hormone-stimulated STAT5 signaling. Finally, pathway analysis for genes near the strongest signals of association with height indicates enrichment for loci involved in insulin and insulin-like growth factor signaling.

  5. Outlining the Ancestry Landscape of Colombian Admixed Populations

    Science.gov (United States)

    Ossa, Humberto; Aquino, Juliana; Pereira, Rui; Ibarra, Adriana; Ossa, Rafael H; Pérez, Luz Adriana; Granda, Juan David; Lattig, Maria Claudia; Groot, Helena; Fagundes de Carvalho, Elizeu; Gusmão, Leonor

    2016-01-01

    The ancestry of the Colombian population comprises a large number of well differentiated Native communities belonging to diverse linguistic groups. In the late fifteenth century, a process of admixture was initiated with the arrival of the Europeans, and several years later, Africans also became part of the Colombian population. Therefore, the genepool of the current Colombian population results from the admixture of Native Americans, Europeans and Africans. This admixture occurred differently in each region of the country, producing a clearly stratified population. Considering the importance of population substructure in both clinical and forensic genetics, we sought to investigate and compare patterns of genetic ancestry in Colombia by studying samples from Native and non-Native populations living in its 5 continental regions: the Andes, Caribe, Amazonia, Orinoquía, and Pacific regions. For this purpose, 46 AIM-Indels were genotyped in 761 non-related individuals from current populations. Previously published genotype data from 214 Colombian Natives from five communities were used for population comparisons. Significant differences were observed between Native and non-Native populations, among non-Native populations from different regions and among Native populations from different ethnic groups. The Pacific was the region with the highest African ancestry, Amazonia harboured the highest Native ancestry and the Andean and Orinoquían regions showed the highest proportion of European ancestry. The Andean region was further sub-divided into 6 sub-regions: North East, Central West, Central East, West, South West and South East. Among these regions, the South West region showed a significantly lower European admixture than the other regions. Hardy-Weinberg equilibrium and variance values of ancestry among individuals within populations showed a potential stratification of the Pacific population. PMID:27736937

  6. Screening for the beta-thalassaemia trait: hazards among populations of West African Ancestry

    OpenAIRE

    Gibson, Felicea; Mason, Karlene; Serjeant, Beryl; Kulozik, Andreas; Happich, Margit; Tolle, Gabriele; Hambleton, Ian; Serjeant, Graham

    2011-01-01

    The aim of this study was to examine the accuracy and characteristics of detecting the beta-thalassaemia trait in populations of West African ancestry. School children, aged 16–19 years, in Manchester Parish, Jamaica were screened to detect the genes which could give rise to offspring with sickle cell disease. Haematological indices and HbA2 levels in subjects with an MCH ≤ 26 pg and an RDW G in 19 (25%), −90 C>T in 7 (9%), the IVS II-849 A>G in 5 (6%) with smaller contributions from five oth...

  7. Prostate Cancer Susceptibility in Men of African Ancestry at 8q24.

    Science.gov (United States)

    Han, Ying; Rand, Kristin A; Hazelett, Dennis J; Ingles, Sue A; Kittles, Rick A; Strom, Sara S; Rybicki, Benjamin A; Nemesure, Barbara; Isaacs, William B; Stanford, Janet L; Zheng, Wei; Schumacher, Fredrick R; Berndt, Sonja I; Wang, Zhaoming; Xu, Jianfeng; Rohland, Nadin; Reich, David; Tandon, Arti; Pasaniuc, Bogdan; Allen, Alex; Quinque, Dominique; Mallick, Swapan; Notani, Dimple; Rosenfeld, Michael G; Jayani, Ranveer Singh; Kolb, Suzanne; Gapstur, Susan M; Stevens, Victoria L; Pettaway, Curtis A; Yeboah, Edward D; Tettey, Yao; Biritwum, Richard B; Adjei, Andrew A; Tay, Evelyn; Truelove, Ann; Niwa, Shelley; Chokkalingam, Anand P; John, Esther M; Murphy, Adam B; Signorello, Lisa B; Carpten, John; Leske, M Cristina; Wu, Suh-Yuh; Hennis, Anslem J M; Neslund-Dudas, Christine; Hsing, Ann W; Chu, Lisa; Goodman, Phyllis J; Klein, Eric A; Zheng, S Lilly; Witte, John S; Casey, Graham; Lubwama, Alex; Pooler, Loreall C; Sheng, Xin; Coetzee, Gerhard A; Cook, Michael B; Chanock, Stephen J; Stram, Daniel O; Watya, Stephen; Blot, William J; Conti, David V; Henderson, Brian E; Haiman, Christopher A

    2016-07-01

    The 8q24 region harbors multiple risk variants for distinct cancers, including >8 for prostate cancer. In this study, we conducted fine mapping of the 8q24 risk region (127.8-128.8Mb) in search of novel associations with common and rare variation in 4853 prostate cancer case patients and 4678 control subjects of African ancestry. All statistical tests were two-sided. We identified three independent associations at P values of less than 5.00×10(-8), all of which were replicated in studies from Ghana and Uganda (combined sample = 5869 case patients, 5615 control subjects; rs114798100: risk allele frequency [RAF] = 0.04, per-allele odds ratio [OR] = 2.31, 95% confidence interval [CI] = 2.04 to 2.61, P = 2.38×10(-40); rs72725879: RAF = 0.33, OR = 1.37, 95% CI = 1.30 to 1.45, P = 3.04×10(-27); and rs111906932: RAF = 0.03, OR = 1.79, 95% CI = 1.53 to 2.08, P = 1.39×10(-13)). Risk variants rs114798100 and rs111906923 are only found in men of African ancestry, with rs111906923 representing a novel association signal. The three variants are located within or near a number of prostate cancer-associated long noncoding RNAs (lncRNAs), including PRNCR1, PCAT1, and PCAT2. These findings highlight ancestry-specific risk variation and implicate prostate-specific lncRNAs at the 8q24 prostate cancer susceptibility region.

  8. Ancestry analysis reveals a predominant Native American component with moderate European admixture in Bolivians.

    Science.gov (United States)

    Heinz, Tanja; Alvarez-Iglesias, Vanesa; Pardo-Seco, Jacobo; Taboada-Echalar, Patricia; Gómez-Carballa, Alberto; Torres-Balanza, Antonio; Rocabado, Omar; Carracedo, Angel; Vullo, Carlos; Salas, Antonio

    2013-09-01

    We have genotyped 46 Ancestry Informative Markers (AIMs) in two of the most populated areas in Bolivia, namely, La Paz (Andean region; n=105), and Chuquisaca (Sub-Andean region; n=73). Using different analytical tools, we inferred admixture proportions of these two American communities by comparing the genetic profiles with those publicly available from the CEPH (Centre d'Etude du Polymorphisme Humain) panel representing three main continental groups (Africa, Europe, and America). By way of simulations, we first evaluated the minimum sample size needed in order to obtain accurate estimates of ancestry proportions. The results indicated that sample sizes above 30 individuals could be large enough to estimate main continental ancestry proportions using the 46 AIMs panel. With the exception of a few individuals, the results also indicated that Bolivians showed a predominantly Native American ancestry with variable levels of European admixture. The proportions of ancestry were statistically different in La Paz and Chuquisaca: the Native American component was 86% and 77% (Mann-Whitney U-test: un-adjusted P-value=2.1×10(-5)), while the European ancestry was 13% and 21% (Mann-Whitney U-test: un-adjusted P-value=3.6×10(-5)), respectively. The African ancestry in Bolivians captured by the AIMs analyzed in the present study was below 2%. The inferred ancestry of Bolivians fits well with previous studies undertaken on haplotype data, indicating a major proportion of Native American lineages. The genetic differences observed in these two groups suggest that forensic genetic analysis should be better performed based on local databases built in the main Bolivian areas.

  9. African Ancestry, Social Factors, and Hypertension Among Non-Hispanic Blacks in the Health and Retirement Study.

    Science.gov (United States)

    Marden, Jessica R; Walter, Stefan; Kaufman, Jay S; Glymour, M Maria

    2016-01-01

    The biomedical literature contains much speculation about possible genetic explanations for the large and persistent black-white disparities in hypertension, but profound social inequalities are also hypothesized to contribute to this outcome. Our goal is to evaluate whether socioeconomic status (SES) differences provide a plausible mechanism for associations between African ancestry and hypertension in a U.S. cohort of older non-Hispanic blacks. We included only non-Hispanic black participants (N = 998) from the Health and Retirement Study who provided genetic data. We estimated percent African ancestry based on 84,075 independent single nucleotide polymorphisms using ADMIXTURE V1.23, imposing K = 4 ancestral populations, and categorized into quartiles. Hypertension status was self-reported in the year 2000. We used linear probability models (adjusted for age, sex, and southern birth) to predict prevalent hypertension with African ancestry quartile, before and after accounting for a small set of SES measures. Respondents with the highest quartile of African ancestry had 8 percentage points' (RD = 0.081; 95% CI: -0.001, 0.164) higher prevalence of hypertension compared to the lowest quartile. Adjustment for childhood disadvantage, education, income, and wealth explained over one-third (RD = 0.050; 95% CI: -0.034, 0.135) of the disparity. Explanations for the residual disparity remain unspecified and may include other indicators of SES or diet, lifestyle, and psychosocial mechanisms. PMID:27050031

  10. Estimates of Continental Ancestry Vary Widely among Individuals with the Same mtDNA Haplogroup

    OpenAIRE

    Emery, Leslie S.; Magnaye, Kevin M.; Bigham, Abigail W.; Akey, Joshua M.; Bamshad, Michael J.

    2015-01-01

    The association between a geographical region and an mtDNA haplogroup(s) has provided the basis for using mtDNA haplogroups to infer an individual’s place of origin and genetic ancestry. Although it is well known that ancestry inferences using mtDNA haplogroups and those using genome-wide markers are frequently discrepant, little empirical information exists on the magnitude and scope of such discrepancies between multiple mtDNA haplogroups and worldwide populations. We compared genetic-ances...

  11. Developing a set of ancestry-sensitive DNA markers reflecting continental origins of humans

    NARCIS (Netherlands)

    P. Kersbergen (Paula); K. van Duijn (Kate); A. Kloosterman (Ate); J.T. den Dunnen (Johan); M.H. Kayser (Manfred); P. de Knijff (Peter)

    2009-01-01

    textabstractBackground: The identification and use of Ancestry-Sensitive Markers (ASMs), i.e. genetic polymorphisms facilitating the genetic reconstruction of geographical origins of individuals, is far from straightforward. Results: Here we describe the ascertainment and application of five differe

  12. A meta-analysis identifies new loci associated with body mass index in individuals of African ancestry.

    Science.gov (United States)

    Monda, Keri L; Chen, Gary K; Taylor, Kira C; Palmer, Cameron; Edwards, Todd L; Lange, Leslie A; Ng, Maggie C Y; Adeyemo, Adebowale A; Allison, Matthew A; Bielak, Lawrence F; Chen, Guanjie; Graff, Mariaelisa; Irvin, Marguerite R; Rhie, Suhn K; Li, Guo; Liu, Yongmei; Liu, Youfang; Lu, Yingchang; Nalls, Michael A; Sun, Yan V; Wojczynski, Mary K; Yanek, Lisa R; Aldrich, Melinda C; Ademola, Adeyinka; Amos, Christopher I; Bandera, Elisa V; Bock, Cathryn H; Britton, Angela; Broeckel, Ulrich; Cai, Quiyin; Caporaso, Neil E; Carlson, Chris S; Carpten, John; Casey, Graham; Chen, Wei-Min; Chen, Fang; Chen, Yii-Der I; Chiang, Charleston W K; Coetzee, Gerhard A; Demerath, Ellen; Deming-Halverson, Sandra L; Driver, Ryan W; Dubbert, Patricia; Feitosa, Mary F; Feng, Ye; Freedman, Barry I; Gillanders, Elizabeth M; Gottesman, Omri; Guo, Xiuqing; Haritunians, Talin; Harris, Tamara; Harris, Curtis C; Hennis, Anselm J M; Hernandez, Dena G; McNeill, Lorna H; Howard, Timothy D; Howard, Barbara V; Howard, Virginia J; Johnson, Karen C; Kang, Sun J; Keating, Brendan J; Kolb, Suzanne; Kuller, Lewis H; Kutlar, Abdullah; Langefeld, Carl D; Lettre, Guillaume; Lohman, Kurt; Lotay, Vaneet; Lyon, Helen; Manson, Joann E; Maixner, William; Meng, Yan A; Monroe, Kristine R; Morhason-Bello, Imran; Murphy, Adam B; Mychaleckyj, Josyf C; Nadukuru, Rajiv; Nathanson, Katherine L; Nayak, Uma; N'diaye, Amidou; Nemesure, Barbara; Wu, Suh-Yuh; Leske, M Cristina; Neslund-Dudas, Christine; Neuhouser, Marian; Nyante, Sarah; Ochs-Balcom, Heather; Ogunniyi, Adesola; Ogundiran, Temidayo O; Ojengbede, Oladosu; Olopade, Olufunmilayo I; Palmer, Julie R; Ruiz-Narvaez, Edward A; Palmer, Nicholette D; Press, Michael F; Rampersaud, Evandine; Rasmussen-Torvik, Laura J; Rodriguez-Gil, Jorge L; Salako, Babatunde; Schadt, Eric E; Schwartz, Ann G; Shriner, Daniel A; Siscovick, David; Smith, Shad B; Wassertheil-Smoller, Sylvia; Speliotes, Elizabeth K; Spitz, Margaret R; Sucheston, Lara; Taylor, Herman; Tayo, Bamidele O; Tucker, Margaret A; Van Den Berg, David J; Edwards, Digna R Velez; Wang, Zhaoming; Wiencke, John K; Winkler, Thomas W; Witte, John S; Wrensch, Margaret; Wu, Xifeng; Yang, James J; Levin, Albert M; Young, Taylor R; Zakai, Neil A; Cushman, Mary; Zanetti, Krista A; Zhao, Jing Hua; Zhao, Wei; Zheng, Yonglan; Zhou, Jie; Ziegler, Regina G; Zmuda, Joseph M; Fernandes, Jyotika K; Gilkeson, Gary S; Kamen, Diane L; Hunt, Kelly J; Spruill, Ida J; Ambrosone, Christine B; Ambs, Stefan; Arnett, Donna K; Atwood, Larry; Becker, Diane M; Berndt, Sonja I; Bernstein, Leslie; Blot, William J; Borecki, Ingrid B; Bottinger, Erwin P; Bowden, Donald W; Burke, Gregory; Chanock, Stephen J; Cooper, Richard S; Ding, Jingzhong; Duggan, David; Evans, Michele K; Fox, Caroline; Garvey, W Timothy; Bradfield, Jonathan P; Hakonarson, Hakon; Grant, Struan F A; Hsing, Ann; Chu, Lisa; Hu, Jennifer J; Huo, Dezheng; Ingles, Sue A; John, Esther M; Jordan, Joanne M; Kabagambe, Edmond K; Kardia, Sharon L R; Kittles, Rick A; Goodman, Phyllis J; Klein, Eric A; Kolonel, Laurence N; Le Marchand, Loic; Liu, Simin; McKnight, Barbara; Millikan, Robert C; Mosley, Thomas H; Padhukasahasram, Badri; Williams, L Keoki; Patel, Sanjay R; Peters, Ulrike; Pettaway, Curtis A; Peyser, Patricia A; Psaty, Bruce M; Redline, Susan; Rotimi, Charles N; Rybicki, Benjamin A; Sale, Michèle M; Schreiner, Pamela J; Signorello, Lisa B; Singleton, Andrew B; Stanford, Janet L; Strom, Sara S; Thun, Michael J; Vitolins, Mara; Zheng, Wei; Moore, Jason H; Williams, Scott M; Ketkar, Shamika; Zhu, Xiaofeng; Zonderman, Alan B; Kooperberg, Charles; Papanicolaou, George J; Henderson, Brian E; Reiner, Alex P; Hirschhorn, Joel N; Loos, Ruth J F; North, Kari E; Haiman, Christopher A

    2013-06-01

    Genome-wide association studies (GWAS) have identified 36 loci associated with body mass index (BMI), predominantly in populations of European ancestry. We conducted a meta-analysis to examine the association of >3.2 million SNPs with BMI in 39,144 men and women of African ancestry and followed up the most significant associations in an additional 32,268 individuals of African ancestry. We identified one new locus at 5q33 (GALNT10, rs7708584, P = 3.4 × 10(-11)) and another at 7p15 when we included data from the GIANT consortium (MIR148A-NFE2L3, rs10261878, P = 1.2 × 10(-10)). We also found suggestive evidence of an association at a third locus at 6q16 in the African-ancestry sample (KLHL32, rs974417, P = 6.9 × 10(-8)). Thirty-two of the 36 previously established BMI variants showed directionally consistent effect estimates in our GWAS (binomial P = 9.7 × 10(-7)), five of which reached genome-wide significance. These findings provide strong support for shared BMI loci across populations, as well as for the utility of studying ancestrally diverse populations.

  13. From Continental Priorities to Local Conservation: A Multi-Level Analysis for African Tortoises

    OpenAIRE

    Pierluigi Bombi; Manuela D'Amen; Luca Luiselli

    2013-01-01

    Terrestrial tortoises are the most endangered group of vertebrates but they are still largely ignored for defining global conservation priorities. In this paper, we explored within a hierarchical framework the potential contribution of prioritization studies at the continental scale to the planning of local initiatives for the conservation of African tortoises at the regional level. First, we modeled the distribution of all the African tortoise species, we calculated three indicators of conse...

  14. Association between Plasma 25-Hydroxyvitamin D, Ancestry and Aggressive Prostate Cancer among African Americans and European Americans in PCaP.

    Directory of Open Access Journals (Sweden)

    Susan E Steck

    Full Text Available African Americans (AAs have lower circulating 25-hydroxyvitamin D3 [25(OHD3] concentrations and higher prostate cancer (CaP aggressiveness than other racial/ethnic groups. The purpose of the current study was to examine the relationship between plasma 25(OHD3, African ancestry and CaP aggressiveness among AAs and European Americans (EAs.Plasma 25(OHD3 was measured using LC-MS/MS (Liquid Chromatography Tandem Mass Spectrometry in 537 AA and 663 EA newly-diagnosed CaP patients from the North Carolina-Louisiana Prostate Cancer Project (PCaP classified as having either 'high' or 'low' aggressive disease based on clinical stage, Gleason grade and prostate specific antigen at diagnosis. Mean plasma 25(OHD3 concentrations were compared by proportion of African ancestry. Logistic regression was used to calculate multivariable adjusted odds ratios (OR and 95% confidence intervals (95%CI for high aggressive CaP by tertile of plasma 25(OHD3.AAs with highest percent African ancestry (>95% had the lowest mean plasma 25(OHD3 concentrations. Overall, plasma 25(OHD3 was associated positively with aggressiveness among AA men, an association that was modified by calcium intake (ORT 3vs.T1: 2.23, 95%CI: 1.26-3.95 among men with low calcium intake, and ORT 3vs.T1: 0.19, 95%CI: 0.05-0.70 among men with high calcium intake. Among EAs, the point estimates of the ORs were <1.0 for the upper tertiles with CIs that included the null.Among AAs, plasma 25(OHD3 was associated positively with CaP aggressiveness among men with low calcium intake and inversely among men with high calcium intake. The clinical significance of circulating concentrations of 25(OHD3 and interactions with calcium intake in the AA population warrants further study.

  15. Straightforward inference of ancestry and admixture proportions through ancestry-informative insertion deletion multiplexing.

    Directory of Open Access Journals (Sweden)

    Rui Pereira

    Full Text Available Ancestry-informative markers (AIMs show high allele frequency divergence between different ancestral or geographically distant populations. These genetic markers are especially useful in inferring the likely ancestral origin of an individual or estimating the apportionment of ancestry components in admixed individuals or populations. The study of AIMs is of great interest in clinical genetics research, particularly to detect and correct for population substructure effects in case-control association studies, but also in population and forensic genetics studies. This work presents a set of 46 ancestry-informative insertion deletion polymorphisms selected to efficiently measure population admixture proportions of four different origins (African, European, East Asian and Native American. All markers are analyzed in short fragments (under 230 basepairs through a single PCR followed by capillary electrophoresis (CE allowing a very simple one tube PCR-to-CE approach. HGDP-CEPH diversity panel samples from the four groups, together with Oceanians, were genotyped to evaluate the efficiency of the assay in clustering populations from different continental origins and to establish reference databases. In addition, other populations from diverse geographic origins were tested using the HGDP-CEPH samples as reference data. The results revealed that the AIM-INDEL set developed is highly efficient at inferring the ancestry of individuals and provides good estimates of ancestry proportions at the population level. In conclusion, we have optimized the multiplexed genotyping of 46 AIM-INDELs in a simple and informative assay, enabling a more straightforward alternative to the commonly available AIM-SNP typing methods dependent on complex, multi-step protocols or implementation of large-scale genotyping technologies.

  16. Junctophilin 3 (JPH3) expansion mutations causing Huntington disease like 2 (HDL2) are common in South African patients with African ancestry and a Huntington disease phenotype.

    Science.gov (United States)

    Krause, Amanda; Mitchell, Claire; Essop, Fahmida; Tager, Susan; Temlett, James; Stevanin, Giovanni; Ross, Christopher; Rudnicki, Dobrila; Margolis, Russell

    2015-10-01

    Huntington disease (HD) is a progressive autosomal dominant neurodegenerative disorder, characterized by abnormal movements, cognitive decline, and psychiatric symptoms, caused by a CAG repeat expansion in the huntingtin (HTT) gene on chromosome 4p. A CAG/CTG repeat expansion in the junctophilin-3 (JPH3) gene on chromosome 16q24.2 causes a Huntington disease-like phenotype (HDL2). All patients to date with HDL2 have some African ancestry. The present study aimed to characterize the genetic basis of the Huntington disease phenotype in South Africans and to investigate the possible origin of the JPH3 mutation. In a sample of unrelated South African individuals referred for diagnostic HD testing, 62% (106/171) of white patients compared to only 36% (47/130) of black patients had an expansion in HTT. However, 15% (20/130) of black South African patients and no white patients (0/171) had an expansion in JPH3, confirming the diagnosis of Huntington disease like 2 (HDL2). Individuals with HDL2 share many clinical features with individuals with HD and are clinically indistinguishable in many cases, although the average age of onset and diagnosis in HDL2 is 5 years later than HD and individual clinical features may be more prominent. HDL2 mutations contribute significantly to the HD phenotype in South Africans with African ancestry. JPH3 haplotype studies in 31 families, mainly from South Africa and North America, provide evidence for a founder mutation and support a common African origin for all HDL2 patients. Molecular testing in individuals with an HD phenotype and African ancestry should include testing routinely for JPH3 mutations.

  17. Genome-wide association of body fat distribution in African ancestry populations suggests new loci.

    Directory of Open Access Journals (Sweden)

    Ching-Ti Liu

    Full Text Available Central obesity, measured by waist circumference (WC or waist-hip ratio (WHR, is a marker of body fat distribution. Although obesity disproportionately affects minority populations, few studies have conducted genome-wide association study (GWAS of fat distribution among those of predominantly African ancestry (AA. We performed GWAS of WC and WHR, adjusted and unadjusted for BMI, in up to 33,591 and 27,350 AA individuals, respectively. We identified loci associated with fat distribution in AA individuals using meta-analyses of GWA results for WC and WHR (stage 1. Overall, 25 SNPs with single genomic control (GC-corrected p-values<5.0 × 10(-6 were followed-up (stage 2 in AA with WC and with WHR. Additionally, we interrogated genomic regions of previously identified European ancestry (EA WHR loci among AA. In joint analysis of association results including both Stage 1 and 2 cohorts, 2 SNPs demonstrated association, rs2075064 at LHX2, p = 2.24×10(-8 for WC-adjusted-for-BMI, and rs6931262 at RREB1, p = 2.48×10(-8 for WHR-adjusted-for-BMI. However, neither signal was genome-wide significant after double GC-correction (LHX2: p = 6.5 × 10(-8; RREB1: p = 5.7 × 10(-8. Six of fourteen previously reported loci for waist in EA populations were significant (p<0.05 divided by the number of independent SNPs within the region in AA studied here (TBX15-WARS2, GRB14, ADAMTS9, LY86, RSPO3, ITPR2-SSPN. Further, we observed associations with metabolic traits: rs13389219 at GRB14 associated with HDL-cholesterol, triglycerides, and fasting insulin, and rs13060013 at ADAMTS9 with HDL-cholesterol and fasting insulin. Finally, we observed nominal evidence for sexual dimorphism, with stronger results in AA women at the GRB14 locus (p for interaction = 0.02. In conclusion, we identified two suggestive loci associated with fat distribution in AA populations in addition to confirming 6 loci previously identified in populations of EA. These findings reinforce the concept

  18. Genome-wide association of body fat distribution in African ancestry populations suggests new loci.

    Science.gov (United States)

    Liu, Ching-Ti; Monda, Keri L; Taylor, Kira C; Lange, Leslie; Demerath, Ellen W; Palmas, Walter; Wojczynski, Mary K; Ellis, Jaclyn C; Vitolins, Mara Z; Liu, Simin; Papanicolaou, George J; Irvin, Marguerite R; Xue, Luting; Griffin, Paula J; Nalls, Michael A; Adeyemo, Adebowale; Liu, Jiankang; Li, Guo; Ruiz-Narvaez, Edward A; Chen, Wei-Min; Chen, Fang; Henderson, Brian E; Millikan, Robert C; Ambrosone, Christine B; Strom, Sara S; Guo, Xiuqing; Andrews, Jeanette S; Sun, Yan V; Mosley, Thomas H; Yanek, Lisa R; Shriner, Daniel; Haritunians, Talin; Rotter, Jerome I; Speliotes, Elizabeth K; Smith, Megan; Rosenberg, Lynn; Mychaleckyj, Josyf; Nayak, Uma; Spruill, Ida; Garvey, W Timothy; Pettaway, Curtis; Nyante, Sarah; Bandera, Elisa V; Britton, Angela F; Zonderman, Alan B; Rasmussen-Torvik, Laura J; Chen, Yii-Der Ida; Ding, Jingzhong; Lohman, Kurt; Kritchevsky, Stephen B; Zhao, Wei; Peyser, Patricia A; Kardia, Sharon L R; Kabagambe, Edmond; Broeckel, Ulrich; Chen, Guanjie; Zhou, Jie; Wassertheil-Smoller, Sylvia; Neuhouser, Marian L; Rampersaud, Evadnie; Psaty, Bruce; Kooperberg, Charles; Manson, Joann E; Kuller, Lewis H; Ochs-Balcom, Heather M; Johnson, Karen C; Sucheston, Lara; Ordovas, Jose M; Palmer, Julie R; Haiman, Christopher A; McKnight, Barbara; Howard, Barbara V; Becker, Diane M; Bielak, Lawrence F; Liu, Yongmei; Allison, Matthew A; Grant, Struan F A; Burke, Gregory L; Patel, Sanjay R; Schreiner, Pamela J; Borecki, Ingrid B; Evans, Michele K; Taylor, Herman; Sale, Michele M; Howard, Virginia; Carlson, Christopher S; Rotimi, Charles N; Cushman, Mary; Harris, Tamara B; Reiner, Alexander P; Cupples, L Adrienne; North, Kari E; Fox, Caroline S

    2013-01-01

    Central obesity, measured by waist circumference (WC) or waist-hip ratio (WHR), is a marker of body fat distribution. Although obesity disproportionately affects minority populations, few studies have conducted genome-wide association study (GWAS) of fat distribution among those of predominantly African ancestry (AA). We performed GWAS of WC and WHR, adjusted and unadjusted for BMI, in up to 33,591 and 27,350 AA individuals, respectively. We identified loci associated with fat distribution in AA individuals using meta-analyses of GWA results for WC and WHR (stage 1). Overall, 25 SNPs with single genomic control (GC)-corrected p-values<5.0 × 10(-6) were followed-up (stage 2) in AA with WC and with WHR. Additionally, we interrogated genomic regions of previously identified European ancestry (EA) WHR loci among AA. In joint analysis of association results including both Stage 1 and 2 cohorts, 2 SNPs demonstrated association, rs2075064 at LHX2, p = 2.24×10(-8) for WC-adjusted-for-BMI, and rs6931262 at RREB1, p = 2.48×10(-8) for WHR-adjusted-for-BMI. However, neither signal was genome-wide significant after double GC-correction (LHX2: p = 6.5 × 10(-8); RREB1: p = 5.7 × 10(-8)). Six of fourteen previously reported loci for waist in EA populations were significant (p<0.05 divided by the number of independent SNPs within the region) in AA studied here (TBX15-WARS2, GRB14, ADAMTS9, LY86, RSPO3, ITPR2-SSPN). Further, we observed associations with metabolic traits: rs13389219 at GRB14 associated with HDL-cholesterol, triglycerides, and fasting insulin, and rs13060013 at ADAMTS9 with HDL-cholesterol and fasting insulin. Finally, we observed nominal evidence for sexual dimorphism, with stronger results in AA women at the GRB14 locus (p for interaction = 0.02). In conclusion, we identified two suggestive loci associated with fat distribution in AA populations in addition to confirming 6 loci previously identified in populations of EA. These findings reinforce the concept

  19. African ancestry and its correlation to type 2 diabetes in African Americans: a genetic admixture analysis in three U.S. population cohorts.

    Directory of Open Access Journals (Sweden)

    Ching-Yu Cheng

    Full Text Available The risk of type 2 diabetes is approximately 2-fold higher in African Americans than in European Americans even after adjusting for known environmental risk factors, including socioeconomic status (SES, suggesting that genetic factors may explain some of this population difference in disease risk. However, relatively few genetic studies have examined this hypothesis in a large sample of African Americans with and without diabetes. Therefore, we performed an admixture analysis using 2,189 ancestry-informative markers in 7,021 African Americans (2,373 with type 2 diabetes and 4,648 without from the Atherosclerosis Risk in Communities Study, the Jackson Heart Study, and the Multiethnic Cohort to 1 determine the association of type 2 diabetes and its related quantitative traits with African ancestry controlling for measures of SES and 2 identify genetic loci for type 2 diabetes through a genome-wide admixture mapping scan. The median percentage of African ancestry of diabetic participants was slightly greater than that of non-diabetic participants (study-adjusted difference = 1.6%, P<0.001. The odds ratio for diabetes comparing participants in the highest vs. lowest tertile of African ancestry was 1.33 (95% confidence interval 1.13-1.55, after adjustment for age, sex, study, body mass index (BMI, and SES. Admixture scans identified two potential loci for diabetes at 12p13.31 (LOD = 4.0 and 13q14.3 (Z score = 4.5, P = 6.6 × 10(-6. In conclusion, genetic ancestry has a significant association with type 2 diabetes above and beyond its association with non-genetic risk factors for type 2 diabetes in African Americans, but no single gene with a major effect is sufficient to explain a large portion of the observed population difference in risk of diabetes. There undoubtedly is a complex interplay among specific genetic loci and non-genetic factors, which may both be associated with overall admixture, leading to the observed ethnic differences in diabetes

  20. Association between Plasma 25-Hydroxyvitamin D, Ancestry and Aggressive Prostate Cancer among African Americans and European Americans in PCaP

    Science.gov (United States)

    Steck, Susan E.; Arab, Lenore; Zhang, Hongmei; Bensen, Jeannette T.; Fontham, Elizabeth T. H.; Johnson, Candace S.; Mohler, James L.; Smith, Gary J.; Su, Joseph L.; Trump, Donald L.; Woloszynska-Read, Anna

    2015-01-01

    Background African Americans (AAs) have lower circulating 25-hydroxyvitamin D3 [25(OH)D3] concentrations and higher prostate cancer (CaP) aggressiveness than other racial/ethnic groups. The purpose of the current study was to examine the relationship between plasma 25(OH)D3, African ancestry and CaP aggressiveness among AAs and European Americans (EAs). Methods Plasma 25(OH)D3 was measured using LC-MS/MS (Liquid Chromatography Tandem Mass Spectrometry) in 537 AA and 663 EA newly-diagnosed CaP patients from the North Carolina-Louisiana Prostate Cancer Project (PCaP) classified as having either ‘high’ or ‘low’ aggressive disease based on clinical stage, Gleason grade and prostate specific antigen at diagnosis. Mean plasma 25(OH)D3 concentrations were compared by proportion of African ancestry. Logistic regression was used to calculate multivariable adjusted odds ratios (OR) and 95% confidence intervals (95%CI) for high aggressive CaP by tertile of plasma 25(OH)D3. Results AAs with highest percent African ancestry (>95%) had the lowest mean plasma 25(OH)D3 concentrations. Overall, plasma 25(OH)D3 was associated positively with aggressiveness among AA men, an association that was modified by calcium intake (ORT3vs.T1: 2.23, 95%CI: 1.26–3.95 among men with low calcium intake, and ORT3vs.T1: 0.19, 95%CI: 0.05–0.70 among men with high calcium intake). Among EAs, the point estimates of the ORs were <1.0 for the upper tertiles with CIs that included the null. Conclusions Among AAs, plasma 25(OH)D3 was associated positively with CaP aggressiveness among men with low calcium intake and inversely among men with high calcium intake. The clinical significance of circulating concentrations of 25(OH)D3 and interactions with calcium intake in the AA population warrants further study. PMID:25919866

  1. Determining the effects and challenges of incorporating genetic testing into primary care management of hypertensive patients with African ancestry.

    Science.gov (United States)

    Horowitz, C R; Abul-Husn, N S; Ellis, S; Ramos, M A; Negron, R; Suprun, M; Zinberg, R E; Sabin, T; Hauser, D; Calman, N; Bagiella, E; Bottinger, E P

    2016-03-01

    People of African ancestry (Blacks) have increased risk of kidney failure due to numerous socioeconomic, environmental, and clinical factors. Two variants in the APOL1 gene are now thought to account for much of the racial disparity associated with hypertensive kidney failure in Blacks. However, this knowledge has not been translated into clinical care to help improve patient outcomes and address disparities. GUARDD is a randomized trial to evaluate the effects and challenges of incorporating genetic risk information into primary care. Hypertensive, non-diabetic, adults with self-reported African ancestry, without kidney dysfunction, are recruited from diverse clinical settings and randomized to undergo APOL1 genetic testing at baseline (intervention) or at one year (waitlist control). Providers are educated about genomics and APOL1. Guided by a genetic counselor, trained staff return APOL1 results to patients and provide low-literacy educational materials. Real-time clinical decision support tools alert clinicians of their patients' APOL1 results and associated risk status at the point of care. Our academic-community-clinical partnership designed a study to generate information about the impact of genetic risk information on patient care (blood pressure and renal surveillance) and on patient and provider knowledge, attitudes, beliefs, and behaviors. GUARDD will help establish the effective implementation of APOL1 risk-informed management of hypertensive patients at high risk of CKD, and will provide a robust framework for future endeavors to implement genomic medicine in diverse clinical practices. It will also add to the important dialog about factors that contribute to and may help eliminate racial disparities in kidney disease. PMID:26747051

  2. From continental priorities to local conservation: a multi-level analysis for African tortoises.

    Directory of Open Access Journals (Sweden)

    Pierluigi Bombi

    Full Text Available Terrestrial tortoises are the most endangered group of vertebrates but they are still largely ignored for defining global conservation priorities. In this paper, we explored within a hierarchical framework the potential contribution of prioritization studies at the continental scale to the planning of local initiatives for the conservation of African tortoises at the regional level. First, we modeled the distribution of all the African tortoise species, we calculated three indicators of conservation priority (i.e., species richness, conservation value, and complementarity, and we carried out a gap analysis at continental scale. Second, we focused on the most important region for tortoise conservation and performed the same analyses at higher resolution. Finally, we compared the results from the two scales for understanding the degree to which they are complementary. Southern Africa emerged from the continental analysis as the most important region for tortoises. Within this area, the high-resolution analysis pointed out specific core sites for conservation. The relative degree of species protection was assessed similarly at the two different resolutions. Two species appeared particularly vulnerable at both scales. Priority indices calculated at high resolution were correlated to the values calculated for the corresponding cells at low resolution but the congruence was stronger for species richness. Our results suggest to integrate the calculation of conservation value and complementarity into a hierarchical framework driven by species richness. The advantages of large scale planning include its broad perspective on complementarity and the capability to identify regions with greatest conservation potential. In this light, continental analyses allow targeting fine scale studies toward regions with maximum priority. The regional analyses at fine scale allow planning conservation measure at a resolution similar to that required for the practical

  3. The evolution of skin pigmentation and hair texture in people of African ancestry.

    Science.gov (United States)

    Jablonski, Nina G; Chaplin, George

    2014-04-01

    Our species, Homo sapiens, evolved in Africa, and humanity's highest levels of genetic diversity are maintained there today. Underlying genetic diversity combined with the great range of solar regimes and climatic conditions found in Africa has contributed to a wide range of human integumentary phenotypes within the continent. Millions of Africans have moved, voluntarily and involuntarily, to other continents in the past 2000 years, and the range of integumentary phenotypes among admixed African diaspora populations is enormous. In this contribution, we do not catalog this variation, but provide basic evolutionary background as to how it developed in the first place. PMID:24679998

  4. Genome-wide ancestry of 17th-century enslaved Africans from the Caribbean

    DEFF Research Database (Denmark)

    Schroeder, Hannes; Avila Arcos, Maria del Carmen; Malaspinas, Anna Sapfo;

    2015-01-01

    Between 1500 and 1850, more than 12 million enslaved Africans were transported to the New World. The vast majority were shipped from West and West-Central Africa, but their precise origins are largely unknown. We used genome-wide ancient DNA analyses to investigate the genetic origins of three...

  5. Effects of interleukin-10 on cutaneous wounds and scars in humans of African continental ancestral origin.

    Science.gov (United States)

    Kieran, Ingrid; Taylor, Catherine; Bush, Jim; Rance, Mark; So, Karen; Boanas, Adam; Metcalfe, Anthony; Hobson, Rosalind; Goldspink, Nick; Hutchison, John; Ferguson, Mark

    2014-01-01

    Scars in humans of African continental ancestry heal with an exaggerated inflammatory response and a generally wider scar. Interleukin-10 is an anti-inflammatory and antifibrotic cytokine. A randomized controlled trial in Caucasians found that exogenous interleukin-10 resulted in improved macroscopic scar appearance and reduced scar redness. We investigated the effects of interleukin-10 on cutaneous scarring in volunteers of African ancestral origin in an exploratory, single-center, within-subject, double-blind randomized controlled trial. Fifty-six subjects received two of four potential prerandomized concentrations of interleukin-10 (5, 25, 100, and 250 ng/100 µL) in two full-thickness incisions on the upper inner arms. Anatomically matching incisions on the contralateral arm were treated with placebo. Scars were excised at 1 month for histological analysis and were redosed with the same regimen. Resultant excision scars were followed up for 12 months for scar width measurement and scoring. Scoring was performed by trial doctors, subjects, and a panel. Incisions treated with 100 ng/100 µL interleukin-10 had significantly reduced microscopic scar widths. Incisions treated with 5 and 25 ng/100 µL interleukin-10 were also narrower, but not significantly. There were no differences observed in pro-inflammatory or pro-fibrotic markers between interleukin-10 and placebo treatment. There was no long-term evidence that 100 ng/100 µL interleukin-10 had a therapeutic effect on macroscopic scar width or appearance, as excisions treated with this concentration were significantly wider than placebo between 8 and 12 months of maturation. Doctors showed a trend toward favoring the macroscopic appearance of placebo-treated excisions compared with those treated with 250 ng/100 µL interleukin-10. Panelists scored placebo-treated excisions as significantly better-appearing than those treated with 250 ng/100 µL interleukin-10. Doctors' scores showed a

  6. Recurrent BRCA1 and BRCA2 mutations in breast cancer patients of African ancestry.

    Science.gov (United States)

    Zhang, Jing; Fackenthal, James D; Zheng, Yonglan; Huo, Dezheng; Hou, Ningqi; Niu, Qun; Zvosec, Cecilia; Ogundiran, Temidayo O; Hennis, Anselm J; Leske, Maria Cristina; Nemesure, Barbara; Wu, Suh-Yuh; Olopade, Olufunmilayo I

    2012-07-01

    Recurrent mutations constituted nearly three quarters of all BRCA1 mutations and almost half of all BRCA2 mutations identified in the first cohort of the Nigerian Breast Cancer Study. To further characterize breast/ovarian cancer risks associated with BRCA1/BRCA2 mutations in the African diaspora, we genotyped recurrent mutations among Nigerian, African American, and Barbadian breast cancer patients. A replication cohort of 356 Nigerian breast cancer patients was genotyped for 12 recurrent BRCA1/2 mutant alleles (Y101X, 1742insG, 4241delTG, M1775R, 4359insC, C64Y, 1623delTTAAA, Q1090X, and 943ins10 from BRCA1, and 1538delAAGA, 2630del11, and 9045delGAAA from BRCA2) by means of SNaPshot followed by direct sequencing or by direct sequencing alone. In addition, 260 African Americans and 118 Barbadians were genotyped for six of the recurrent BRCA1 mutations by SNaPshot assay. Of all the BRCA1/2 recurrent mutations we identified in the first cohort, six were identified in 11 patients in the replication study. These mutation carriers constitute 3.1 % [95 % Confidence Interval (CI) 1.6-5.5 %] of the replication cohort. By comparison, 6.9 % (95 % CI 4.7-9.7 %) of the discovery cohort carried BRCA1/2 recurrent mutations. For the subset of recurrent mutations we tested in breast cancer cases from Barbados or the United States, only two 943ins10 carriers were identified in African Americans. Nigerian breast cancer patients from Ibadan carry a broad and unique spectrum of BRCA1/2 mutations. Our data suggest that BRCA1/2 mutation testing limited to recurrent mutations is not sufficient to understand the BRCA1/2-associated breast cancer risk in African populations in the diaspora. As the cost of Sanger sequencing is considerably reduced, deploying innovative technologies such as high throughput DNA sequencing of BRCA1/2 and other cancer susceptibility genes will be essential for identifying high-risk individuals and families to reduce the burden of aggressive early onset breast

  7. Single-nucleotide polymorphisms in LPA explain most of the ancestry-specific variation in Lp(a levels in African Americans.

    Directory of Open Access Journals (Sweden)

    Rahul C Deo

    Full Text Available Lipoprotein(a (Lp(a is an important causal cardiovascular risk factor, with serum Lp(a levels predicting atherosclerotic heart disease and genetic determinants of Lp(a levels showing association with myocardial infarction. Lp(a levels vary widely between populations, with African-derived populations having nearly 2-fold higher Lp(a levels than European Americans. We investigated the genetic basis of this difference in 4464 African Americans from the Jackson Heart Study (JHS using a panel of up to 1447 ancestry informative markers, allowing us to accurately estimate the African ancestry proportion of each individual at each position in the genome. In an unbiased genome-wide admixture scan for frequency-differentiated genetic determinants of Lp(a level, we found a convincing peak (LOD = 13.6 at 6q25.3, which spans the LPA locus. Dense fine-mapping of the LPA locus identified a number of strongly associated, common biallelic SNPs, a subset of which can account for up to 7% of the variation in Lp(a level, as well as >70% of the African-European population differences in Lp(a level. We replicated the association of the most strongly associated SNP, rs9457951 (p = 6 × 10(-22, 27% change in Lp(a per allele, ∼5% of Lp(a variance explained in JHS, in 1,726 African Americans from the Dallas Heart Study and found an even stronger association after adjustment for the kringle(IV repeat copy number. Despite the strong association with Lp(a levels, we find no association of any LPA SNP with incident coronary heart disease in 3,225 African Americans from the Atherosclerosis Risk in Communities Study.

  8. Development of a panel of genome-wide ancestry informative markers to study admixture throughout the Americas.

    Directory of Open Access Journals (Sweden)

    Joshua Mark Galanter

    Full Text Available Most individuals throughout the Americas are admixed descendants of Native American, European, and African ancestors. Complex historical factors have resulted in varying proportions of ancestral contributions between individuals within and among ethnic groups. We developed a panel of 446 ancestry informative markers (AIMs optimized to estimate ancestral proportions in individuals and populations throughout Latin America. We used genome-wide data from 953 individuals from diverse African, European, and Native American populations to select AIMs optimized for each of the three main continental populations that form the basis of modern Latin American populations. We selected markers on the basis of locus-specific branch length to be informative, well distributed throughout the genome, capable of being genotyped on widely available commercial platforms, and applicable throughout the Americas by minimizing within-continent heterogeneity. We then validated the panel in samples from four admixed populations by comparing ancestry estimates based on the AIMs panel to estimates based on genome-wide association study (GWAS data. The panel provided balanced discriminatory power among the three ancestral populations and accurate estimates of individual ancestry proportions (R² > 0.9 for ancestral components with significant between-subject variance. Finally, we genotyped samples from 18 populations from Latin America using the AIMs panel and estimated variability in ancestry within and between these populations. This panel and its reference genotype information will be useful resources to explore population history of admixture in Latin America and to correct for the potential effects of population stratification in admixed samples in the region.

  9. Development of a Panel of Genome-Wide Ancestry Informative Markers to Study Admixture Throughout the Americas

    Science.gov (United States)

    Galanter, Joshua Mark; Fernandez-Lopez, Juan Carlos; Gignoux, Christopher R.; Barnholtz-Sloan, Jill; Fernandez-Rozadilla, Ceres; Via, Marc; Hidalgo-Miranda, Alfredo; Contreras, Alejandra V.; Figueroa, Laura Uribe; Raska, Paola; Jimenez-Sanchez, Gerardo; Silva Zolezzi, Irma; Torres, Maria; Ponte, Clara Ruiz; Ruiz, Yarimar; Salas, Antonio; Nguyen, Elizabeth; Eng, Celeste; Borjas, Lisbeth; Zabala, William; Barreto, Guillermo; Rondón González, Fernando; Ibarra, Adriana; Taboada, Patricia; Porras, Liliana; Moreno, Fabián; Bigham, Abigail; Gutierrez, Gerardo; Brutsaert, Tom; León-Velarde, Fabiola; Moore, Lorna G.; Vargas, Enrique; Cruz, Miguel; Escobedo, Jorge; Rodriguez-Santana, José; Rodriguez-Cintrón, William; Chapela, Rocio; Ford, Jean G.; Bustamante, Carlos; Seminara, Daniela; Shriver, Mark; Ziv, Elad; Gonzalez Burchard, Esteban; Haile, Robert

    2012-01-01

    Most individuals throughout the Americas are admixed descendants of Native American, European, and African ancestors. Complex historical factors have resulted in varying proportions of ancestral contributions between individuals within and among ethnic groups. We developed a panel of 446 ancestry informative markers (AIMs) optimized to estimate ancestral proportions in individuals and populations throughout Latin America. We used genome-wide data from 953 individuals from diverse African, European, and Native American populations to select AIMs optimized for each of the three main continental populations that form the basis of modern Latin American populations. We selected markers on the basis of locus-specific branch length to be informative, well distributed throughout the genome, capable of being genotyped on widely available commercial platforms, and applicable throughout the Americas by minimizing within-continent heterogeneity. We then validated the panel in samples from four admixed populations by comparing ancestry estimates based on the AIMs panel to estimates based on genome-wide association study (GWAS) data. The panel provided balanced discriminatory power among the three ancestral populations and accurate estimates of individual ancestry proportions (R2>0.9 for ancestral components with significant between-subject variance). Finally, we genotyped samples from 18 populations from Latin America using the AIMs panel and estimated variability in ancestry within and between these populations. This panel and its reference genotype information will be useful resources to explore population history of admixture in Latin America and to correct for the potential effects of population stratification in admixed samples in the region. PMID:22412386

  10. Genetic structure in four West African population groups

    Directory of Open Access Journals (Sweden)

    Chen Guanjie

    2005-06-01

    Full Text Available Abstract Background Africa contains the most genetically divergent group of continental populations and several studies have reported that African populations show a high degree of population stratification. In this regard, it is important to investigate the potential for population genetic structure or stratification in genetic epidemiology studies involving multiple African populations. The presences of genetic sub-structure, if not properly accounted for, have been reported to lead to spurious association between a putative risk allele and a disease. Within the context of the Africa America Diabetes Mellitus (AADM Study (a genetic epidemiologic study of type 2 diabetes mellitus in West Africa, we have investigated population structure or stratification in four ethnic groups in two countries (Akan and Gaa-Adangbe from Ghana, Yoruba and Igbo from Nigeria using data from 372 autosomal microsatellite loci typed in 493 unrelated persons (986 chromosomes. Results There was no significant population genetic structure in the overall sample. The smallest probability is associated with an inferred cluster of 1 and little of the posterior probability is associated with a higher number of inferred clusters. The distribution of members of the sample to inferred clusters is consistent with this finding; roughly the same proportion of individuals from each group is assigned to each cluster with little variation between the ethnic groups. Analysis of molecular variance (AMOVA showed that the between-population component of genetic variance is less than 0.1% in contrast to 99.91% for the within population component. Pair-wise genetic distances between the four ethnic groups were also very similar. Nonetheless, the small between-population genetic variance was sufficient to distinguish the two Ghanaian groups from the two Nigerian groups. Conclusion There was little evidence for significant population substructure in the four major West African ethnic groups

  11. Identification, replication, and fine-mapping of Loci associated with adult height in individuals of african ancestry.

    OpenAIRE

    Amidou N'Diaye; Chen, Gary K.; Palmer, Cameron D; Bing Ge; Bamidele Tayo; Rasika A Mathias; Jingzhong Ding; Michael A Nalls; Adebowale Adeyemo; Véronique Adoue; Ambrosone, Christine B.; Larry Atwood; Bandera, Elisa V.; Becker, Lewis C.; Berndt, Sonja I.

    2011-01-01

    Adult height is a classic polygenic trait of high heritability (h(2) approximately 0.8). More than 180 single nucleotide polymorphisms (SNPs), identified mostly in populations of European descent, are associated with height. These variants convey modest effects and explain approximately10% of the variance in height. Discovery efforts in other populations, while limited, have revealed loci for height not previously implicated in individuals of European ancestry. Here, we performed a meta-analy...

  12. Identification, Replication, and Fine-Mapping of Loci Associated with Adult Height in Individuals of African Ancestry

    OpenAIRE

    N'Diaye, Amidou; Chen, Gary K.; Palmer, Cameron D; Ge, Bing; Tayo, Bamidele; Rasika A Mathias; Ding, Jingzhong; Michael A Nalls; Adeyemo, Adebowale; Adoue, Véronique; Ambrosone, Christine B.; Atwood, Larry; Bandera, Elisa V.; Becker, Lewis C.; Berndt, Sonja I.

    2011-01-01

    Author Summary Adult height is an ideal phenotype to improve our understanding of the genetic architecture of complex diseases and traits: it is easily measured and usually available in large cohorts, relatively stable, and mostly influenced by genetics (narrow-sense heritability of height h 2∼0.8). Genome-wide association (GWA) studies in individuals of European ancestry have identified >180 single nucleotide polymorphisms (SNPs) associated with height. In the current study, we continued to ...

  13. Food Group Categories of Low-Income African American Women

    Science.gov (United States)

    Lynch, Elizabeth B.; Holmes, Shane

    2011-01-01

    Objective: Describe lay food group categories of low-income African American women and assess the overlap of lay food groups and MyPyramid food groups. Design: A convenience sample of African American mothers from a low-income Chicago neighborhood performed a card-sorting task in which they grouped familiar food items into food groups. Setting:…

  14. Genomic study of the Ket: a Paleo-Eskimo-related ethnic group with significant ancient North Eurasian ancestry

    Science.gov (United States)

    Flegontov, Pavel; Changmai, Piya; Zidkova, Anastassiya; Logacheva, Maria D.; Altınışık, N. Ezgi; Flegontova, Olga; Gelfand, Mikhail S.; Gerasimov, Evgeny S.; Khrameeva, Ekaterina E.; Konovalova, Olga P.; Neretina, Tatiana; Nikolsky, Yuri V.; Starostin, George; Stepanova, Vita V.; Travinsky, Igor V.; Tříska, Martin; Tříska, Petr; Tatarinova, Tatiana V.

    2016-01-01

    The Kets, an ethnic group in the Yenisei River basin, Russia, are considered the last nomadic hunter-gatherers of Siberia, and Ket language has no transparent affiliation with any language family. We investigated connections between the Kets and Siberian and North American populations, with emphasis on the Mal’ta and Paleo-Eskimo ancient genomes, using original data from 46 unrelated samples of Kets and 42 samples of their neighboring ethnic groups (Uralic-speaking Nganasans, Enets, and Selkups). We genotyped over 130,000 autosomal SNPs, identified mitochondrial and Y-chromosomal haplogroups, and performed high-coverage genome sequencing of two Ket individuals. We established that Nganasans, Kets, Selkups, and Yukaghirs form a cluster of populations most closely related to Paleo-Eskimos in Siberia (not considering indigenous populations of Chukotka and Kamchatka). Kets are closely related to modern Selkups and to some Bronze and Iron Age populations of the Altai region, with all these groups sharing a high degree of Mal’ta ancestry. Implications of these findings for the linguistic hypothesis uniting Ket and Na-Dene languages into a language macrofamily are discussed. PMID:26865217

  15. Genomic study of the Ket: a Paleo-Eskimo-related ethnic group with significant ancient North Eurasian ancestry.

    Science.gov (United States)

    Flegontov, Pavel; Changmai, Piya; Zidkova, Anastassiya; Logacheva, Maria D; Altınışık, N Ezgi; Flegontova, Olga; Gelfand, Mikhail S; Gerasimov, Evgeny S; Khrameeva, Ekaterina E; Konovalova, Olga P; Neretina, Tatiana; Nikolsky, Yuri V; Starostin, George; Stepanova, Vita V; Travinsky, Igor V; Tříska, Martin; Tříska, Petr; Tatarinova, Tatiana V

    2016-01-01

    The Kets, an ethnic group in the Yenisei River basin, Russia, are considered the last nomadic hunter-gatherers of Siberia, and Ket language has no transparent affiliation with any language family. We investigated connections between the Kets and Siberian and North American populations, with emphasis on the Mal'ta and Paleo-Eskimo ancient genomes, using original data from 46 unrelated samples of Kets and 42 samples of their neighboring ethnic groups (Uralic-speaking Nganasans, Enets, and Selkups). We genotyped over 130,000 autosomal SNPs, identified mitochondrial and Y-chromosomal haplogroups, and performed high-coverage genome sequencing of two Ket individuals. We established that Nganasans, Kets, Selkups, and Yukaghirs form a cluster of populations most closely related to Paleo-Eskimos in Siberia (not considering indigenous populations of Chukotka and Kamchatka). Kets are closely related to modern Selkups and to some Bronze and Iron Age populations of the Altai region, with all these groups sharing a high degree of Mal'ta ancestry. Implications of these findings for the linguistic hypothesis uniting Ket and Na-Dene languages into a language macrofamily are discussed. PMID:26865217

  16. Counseling Groups for African American Women: A Focus on Spirituality.

    Science.gov (United States)

    Williams, Carmen Braun; Frame, Marsha Wiggins; Green, Evelyn

    1999-01-01

    Explains cultural and spiritual traditions within African American women's experience that form the foundation for group counseling strategies. Reviews literature regarding African American women's experience in groups. Explains group interventions such as art, music, dance, imagery, journaling, and rituals that can help transcend, empower, and…

  17. ADH1B is associated with alcohol dependence and alcohol consumption in populations of European and African ancestry

    OpenAIRE

    Bierut, Laura Jean; Goate, Alison M.; Breslau, Naomi; Johnson, Eric O.; Bertelsen, Sarah; Fox, Louis; Agrawal, Arpana; Bucholz, Kathleen K.; Grucza, Richard; Hesselbrock, Victor; Kramer, John; Kuperman, Samuel; Nurnberger, John; Porjesz, Bernice; Saccone, Nancy L.

    2011-01-01

    A coding variant in ADH1B (rs1229984) that leads to the replacement of Arg48 with His48 is common in Asian populations and reduces their risk for alcoholism, but because of very low allele frequencies the effects in European or African populations have been difficult to detect. We genotyped and analyzed this variant in three large European and African-American case-control studies in which alcohol dependence was defined by DSM-IV criteria, and demonstrated a strong protective effect of the Hi...

  18. Genetic variants in microRNA and microRNA biogenesis pathway genes and breast cancer risk among women of African ancestry.

    Science.gov (United States)

    Qian, Frank; Feng, Ye; Zheng, Yonglan; Ogundiran, Temidayo O; Ojengbede, Oladosu; Zheng, Wei; Blot, William; Ambrosone, Christine B; John, Esther M; Bernstein, Leslie; Hu, Jennifer J; Ziegler, Regina G; Nyante, Sarah; Bandera, Elisa V; Ingles, Sue A; Press, Michael F; Nathanson, Katherine L; Hennis, Anselm; Nemesure, Barbara; Ambs, Stefan; Kolonel, Laurence N; Olopade, Olufunmilayo I; Haiman, Christopher A; Huo, Dezheng

    2016-10-01

    MicroRNAs (miRNA) regulate breast biology by binding to specific RNA sequences, leading to RNA degradation and inhibition of translation of their target genes. While germline genetic variations may disrupt some of these interactions between miRNAs and their targets, studies assessing the relationship between genetic variations in the miRNA network and breast cancer risk are still limited, particularly among women of African ancestry. We systematically put together a list of 822 and 10,468 genetic variants among primary miRNA sequences and 38 genes in the miRNA biogenesis pathway, respectively; and examined their association with breast cancer risk in the ROOT consortium which includes women of African ancestry. Findings were replicated in an independent consortium. Logistic regression was used to estimate the odds ratio (OR) and 95 % confidence intervals (CI). For overall breast cancer risk, three single-nucleotide polymorphisms (SNPs) in miRNA biogenesis genes DROSHA rs78393591 (OR = 0.69, 95 % CI: 0.55-0.88, P = 0.003), ESR1 rs523736 (OR = 0.88, 95 % CI: 0.82-0.95, P = 3.99 × 10(-4)), and ZCCHC11 rs114101502 (OR = 1.33, 95 % CI: 1.11-1.59, P = 0.002), and one SNP in primary miRNA sequence (rs116159732 in miR-6826, OR = 0.74, 95 % CI: 0.63-0.89, P = 0.001) were found to have significant associations in both discovery and validation phases. In a subgroup analysis, two SNPs were associated with risk of estrogen receptor (ER)-negative breast cancer, and three SNPs were associated with risk of ER-positive breast cancer. Several variants in miRNA and miRNA biogenesis pathway genes were associated with breast cancer risk. Risk associations varied by ER status, suggesting potential new mechanisms in etiology.

  19. Shallow-mantle Recycling and Anomalous, Voluminous Volcanism along the Northern and Northwestern African Continental Margin

    Science.gov (United States)

    Bryce, J. G.; Blichert-Toft, J.; Graham, D. W.; Miller, S. A.

    2015-12-01

    Mantle-derived volcanism on Earth's surface is generally associated with magma generation as a consequence of volatile addition to suprasubduction zone mantle or in response to decompression melting at diverging plates or in thermochemical anomalies thought to originate deep in the convecting mantle. Many of the hotspots surrounding the northern and northwestern African margin are thought to originate from decompression melting due to upwellings from deep thermochemical anomalies. Similar compositions of lavas erupted in Sicily in the Hyblean Plateau and Mount Etna, Europe's largest most active volcano, have been attributed to contributions from subduction zone enrichments. Considering high-MgO lavas from the northern to northwestern African-Mediterranean margins in the context of recent petrologic models we find the strong majority of the lavas in this region are predominantly alkaline and bear geochemical signatures consistent with derivation from fusible lithologies (volatilized peridotite and/or pyroxenite) [1]. Such results are consistent with implications from recent experimental results that suggest that the mobilization of hydrous, carbonate-rich melts commonly occurs during subduction zone processing [2]. Accordingly, we argue many products generally considered "hot spot" volcanism in this region largely result from partial melting of easily fusible pyroxene-rich and carbonated mantle domains that are relics of shallow-level recycling of volatile-rich melts and/or lithosphere shed during plate boundary processes along the African margin. Long-lived volcanism near continental margins subsequently develops as a consequence of convective anomalies associated with unique tectonic arrangements (oversteepened slabs or slab windows) [3] or, alternatively, as manifestations of convective tectonic anomalies beneath thin lithosphere juxtaposed next to thicker, more stable continental margins [4]. [1] Herzberg and Asimow, 2008; [2] Poli, 2015; [3] Schellart, 2010; [4

  20. Indices of Paraoxonase and Oxidative Status Do Not Enhance the Prediction of Subclinical Cardiovascular Disease in Mixed-Ancestry South Africans

    Directory of Open Access Journals (Sweden)

    M. Macharia

    2014-01-01

    Full Text Available We evaluated the association of indices of paraoxonase (PON1 and oxidative status with subclinical cardiovascular disease (CVD in mixed-ancestry South Africans. Participants were 491 adults (126 men who were stratified by diabetes status and body mass index (BMI. Carotid intima-media thickness (CIMT was used as a measure of subclinical CVD. Indices of PON1 and oxidative status were determined by measuring levels and activities (paraoxonase and arylesterase of PON1, antioxidant activity (ferric reducing antioxidant power and trolox equivalent antioxidant capacity, and lipid peroxidation markers (malondialdehyde and oxidized LDL. Diabetic subjects (28.9% displayed a significant decrease in PON1 status and antioxidant activity as well as increase in oxidized LDL and malondialdehyde. A similar profile was apparent across increasing BMI categories. CIMT was higher in diabetic than nondiabetic subjects (P<0.0001  but showed no variation across BMI categories. Overall, CIMT correlated negatively with indices of antioxidant activity and positively with measures of lipid oxidation. Sex, age, BMI, and diabetes altogether explained 29.2% of CIMT, with no further improvement from adding PON1 and/or antioxidant status indices. Though indices of PON1 and oxidative status correlate with CIMT, their measurements may not be useful for identifying subjects at high CVD risk in this population.

  1. Local Ancestry Inference in a Large US-Based Hispanic/Latino Study: Hispanic Community Health Study/Study of Latinos (HCHS/SOL).

    Science.gov (United States)

    Browning, Sharon R; Grinde, Kelsey; Plantinga, Anna; Gogarten, Stephanie M; Stilp, Adrienne M; Kaplan, Robert C; Avilés-Santa, M Larissa; Browning, Brian L; Laurie, Cathy C

    2016-01-01

    We estimated local ancestry on the autosomes and X chromosome in a large US-based study of 12,793 Hispanic/Latino individuals using the RFMix method, and we compared different reference panels and approaches to local ancestry estimation on the X chromosome by means of Mendelian inconsistency rates as a proxy for accuracy. We developed a novel and straightforward approach to performing ancestry-specific PCA after finding artifactual behavior in the results from an existing approach. Using the ancestry-specific PCA, we found significant population structure within African, European, and Amerindian ancestries in the Hispanic/Latino individuals in our study. In the African ancestral component of the admixed individuals, individuals whose grandparents were from Central America clustered separately from individuals whose grandparents were from the Caribbean, and also from reference Yoruba and Mandenka West African individuals. In the European component, individuals whose grandparents were from Puerto Rico diverged partially from other background groups. In the Amerindian ancestral component, individuals clustered into multiple different groups depending on the grandparental country of origin. Therefore, local ancestry estimation provides further insight into the complex genetic structure of US Hispanic/Latino populations, which must be properly accounted for in genotype-phenotype association studies. It also provides a basis for admixture mapping and ancestry-specific allele frequency estimation, which are useful in the identification of risk factors for disease. PMID:27172203

  2. Reconstruction of Holocene southern African continental climate using biomarkers from salt pan sediments

    Science.gov (United States)

    Belz, Lukas; Schüller, Irka; Wehrmann, Achim; Wilkes, Heinz

    2015-04-01

    The climate system of southern Africa is strongly influenced by large scale atmospheric and marine circulation processes and, therefore, very sensitive to global climate change. Recent publications provided evidence for strong spatial and temporal climate variability in southern Africa over the Holocene. It is of major importance to understand the mechanisms driving the southern African climate system in order to estimate regional implications of current global change. However, proxy datasets from continental geoarchives especially of the semi-arid western Kalahari region are still scarce. A main problem is the absence of conventional continental climatic archives, due to the lack of lacustrine systems. In this study we are exploring the utility of sediments from western Kalahari salt pans, i.e. local depressions which are flooded temporarily during rainfall events. Besides the analyses of basic geochemical bulk parameters including TOC, δ13Corg, TIC, δ13Ccarb, δ18Ocarb, TN, δ15N, the paleo-climatic approach focuses on reconstruction of local vegetation assemblages to identify changes in the ecosystem. This is pursued using plant biomarkers, particularly leaf wax n-alkanes and n-alcohols and their stable carbon and hydrogen isotopic signatures. Preliminary results show prominent shifts in n-alkane distribution and δ13C values of the C33 homologue during late Pleistocene and early Holocene. These shifts correlate to changes of the TOC content. Our data indicate changes in carbon sources which possibly reflect major environmental changes.

  3. Both serum 25-hydroxyvitamin D and calcium levels may increase the risk of incident prostate cancer in Caribbean men of African ancestry.

    Science.gov (United States)

    Jackson, Maria D; Tulloch-Reid, Marshall K; Lindsay, Carole M; Smith, Garrett; Bennett, Franklyn I; McFarlane-Anderson, Norma; Aiken, William; Coard, Kathleen C M

    2015-06-01

    Circulating 25-hydroxyvitamin D [25(OH)D] concentrations have been associated with both higher and lower risk of prostate cancer (PCa), whereas elevated levels of circulating calcium has been related to higher risks. However, there are few studies that account for effects of both calcium and 25(OH)D concentrations on incident PCa in a black population. We examined these relationships in a case-control study of men 40-80 years old with newly diagnosed, histologically confirmed PCa in Jamaica, a tropical country. Mean serum calcium concentrations was higher among cases (2.32 ± 0.19 mmol/L) than controls, (2.27 ± 0.30 mmol/L) (P = 0.023) however, there were no differences in 25(OH)D by cancer status (cases, 33.67 ± 12.71 ng/mL; controls (32.25 ± 12.59 ng/mL). Serum calcium was not correlated with 25(OH)D (partial correlation: r, 0.06; P = 0.287). Multivariable-adjusted models showed a positive linear relationship between PCa and serum calcium (OR, 1.12; CI, 1.00-1.25 per 0.1 nmol/L). Serum 25(OH)D concentration also showed a positive association with PCa (OR, 1.23; CI, 1.01-1.49 per 10 ng/mL). The odds of PCa in men with serum 25(OH)D tertile 2 was OR, 2.18; CI, 1.04-4.43 and OR, 2.47 CI, 1.20-4.90 for tertile 3 (P(trend) = 0.013). Dietary intakes of calcium showed no relationship with PCa. Despite the strong relationship between serum calcium and vitamin D the mechanism by which each affects prostate cancer risk in men of African ancestry needs additional investigation. PMID:25858172

  4. Ancestry dependent DNA methylation and influence of maternal nutrition.

    Directory of Open Access Journals (Sweden)

    Khyobeni Mozhui

    Full Text Available There is extensive variation in DNA methylation between individuals and ethnic groups. These differences arise from a combination of genetic and non-genetic influences and potential modifiers include nutritional cues, early life experience, and social and physical environments. Here we compare genome-wide DNA methylation in neonatal cord blood from African American (AA; N = 112 and European American (EA; N = 91 participants of the CANDLE Study (Conditions Affecting Neurocognitive Development and Learning in Early Childhood. Our goal is to determine if there are replicable ancestry-specific methylation patterns that may implicate risk factors for diseases that have differential prevalence between populations. To identify the most robust ancestry-specific CpG sites, we replicate our results in lymphoblastoid cell lines from Yoruba African and CEPH European panels of HapMap. We also evaluate the influence of maternal nutrition--specifically, plasma levels of vitamin D and folate during pregnancy--on methylation in newborns. We define stable ancestry-dependent methylation of genes that include tumor suppressors and cell cycle regulators (e.g., APC, BRCA1, MCC. Overall, there is lower global methylation in African ancestral groups. Plasma levels of 25-hydroxy vitamin D are also considerably lower among AA mothers and about 60% of AA and 40% of EA mothers have concentrations below 20 ng/ml. Using a weighted correlation analysis, we define a network of CpG sites that is jointly modulated by ancestry and maternal vitamin D. Our results show that differences in DNA methylation patterns are remarkably stable and maternal micronutrients can exert an influence on the child epigenome.

  5. Association analysis of the FTO gene with obesity in children of Caucasian and African ancestry reveals a common tagging SNP.

    Directory of Open Access Journals (Sweden)

    Struan F A Grant

    Full Text Available Recently an association was demonstrated between the single nucleotide polymorphism (SNP, rs9939609, within the FTO locus and obesity as a consequence of a genome wide association (GWA study of type 2 diabetes in adults. We examined the effects of two perfect surrogates for this SNP plus 11 other SNPs at this locus with respect to our childhood obesity cohort, consisting of both Caucasians and African Americans (AA. Utilizing data from our ongoing GWA study in our cohort of 418 Caucasian obese children (BMI>or=95th percentile, 2,270 Caucasian controls (BMI<95th percentile, 578 AA obese children and 1,424 AA controls, we investigated the association of the previously reported variation at the FTO locus with the childhood form of this disease in both ethnicities. The minor allele frequencies (MAF of rs8050136 and rs3751812 (perfect surrogates for rs9939609 i.e. both r(2 = 1 in the Caucasian cases were 0.448 and 0.443 respectively while they were 0.391 and 0.386 in Caucasian controls respectively, yielding for both an odds ratio (OR of 1.27 (95% CI 1.08-1.47; P = 0.0022. Furthermore, the MAFs of rs8050136 and rs3751812 in the AA cases were 0.449 and 0.115 respectively while they were 0.436 and 0.090 in AA controls respectively, yielding an OR of 1.05 (95% CI 0.91-1.21; P = 0.49 and of 1.31 (95% CI 1.050-1.643; P = 0.017 respectively. Investigating all 13 SNPs present on the Illumina HumanHap550 BeadChip in this region of linkage disequilibrium, rs3751812 was the only SNP conferring significant risk in AA. We have therefore replicated and refined the association in an AA cohort and distilled a tag-SNP, rs3751812, which captures the ancestral origin of the actual mutation. As such, variants in the FTO gene confer a similar magnitude of risk of obesity to children as to their adult counterparts and appear to have a global impact.

  6. Socioeconomic and nutritional factors account for the association of gastric cancer with Amerindian ancestry in a Latin American admixed population.

    Directory of Open Access Journals (Sweden)

    Latife Pereira

    Full Text Available Gastric cancer is one of the most lethal types of cancer and its incidence varies worldwide, with the Andean region of South America showing high incidence rates. We evaluated the genetic structure of the population from Lima (Peru and performed a case-control genetic association study to test the contribution of African, European, or Native American ancestry to risk for gastric cancer, controlling for the effect of non-genetic factors. A wide set of socioeconomic, dietary, and clinic information was collected for each participant in the study and ancestry was estimated based on 103 ancestry informative markers. Although the urban population from Lima is usually considered as mestizo (i.e., admixed from Africans, Europeans, and Native Americans, we observed a high fraction of Native American ancestry (78.4% for the cases and 74.6% for the controls and a very low African ancestry (<5%. We determined that higher Native American individual ancestry is associated with gastric cancer, but socioeconomic factors associated both with gastric cancer and Native American ethnicity account for this association. Therefore, the high incidence of gastric cancer in Peru does not seem to be related to susceptibility alleles common in this population. Instead, our result suggests a predominant role for ethnic-associated socioeconomic factors and disparities in access to health services. Since Native Americans are a neglected group in genomic studies, we suggest that the population from Lima and other large cities from Western South America with high Native American ancestry background may be convenient targets for epidemiological studies focused on this ethnic group.

  7. Comprehensive Analysis of Pan-African Mitochondrial DNA Variation Provides New Insights into Continental Variation and Demography.

    Science.gov (United States)

    Cerezo, María; Gusmão, Leonor; Černý, Viktor; Uddin, Nabeel; Syndercombe-Court, Denise; Gómez-Carballa, Alberto; Göbel, Tanja; Schneider, Peter M; Salas, Antonio

    2016-03-20

    Africa is the cradle of all human beings, and although it has been the focus of a number of genetic studies, there are many questions that remain unresolved. We have performed one of the largest and most comprehensive meta-analyses of mitochondrial DNA (mtDNA) lineages carried out in the African continent to date. We generated high-throughput mtDNA single nucleotide polymorphism (SNP) data (230 SNPs) from 2024 Africans, where more than 500 of them were additionally genotyped for the control region. These data were analyzed together with over 12,700 control region profiles collected from the literature, representing more than 300 population samples from Africa. Insights into the African homeland of humans are discussed. Phylogeographic patterns for the African continent are shown at a high phylogeographic resolution as well as at the population and regional levels. The deepest branch of the mtDNA tree, haplogroup L0, shows the highest sub-haplogroup diversity in Southeast and East Africa, suggesting this region as the homeland for modern humans. Several demographic estimates point to the coast as a facilitator of human migration in Africa, but the data indicate complex patterns, perhaps mirroring the effect of recent continental-scaled demographic events in re-shaping African mtDNA variability. PMID:27020033

  8. Worldwide patterns of ancestry, divergence, and admixture in domesticated cattle.

    Directory of Open Access Journals (Sweden)

    Jared E Decker

    2014-03-01

    Full Text Available The domestication and development of cattle has considerably impacted human societies, but the histories of cattle breeds and populations have been poorly understood especially for African, Asian, and American breeds. Using genotypes from 43,043 autosomal single nucleotide polymorphism markers scored in 1,543 animals, we evaluate the population structure of 134 domesticated bovid breeds. Regardless of the analytical method or sample subset, the three major groups of Asian indicine, Eurasian taurine, and African taurine were consistently observed. Patterns of geographic dispersal resulting from co-migration with humans and exportation are recognizable in phylogenetic networks. All analytical methods reveal patterns of hybridization which occurred after divergence. Using 19 breeds, we map the cline of indicine introgression into Africa. We infer that African taurine possess a large portion of wild African auroch ancestry, causing their divergence from Eurasian taurine. We detect exportation patterns in Asia and identify a cline of Eurasian taurine/indicine hybridization in Asia. We also identify the influence of species other than Bos taurus taurus and B. t. indicus in the formation of Asian breeds. We detect the pronounced influence of Shorthorn cattle in the formation of European breeds. Iberian and Italian cattle possess introgression from African taurine. American Criollo cattle originate from Iberia, and not directly from Africa with African ancestry inherited via Iberian ancestors. Indicine introgression into American cattle occurred in the Americas, and not Europe. We argue that cattle migration, movement and trading followed by admixture have been important forces in shaping modern bovine genomic variation.

  9. European ancestry predominates in neuromyelitis optica and multiple sclerosis patients from Brazil.

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    Doralina Guimarães Brum

    Full Text Available BACKGROUND: Neuromyelitis optica (NMO is considered relatively more common in non-Whites, whereas multiple sclerosis (MS presents a high prevalence rate, particularly in Whites from Western countries populations. However, no study has used ancestry informative markers (AIMs to estimate the genetic ancestry contribution to NMO patients. METHODS: Twelve AIMs were selected based on the large allele frequency differences among European, African, and Amerindian populations, in order to investigate the genetic contribution of each ancestral group in 236 patients with MS and NMO, diagnosed using the McDonald and Wingerchuck criteria, respectively. All 128 MS patients were recruited at the Faculty of Medicine of Ribeirão Preto (MS-RP, Southeastern Brazil, as well as 108 healthy bone marrow donors considered as healthy controls. A total of 108 NMO patients were recruited from five Neurology centers from different Brazilian regions, including Ribeirão Preto (NMO-RP. PRINCIPAL FINDINGS: European ancestry contribution was higher in MS-RP than in NMO-RP (78.5% vs. 68.7% patients. In contrast, African ancestry estimates were higher in NMO-RP than in MS-RP (20.5% vs. 12.5% patients. Moreover, principal component analyses showed that groups of NMO patients from different Brazilian regions were clustered close to the European ancestral population. CONCLUSIONS: Our findings demonstrate that European genetic contribution predominates in NMO and MS patients from Brazil.

  10. Continental environment variations (climate, erosion) recorded by Marine quaternary sediments of the northwestern and eastern African margins

    Science.gov (United States)

    Faugères, J. C.; Pujol, Cl.

    Samples collected from 4 sites on the northwestern and eastern African margins were used to test the reliability of marine sedimentary record of continental environmental variations, during the last Glacial and Interglacial climatic cycle. On the northwestern margin which is passive and stable (between Cape Verde and Cape Blanc), climatic variations are marked by parameters such as sedimentary facies, sedimentary dynamics, sedimentation rates or faunal assemblages. These parameters are controlled by climatic changes that modify continental environments (erosion conditions, rate of terrigenous supplies) and marine environments as well (sea-level, currents and biogenic sediment productivity). On the opposite, in the Gulf of Aden, 3 sites show the extent to which tectonics may affect the record of environment modifications due to climatic changes. In the East of the Gulf, on the Sukra margin that is passive but with young and still active structures, the continental slope is uneven with tectonic basins acting as sediment traps. Here, several parameters like sedimentation rates become unreliable for they no longer reflect the importance of terrigenous inputs nor that of primary productivity. Further to the West, the deep narrow trough of Alula Fartak and the epicontinental domain belonging to the Assal rift (Ghubbet el Kharab), are part of highly active tectonic and volcanic margins. Continental environment variations cease to be recorded through sedimentological parameters which are closely related to morpho-structural and volcanic factors.

  11. CPAFFC Working Group Attends Sino-African Initiative Conference

    Institute of Scientific and Technical Information of China (English)

    Duan; Jun

    2013-01-01

    <正>A CPAFFC working group led by its Vice President Xie Yuan attended the 2013 Sino-African Initiative (SAI) Conference sponsored by Sister Cities International (SCI) of the United States and organized by the Eastern Africa Sister Cities (EASC) in Nairobi, Kenya, from January 31 to February 2. About 60 officials and representatives of sister cities associations from China, the United States, Kenya, Nigeria and

  12. Quantification of Maxillary Dental Arcade Curvature and the Estimation of Biological Ancestry in Forensic Anthropology.

    Science.gov (United States)

    Clark, Melissa A; Guatelli-Steinberg, Debbie; Hubbe, Mark; Stout, Sam

    2016-01-01

    Previous studies suggest that palate shape is a useful indicator of biological ancestry in human remains. This study evaluates interobserver error in ancestry estimation using palate shape and explores palate shape variation in Gullah (descendants of West Africans) and Seminole (Indigenous American) population samples using geometric morphometric analysis. Ten participants were asked to ascribe biological ancestry and shape to 28 dental casts based on a classification scheme employed in previous studies. The mean correct classification was 42.0%, indicating that the likelihood of assigning the correct ancestry is very poor and not significantly different from random assignment (p = 0.12). The accuracy analysis based on categorical classification of the casts was complemented by geometric morphometric analysis of nine 3D landmarks reflecting palate shape of 158 casts. Principal component analysis results show no difference between populations regarding palate shape, and cross-validated discriminant function analysis correctly classified only 62.0% of the specimens. Combined, these results show that previous methods to estimate ancestry are inaccurate and that this inaccuracy is probably due to a lack of palate shape differences between groups, rather than limitation of the analytical method per se. Therefore, we recommend caution should be used when choosing to apply the analysis of palate shape in forensically relevant contexts. PMID:26259114

  13. The Lord’s Resistance Army: an African Terrorist Group?

    OpenAIRE

    Emma Leonard

    2011-01-01

    The years since 9/11 have been characterised by the increasing threat of terrorist action in the  Middle East and South Asia. Yet Sub-Saharan Africa was has also become a region of concern. In 1998, it had been the scene of two Al-Qaeda attacks against US embassies; besides Africa is home to large Muslim populations. Since 9/11 African violent non-state groups unrelated to Al- Qaeda or to the wider Islamist movement have been recast as terrorist organisations. These groups primarily oper...

  14. Accuracy of administratively-assigned ancestry for diverse populations in an electronic medical record-linked biobank.

    Directory of Open Access Journals (Sweden)

    Jacob B Hall

    Full Text Available Recently, the development of biobanks linked to electronic medical records has presented new opportunities for genetic and epidemiological research. Studies based on these resources, however, present unique challenges, including the accurate assignment of individual-level population ancestry. In this work we examine the accuracy of administratively-assigned race in diverse populations by comparing assigned races to genetically-defined ancestry estimates. Using 220 ancestry informative markers, we generated principal components for patients in our dataset, which were used to cluster patients into groups based on genetic ancestry. Consistent with other studies, we find a strong overall agreement (Kappa  = 0.872 between genetic ancestry and assigned race, with higher rates of agreement for African-descent and European-descent assignments, and reduced agreement for Hispanic, East Asian-descent, and South Asian-descent assignments. These results suggest caution when selecting study samples of non-African and non-European backgrounds when administratively-assigned race from biobanks is used.

  15. Genetic ancestry analysis in non-alcoholic fatty liver diseasepatients from Brazil and Portuga

    Institute of Scientific and Technical Information of China (English)

    2015-01-01

    to those with S. Steatosis from each cohort(Brazilian cohort: P = 0.75; Portuguese cohort: P =0.97). Nonetheless, the genetic ancestry contribution ofthe Brazilian and Portuguese population were different,and a greater European and Amerindian ancestrycontribution was detected in the Portuguese populationwhile a higher African genetic ancestry contribution wasobserved in Brazilian population of both NASH and S.Steatosis groups.CONCLUSION: There was no difference betweenthe genetic ancestry contribution among Brazilian andPortuguese individuals with NASH and S. Steatosis fromeach cohort.

  16. Multiple loci associated with renal function in African Americans.

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    Daniel Shriner

    Full Text Available The incidence of chronic kidney disease varies by ethnic group in the USA, with African Americans displaying a two-fold higher rate than European Americans. One of the two defining variables underlying staging of chronic kidney disease is the glomerular filtration rate. Meta-analysis in individuals of European ancestry has identified 23 genetic loci associated with the estimated glomerular filtration rate (eGFR. We conducted a follow-up study of these 23 genetic loci using a population-based sample of 1,018 unrelated admixed African Americans. We included in our follow-up study two variants in APOL1 associated with end-stage kidney disease discovered by admixture mapping in admixed African Americans. To address confounding due to admixture, we estimated local ancestry at each marker and global ancestry. We performed regression analysis stratified by local ancestry and combined the resulting regression estimates across ancestry strata using an inverse variance-weighted fixed effects model. We found that 11 of the 24 loci were significantly associated with eGFR in our sample. The effect size estimates were not significantly different between the subgroups of individuals with two copies of African ancestry vs. two copies of European ancestry for any of the 11 loci. In contrast, allele frequencies were significantly different at 10 of the 11 loci. Collectively, the 11 loci, including four secondary signals revealed by conditional analyses, explained 14.2% of the phenotypic variance in eGFR, in contrast to the 1.4% explained by the 24 loci in individuals of European ancestry. Our findings provide insight into the genetic basis of variation in renal function among admixed African Americans.

  17. Sediment Dynamics off the East African Continental Margin during the Last Deglaciation and the Holocene: Constrained by Changes in Climate and Sea Level

    OpenAIRE

    Liu, Xiting

    2014-01-01

    This thesis focused on sediment dynamics on the East African continental margin and their response to paleoclimatic and sea-level changes on a millennial time scale during the last deglaciation and Holocene. High-resolution Holocene sedimentary records (core GeoB12605-3) from the continental shelf off Tanzania indicate that that there has been a shift in the sedimentation regime during the past 10 ka. During the early Holocene, when climate was humid, sediments were dominated by the allochtho...

  18. The Lord’s Resistance Army: an African Terrorist Group?

    Directory of Open Access Journals (Sweden)

    Emma Leonard

    2011-01-01

    Full Text Available The years since 9/11 have been characterised by the increasing threat of terrorist action in the  Middle East and South Asia. Yet Sub-Saharan Africa was has also become a region of concern. In 1998, it had been the scene of two Al-Qaeda attacks against US embassies; besides Africa is home to large Muslim populations. Since 9/11 African violent non-state groups unrelated to Al- Qaeda or to the wider Islamist movement have been recast as terrorist organisations. These groups primarily operate in conflict zones, an area of research that traditionally has not been the main focus of Terrorism Studies. Protagonists have at various times been called freedom fighters, rebels, warlords, insurgents or simply violent gangs. This article looks at the most notorious of African groups – the Lord’s Resistance Army (LRA. It argues that some groups like the LRA have been recast as terrorist organisations not because of a change in their activities but due to a change in the geo-strategic environment they found themselves in the post-9/11 period. The LRA’s ideology and tactics will be judged against a broad definition of terrorism in order to test whether the group can, in an objective way, be called a terrorist organisation. It is concluded that the LRA is too ambiguous an organisation to be simply labelled in such a way. It is also suggested that the terrorism label has in fact been an obstacle to attempts to end successfully a confrontation that is now going into its 24th year. 

  19. Principles of Geological Mapping of Marine Sediments (with Special Reference to the African Continental Margin). Unesco Reports in Marine Science No. 37.

    Science.gov (United States)

    Lisitzin, Alexandre P.

    Designed to serve as a complement to the Unesco Technical Papers in Marine Science, this report concentrates on theoretical and practical problems of geological mapping of the sea floor. An introduction is given to geological mapping procedures at continental margins as well as some practical recommendations taking as an example the African region…

  20. Gravity study of the Central African Rift system: A model of continental disruption 1. The Ngaoundere and Abu Gabra Rifts

    Science.gov (United States)

    Browne, S. E.; Fairhead, J. D.

    1983-05-01

    A regional compilation of published and unpublished gravity data for Central Africa is presented and reveals the presence of a major rift system, called here, the Central African Rift System. It is proposed that the junction area between the Ngaoundere and Abu Gabra rift arms in Western Sudan forms an incipient intraplate, triple-junction with the as yet unfractured, but domally uplifted and volcanically active, Darfur swell. It is only the Darfur swell that shows any similarities to the uplift and rift history of East Africa. The other two rifts arms are considered to be structurally similar to the early stages of passive margin development and thus reflect more closely the initial processes of continental fragmentation than the structures associated with rifting in East Africa.

  1. Southern African continental climate since the late Pleistocene: Insights from biomarker analyses of Kalahari salt pan sediments

    Science.gov (United States)

    Belz, Lukas; Schüller, Irka; Wehrmann, Achim; Wilkes, Heinz

    2016-04-01

    The climate system of sub-tropical southern Africa is mainly controlled by large scale atmospheric and marine circulation processes and, therefore, very sensitive to global climate change. This underlines the importance of paleoenvironmental reconstructions in order to estimate regional implications of current global changes. However, the majority of studies on southern African paleoclimate are based on the investigation of marine sedimentary archives and past climate development especially in continental areas is still poorly understood. This emphasizes the necessity of continental proxy-data from this area. Proxy datasets from local geoarchives especially of the southwestern Kalahari region are still scarce. A main problem is the absence of conventional continental climatic archives, due to the lack of lacustrine systems. In this study we are exploring the utility of sediments from western Kalahari salt pans, i.e. local depressions which are flooded temporarily during rainfall events. An age model based on 14C dating of total organic carbon (TOC) shows evidence that sedimentation predominates over erosional processes with respect to pan formation. Besides the analyses of basic geochemical bulk parameters including TOC, δ13CTOC, total inorganic carbon, δ13CTIC, δ18OTIC, total nitrogen and δ15N, our paleo-climatic approach focuses on reconstruction of local vegetation assemblages to identify changes in the ecosystem. This is pursued using plant biomarkers, particularly leaf wax n-alkanes and n-alcohols and their stable carbon and hydrogen isotopic signatures. Results show prominent shifts in n-alkane and n-alkanol distributions and compound specific carbon isotope values, pointing to changes to a more grass dominated environment during Heinrich Stadial 1 (18.5-14.6 ka BP), while hydrogen isotope values suggest wetter phases during Holocene and LGM. This high variability indicates the local vulnerability to global change.

  2. A continental analysis of correlations between tree patterns in African savannas and human and environmental variables

    NARCIS (Netherlands)

    Groen, T.A.; Langevelde, van F.; Vijver, van de C.A.D.M.; Raad, de A.L.; Leeuw, de J.; Prins, H.H.T.

    2011-01-01

    This study analyses possible relationships between natural processes taking place in savannas and the tree patterns found in savannas. This can lead to new hypotheses about which processes are driving savanna physiognomy. To do so tree patterns were quantified for African savannas from historical ae

  3. Male ancestry structure and interethnic admixture in African-descent communities from the Amazon as revealed by Y-chromosome Strs.

    Science.gov (United States)

    Palha, Teresinha de Jesus Brabo Ferreira; Ribeiro-Rodrigues, Elzemar Martins; Ribeiro-dos-Santos, Andrea; Guerreiro, João Farias; de Moura, Luciene Soraya Souza; Santos, Sidney

    2011-03-01

    Some genetic markers on both the Y chromosome and mtDNA are highly polymorphic and population-specific in humans, representing useful tools for reconstructing the past history of populations with poor historical records. Such lack of information is usually true in the case of recent African-descent populations of the New World founded by fugitive slaves throughout the slavery period in the Americas, particularly in Brazil, where those communities are known as quilombos. Aiming to recover male-derived ethnic structure of nine quilombos from the Brazilian Amazon, a total of 300 individuals, belonging to Mazagão Velho (N = 24), Curiaú (N = 48), Mazagão (N = 36), Trombetas (N = 20), Itacoã (N = 22), Saracura (N = 46), Marajó (N = 58), Pitimandeua (N = 26), and Pontal (N = 20), were investigated for nine Y-STRs (DYS393, DYS19, DYS390, DYS389 I, DYS389 II, DYS392, DYS391, DYS385 I/II). From the 169 distinct haplotypes obtained, 120 were singletons. The results suggest the West African coast as the main origin of slaves brought to Brazil (54% of male contribution); the European contribution was high (41%), while the Amerindian's was low (5%). Those results contrast with previous mtDNA data that showed high Amerindian female contribution (46.6%) in African-descent populations. AMOVA suggests that the genetic differentiation among the quilombos is mainly influenced by admixture with European. However, when restricting AMOVA to African-specific haplotypes, low differentiation was detected, suggesting great genetic homogeneity of the African founding populations and/or a later homogenization by intense slave trade inside Brazil. PMID:21302273

  4. Taxonomic revision of the tropical African group of Carex subsect. Elatae (sect. Spirostachyae, Cyperaceae

    Directory of Open Access Journals (Sweden)

    Escudero, Marcial

    2011-12-01

    Full Text Available The tropical African monophyletic group of Carex subsect. Elatae (sect. Spirostachyae is distributed in continental tropical Africa, Madagascar, the Mascarene archipelago, and Bioko Island (32 km off the coast of West Africa, in the Gulf of Guinea. The first monographic treatment of this Carex group, as well as of the tribe Cariceae, was published by Kükenthal (as sect. Elatae Kük.. Recently, the first molecular (nrDNA, cpDNA phylogeny of Carex sect. Elatae has been published, which also included the species of sect. Spirostachyae. In the resulting consensus trees, most species of sect. Elatae were embedded within core Spirostachyae and so this section was joined with sect. Spirostachyae as subsect. Elatae. Within subsect. Elatae, several groups were described, one of which was termed the “tropical African group”. Here we present a taxonomic revision of this group, based on more than 280 vouchers from 29 herbaria as well as in field trips in Tropical Africa. In the revision, we recognise 12 species (16 taxa within the tropical African group, and so have somewhat modified our previous view, in which 10 species, 12 taxa were listed. One new species from Tanzania is included in this treatment, C. uluguruensis Luceño & M. Escudero. Several combinations are made, C. cyrtosaccus is treated as a synonym of C. vallis-rosetto and, finally, the binomial C. greenwayi has been recognised.Las especies de la subsección Elatae (sección Spirostachyae del género Carex que se distribuyen por África tropical continental, Madagascar, el archipiélago de las Mascareñas y la isla de Bioko (a 32 km del litoral de África occidental, en el golfo de Guinea forman un grupo monofilético. El primer tratamiento taxonómico de este grupo de cárices, así como de la tribu Cariceae en su conjunto, fue elaborado por Kükenthal (sección Elatae Kük.; recientemente, se ha publicado el primer estudio de filogenia molecular (nrDNA, cpDNA de los táxones de este grupo

  5. Analysis of Prostate Cancer Susceptibility Variants in South African Men: Replicating Associations on Chromosomes 8q24 and 10q11

    Directory of Open Access Journals (Sweden)

    Pedro Fernandez

    2015-01-01

    Full Text Available Genome-wide association studies (GWAS have implicated single nucleotide polymorphisms (SNPs on chromosomes 2p15, 6q25, 7p15.2, 7q21, 8q24, 10q11, 10q26, 11q13, 17q12, 17q24, 19q13, and Xp11, with prostate cancer (PCa susceptibility and/or tumour aggressiveness, in populations of African, European, and Asian ancestry. The objective of this study was to confirm these associations in South African Mixed Ancestry and White men. We evaluated 17 prioritised GWAS SNPs in South African cases (331 Mixed Ancestry and 155 White and controls (178 Mixed Ancestry and 145 White. The replicated SNP associations for the different South African ethnic groups were rs7008482 (8q24 (p=2.45×10-5, rs6983267 (8q24 (p=4.48×10-7, and rs10993994 (10q11 (p=1.40×10-3 in Mixed Ancestry men and rs10993994 (p=1.56×10-9 in White men. No significant associations were observed for the analyses stratified by disease aggressiveness in the individual and the combined population group analysis. The present study demonstrates that a number of known PCa susceptibility variants may contribute to disease susceptibility in South African men. Larger genetic investigations extended to other South African population groups are warranted to confirm the role of these and other SNPs in disease susceptibility.

  6. Genomics assisted ancestry deconvolution in grape.

    Directory of Open Access Journals (Sweden)

    Jason Sawler

    Full Text Available The genus Vitis (the grapevine is a group of highly diverse, diploid woody perennial vines consisting of approximately 60 species from across the northern hemisphere. It is the world's most valuable horticultural crop with ~8 million hectares planted, most of which is processed into wine. To gain insights into the use of wild Vitis species during the past century of interspecific grape breeding and to provide a foundation for marker-assisted breeding programmes, we present a principal components analysis (PCA based ancestry estimation method to calculate admixture proportions of hybrid grapes in the United States Department of Agriculture grape germplasm collection using genome-wide polymorphism data. We find that grape breeders have backcrossed to both the domesticated V. vinifera and wild Vitis species and that reasonably accurate genome-wide ancestry estimation can be performed on interspecific Vitis hybrids using a panel of fewer than 50 ancestry informative markers (AIMs. We compare measures of ancestry informativeness used in selecting SNP panels for two-way admixture estimation, and verify the accuracy of our method on simulated populations of admixed offspring. Our method of ancestry deconvolution provides a first step towards selection at the seed or seedling stage for desirable admixture profiles, which will facilitate marker-assisted breeding that aims to introgress traits from wild Vitis species while retaining the desirable characteristics of elite V. vinifera cultivars.

  7. Molecular genetics of X chromosome-linked color vision among populations of African and Japanese ancestry: High frequency of a shortened red pigment gene among Afro-Americans

    Energy Technology Data Exchange (ETDEWEB)

    Joergensen, A.L.; Deeb, S.S.; Motulsky, A.G. (Univ. of Washington, Seattle (USA))

    1990-09-01

    Red-green color vision in humans is mediated by the X chromosome-linked highly homologous red and green pigment genes. Color vision defects are caused by deletions and fusions involving these genes. However, the authors found the frequency of molecular abnormalities among Caucasians to be twice as high as that of phenotypic color vision defects. Among Japanese the frequency of phenotypic and molecular color vision defects was similar. Among Afro-Americans, molecular defects were at least five times more frequent than phenotypic color vision defects. In addition, 35% of Afro-Americans, 2% of Japanese, and <1% of Caucasians had a shortened red pigment gene not associated with phenotpyic color vision defects. This gene lacked 1.9 kilobases in its first intron and had the identical size as the green pigment gene from which it presumably originated by gene conversion in an ancestral African population. This gene and the closely linked glucose-6-phosphate dehydrogenase A{sup +} variant were in linkage equilibrium. A model for the evolutionary origin of the color vision pigment genes in higher primates is portrayed.

  8. Numerical modeling of continental rifting: Implications for the East African Rift system

    Science.gov (United States)

    Koptev, Alexander; Burov, Evgueni; Calais, Eric; Leroy, Sylvie; Gerya, Taras; Guillou-Frottier, Laurent; Cloetingh, Sierd

    2016-04-01

    The East African Rift system (EARS) provides a unique system with juxtaposition of two contrasting yet simultaneously formed rift branches, the eastern, magma-rich, and the western, magma-poor, on either side of the old thick Tanzanian craton embedded into younger lithosphere. Here we take advantage of the improvements in our understanding of deep structures, geological evolution and recent kinematics, together with new cutting edge numerical modeling techniques to design a three-dimensional ultra-high resolution viscous plastic thermo-mechanical numerical model that accounts for thermo-rheological structure of the lithosphere and hence captures the essential geophysical features of the central EARS. Based on our experiments, we show that in case of the mantle plume seeded slightly to the northeast of the craton center, the ascending plume material is deflected by the cratonic keel and preferentially channeled along the eastern side of the craton, leading to formation of a large rift zone characterized by important magmatic activity with substantial amounts of melts derived from mantle plume material. This model is in good agreement with the observations in the EARS, as it reproduces the magmatic eastern branch and at the same time, anticlockwise rotation of the craton. However, this experiment does not reproduce the observed strain localization along the western margin of the cratonic bloc. To explain the formation of contrasting magmatic and amagmatic rift branches initiating simultaneously on either side of a non-deforming block as observed in the central EARS, we experimentally explored several scenarios of which three can be retained as specifically pertaining to the EARS: (1) The most trivial first scenario assumes rheologically weak vertical interface simulating the suture zone observed in the geological structure along the western border of the craton; (2) The second scenario involves a second smaller plume initially shifted in SW direction; (3) Finally, a

  9. Geology and metallogeny of the Ar Rayn terrane, eastern Arabian shield: Evolution of a Neoproterozoic continental-margin arc during assembly of Gondwana within the East African orogen

    Science.gov (United States)

    Doebrich, J.L.; Al-Jehani, A. M.; Siddiqui, A.A.; Hayes, T.S.; Wooden, J.L.; Johnson, P.R.

    2007-01-01

    characteristics of the Ar Rayn terrane are analogous to the Andean continental margin of Chile, with opposite subduction polarity. The Ar Rayn terrane represents a continental margin arc that lay above a west-dipping subduction zone along a continental block represented by the Afif composite terrane. The concentration of epithermal, porphyry Cu and IOCG mineral systems, of central arc affiliation, along the AAF suggests that the AAF is not an ophiolitic suture zone, but originated as a major intra-arc fault that localized magmatism and mineralization. West-directed oblique subduction and ultimate collision with a land mass from the east (East Gondwana?) resulted in major transcurrent displacement along the AAF, bringing the eastern part of the arc terrane to its present exposed position, juxtaposed across the AAF against a back-arc basin assemblage represented by the Abt schist of the Ad Dawadimi terrane. Our findings indicate that arc formation and accretionary processes in the Arabian shield were still ongoing into the latest Neoproterozoic (Ediacaran), to about 620-600 Ma, and lead us to conclude that evolution of the Ar Rayn terrane (arc formation, accretion, syn- to postorogenic plutonism) defines a final stage of assembly of the Gondwana supercontinent along the northeastern margin of the East African orogen. ?? 2007 Elsevier B.V. All rights reserved.

  10. Enhanced methods for local ancestry assignment in sequenced admixed individuals.

    Directory of Open Access Journals (Sweden)

    Robert Brown

    2014-04-01

    Full Text Available Inferring the ancestry at each locus in the genome of recently admixed individuals (e.g., Latino Americans plays a major role in medical and population genetic inferences, ranging from finding disease-risk loci, to inferring recombination rates, to mapping missing contigs in the human genome. Although many methods for local ancestry inference have been proposed, most are designed for use with genotyping arrays and fail to make use of the full spectrum of data available from sequencing. In addition, current haplotype-based approaches are very computationally demanding, requiring large computational time for moderately large sample sizes. Here we present new methods for local ancestry inference that leverage continent-specific variants (CSVs to attain increased performance over existing approaches in sequenced admixed genomes. A key feature of our approach is that it incorporates the admixed genomes themselves jointly with public datasets, such as 1000 Genomes, to improve the accuracy of CSV calling. We use simulations to show that our approach attains accuracy similar to widely used computationally intensive haplotype-based approaches with large decreases in runtime. Most importantly, we show that our method recovers comparable local ancestries, as the 1000 Genomes consensus local ancestry calls in the real admixed individuals from the 1000 Genomes Project. We extend our approach to account for low-coverage sequencing and show that accurate local ancestry inference can be attained at low sequencing coverage. Finally, we generalize CSVs to sub-continental population-specific variants (sCSVs and show that in some cases it is possible to determine the sub-continental ancestry for short chromosomal segments on the basis of sCSVs.

  11. Crustal structure variations along the NW-African continental margin: A comparison of new and existing models from wide-angle and reflection seismic data

    Science.gov (United States)

    Klingelhoefer, Frauke; Biari, Youssef; Sahabi, Mohamed; Aslanian, Daniel; Schnabel, Michael; Matias, Luis; Benabdellouahed, Massinissa; Funck, Thomas; Gutscher, Marc-André; Reichert, Christian; Austin, James A.

    2016-04-01

    Deep seismic data represent a key to understand the geometry and mechanism of continental rifting. The passive continental margin of NW-Africa is one of the oldest on earth, formed during the Upper Triassic-Lower Liassic rifting of the central Atlantic Ocean over 200 Ma. We present new and existing wide-angle and reflection seismic data from four study regions along the margin located in the south offshore DAKHLA, on the central continental margin offshore Safi, in the northern Moroccan salt basin, and in the Gulf of Cadiz. The thickness of unthinned continental crust decreases from 36 km in the North to about 27 km in the South. Crustal thinning takes place over a region of 150 km in the north and only 70 km in the south. The North Moroccan Basin is underlain by highly thinned continental crust of only 6-8 km thickness. The ocean-continent transition zone shows a variable width between 40 and 70 km and is characterized by seismic velocities in between those of typical oceanic and thinned continental crust. The neighbouring oceanic crust is characterized by a thickness of 7-8 km along the complete margin. Relatively high velocities of up to 7.5 km/s have been imaged between magnetic anomalies S1 and M25, and are probably related to changes in the spreading velocities at the time of the Kimmeridgian/Tithonian plate reorganization. Volcanic activity seems to be mostly confined to the region next to the Canary Islands, and is thus not related to the initial opening of the ocean, which was associated to only weak volcanism. Comparison with the conjugate margin off Nova Scotia shows comparable continental crustal structures, but 2-3 km thinner oceanic crust on the American side than on the African margin.

  12. Inter-laboratory evaluation of the EUROFORGEN Global ancestry-informative SNP panel by massively parallel sequencing using the Ion PGM™.

    Science.gov (United States)

    Eduardoff, M; Gross, T E; Santos, C; de la Puente, M; Ballard, D; Strobl, C; Børsting, C; Morling, N; Fusco, L; Hussing, C; Egyed, B; Souto, L; Uacyisrael, J; Syndercombe Court, D; Carracedo, Á; Lareu, M V; Schneider, P M; Parson, W; Phillips, C; Parson, W; Phillips, C

    2016-07-01

    The EUROFORGEN Global ancestry-informative SNP (AIM-SNPs) panel is a forensic multiplex of 128 markers designed to differentiate an individual's ancestry from amongst the five continental population groups of Africa, Europe, East Asia, Native America, and Oceania. A custom multiplex of AmpliSeq™ PCR primers was designed for the Global AIM-SNPs to perform massively parallel sequencing using the Ion PGM™ system. This study assessed individual SNP genotyping precision using the Ion PGM™, the forensic sensitivity of the multiplex using dilution series, degraded DNA plus simple mixtures, and the ancestry differentiation power of the final panel design, which required substitution of three original ancestry-informative SNPs with alternatives. Fourteen populations that had not been previously analyzed were genotyped using the custom multiplex and these studies allowed assessment of genotyping performance by comparison of data across five laboratories. Results indicate a low level of genotyping error can still occur from sequence misalignment caused by homopolymeric tracts close to the target SNP, despite careful scrutiny of candidate SNPs at the design stage. Such sequence misalignment required the exclusion of component SNP rs2080161 from the Global AIM-SNPs panel. However, the overall genotyping precision and sensitivity of this custom multiplex indicates the Ion PGM™ assay for the Global AIM-SNPs is highly suitable for forensic ancestry analysis with massively parallel sequencing. PMID:27208666

  13. Neither self-reported ethnicity nor declared family origin are reliable indicators of genomic ancestry.

    Science.gov (United States)

    Ramos, Bruna Ribeiro de Andrade; D'Elia, Maria Paula Barbieri; Amador, Marcos Antônio Trindade; Santos, Ney Pereira Carneiro; Santos, Sidney Emanuel Batista; da Cruz Castelli, Erick; Witkin, Steven S; Miot, Hélio Amante; Miot, Luciane Donida Bartoli; da Silva, Márcia Guimarães

    2016-06-01

    Ancestry information can be useful in investigations of diseases with a genetic or infectious background. As the Brazilian population is highly admixed physical traits tend to be poor indicators of ancestry. The assessment of ancestry by ancestry informative markers (AIMs) can exclude the subjectivity of self-declared ethnicity and reported family origin. We aimed to evaluate the reliability of self-reported ethnicity or reported family origin as indicators of genomic ancestry in a female population from the Southeast of Brazil. Two cohorts were included: 404 women asked to self-report their ethnicity (Pop1) and 234 women asked to report their family's origin (Pop2). Identification of AIMs was performed using a panel of 61 markers and results were plotted against parental populations-Amerindian, Western European and Sub-Saharan African-using Structure v2.3.4. In Pop1 57.4 % of women self-reported as white, 34.6 % as brown and 8.0 % as black. Median global European, Amerindian and African contributions were 66.8, 12.6 and 16.6 %. In Pop2, 66.4 % of women declared European origin, 23.9 % African origin and 26.9 % Amerindian. Median global European, Amerindian and African contributions were 80.8, 7.3 and 7.6 %, respectively. Only 31.0 and 21.0 % of the global variation in African and European contributions, respectively, could be explained by self-reported ethnicity and reported family origin only accounted for 20.0 and 5.0 % of the variations observed in African and European ancestries, respectively. Amerindian ancestry did not influence self-reported ethnicity or declared family origin. Neither self-reported ethnicity nor declared family origin are reliable indicators of genomic ancestry in these Brazilian populations. PMID:26984822

  14. Neither self-reported ethnicity nor declared family origin are reliable indicators of genomic ancestry.

    Science.gov (United States)

    Ramos, Bruna Ribeiro de Andrade; D'Elia, Maria Paula Barbieri; Amador, Marcos Antônio Trindade; Santos, Ney Pereira Carneiro; Santos, Sidney Emanuel Batista; da Cruz Castelli, Erick; Witkin, Steven S; Miot, Hélio Amante; Miot, Luciane Donida Bartoli; da Silva, Márcia Guimarães

    2016-06-01

    Ancestry information can be useful in investigations of diseases with a genetic or infectious background. As the Brazilian population is highly admixed physical traits tend to be poor indicators of ancestry. The assessment of ancestry by ancestry informative markers (AIMs) can exclude the subjectivity of self-declared ethnicity and reported family origin. We aimed to evaluate the reliability of self-reported ethnicity or reported family origin as indicators of genomic ancestry in a female population from the Southeast of Brazil. Two cohorts were included: 404 women asked to self-report their ethnicity (Pop1) and 234 women asked to report their family's origin (Pop2). Identification of AIMs was performed using a panel of 61 markers and results were plotted against parental populations-Amerindian, Western European and Sub-Saharan African-using Structure v2.3.4. In Pop1 57.4 % of women self-reported as white, 34.6 % as brown and 8.0 % as black. Median global European, Amerindian and African contributions were 66.8, 12.6 and 16.6 %. In Pop2, 66.4 % of women declared European origin, 23.9 % African origin and 26.9 % Amerindian. Median global European, Amerindian and African contributions were 80.8, 7.3 and 7.6 %, respectively. Only 31.0 and 21.0 % of the global variation in African and European contributions, respectively, could be explained by self-reported ethnicity and reported family origin only accounted for 20.0 and 5.0 % of the variations observed in African and European ancestries, respectively. Amerindian ancestry did not influence self-reported ethnicity or declared family origin. Neither self-reported ethnicity nor declared family origin are reliable indicators of genomic ancestry in these Brazilian populations.

  15. What Ancestry Can Tell Us About the Genetic Origins of Inter-Ethnic Differences in Asthma Expression.

    Science.gov (United States)

    Hernandez-Pacheco, Natalia; Flores, Carlos; Oh, Sam S; Burchard, Esteban G; Pino-Yanes, Maria

    2016-07-01

    Differences in asthma prevalence have been described across different populations, suggesting that genetic ancestry can play an important role in this disease. In fact, several studies have demonstrated an association between African ancestry with increased asthma susceptibility and severity, higher immunoglobulin E levels, and lower lung function. In contrast, Native American ancestry has been shown to have a protective role for this disease. Genome-wide association studies have allowed the identification of population-specific genetic variants with varying allele frequency among populations. Additionally, the correlation of genetic ancestry at the chromosomal level with asthma and related traits by means of admixture mapping has revealed regions of the genome where ancestry is correlated with the disease. In this review, we discuss the evidence supporting the association of genetic ancestry with asthma susceptibility and asthma-related traits, and highlight the regions of the genome harboring ancestry-specific genetic risk factors. PMID:27393700

  16. Mitochondrial DNA Fails to Pinpoint African Ancestry

    Institute of Scientific and Technical Information of China (English)

    葛群燕

    2006-01-01

    最新的线粒体基因(Mitochondrial DNA)研究结果恐怕要让一些黑人失望了:他们想要确定自己究竟属于哪一个具体的非洲部族,然而在抽样研究中,只有不到10%的样本可以确定与之完全吻合的部落族群,有一半的基因样本与多种部族相吻合,另有40%的样本基因则根本找不到与其吻合的非洲部族。这项新的基因研究技术最终能否给黑人们带来满意的答案呢?有限的数据限制了目前的研究,我们只能拭目以待。

  17. Exploring the Y Chromosomal Ancestry of Modern Panamanians.

    Science.gov (United States)

    Grugni, Viola; Battaglia, Vincenza; Perego, Ugo Alessandro; Raveane, Alessandro; Lancioni, Hovirag; Olivieri, Anna; Ferretti, Luca; Woodward, Scott R; Pascale, Juan Miguel; Cooke, Richard; Myres, Natalie; Motta, Jorge; Torroni, Antonio; Achilli, Alessandro; Semino, Ornella

    2015-01-01

    Geologically, Panama belongs to the Central American land-bridge between North and South America crossed by Homo sapiens >14 ka ago. Archaeologically, it belongs to a wider Isthmo-Colombian Area. Today, seven indigenous ethnic groups account for 12.3% of Panama's population. Five speak Chibchan languages and are characterized by low genetic diversity and a high level of differentiation. In addition, no evidence of differential structuring between maternally and paternally inherited genes has been reported in isthmian Chibchan cultural groups. Recent data have shown that 83% of the Panamanian general population harbour mitochondrial DNAs (mtDNAs) of Native American ancestry. Considering differential male/female mortality at European contact and multiple degrees of geographical and genetic isolation over the subsequent five centuries, the Y-chromosome Native American component is expected to vary across different geographic regions and communities in Panama. To address this issue, we investigated Y-chromosome variation in 408 modern males from the nine provinces of Panama and one indigenous territory (the comarca of Kuna Yala). In contrast to mtDNA data, the Y-chromosome Native American component (haplogroup Q) exceeds 50% only in three populations facing the Caribbean Sea: the comarca of Kuna Yala and Bocas del Toro province where Chibchan languages are spoken by the majority, and the province of Colón where many Kuna and people of mixed indigenous-African-and-European descent live. Elsewhere the Old World component is dominant and mostly represented by western Eurasian haplogroups, which signal the strong male genetic impact of invaders. Sub-Saharan African input accounts for 5.9% of male haplotypes. This reflects the consequences of the colonial Atlantic slave trade and more recent influxes of West Indians of African heritage. Overall, our findings reveal a local evolution of the male Native American ancestral gene pool, and a strong but geographically

  18. Exploring the Y Chromosomal Ancestry of Modern Panamanians.

    Directory of Open Access Journals (Sweden)

    Viola Grugni

    Full Text Available Geologically, Panama belongs to the Central American land-bridge between North and South America crossed by Homo sapiens >14 ka ago. Archaeologically, it belongs to a wider Isthmo-Colombian Area. Today, seven indigenous ethnic groups account for 12.3% of Panama's population. Five speak Chibchan languages and are characterized by low genetic diversity and a high level of differentiation. In addition, no evidence of differential structuring between maternally and paternally inherited genes has been reported in isthmian Chibchan cultural groups. Recent data have shown that 83% of the Panamanian general population harbour mitochondrial DNAs (mtDNAs of Native American ancestry. Considering differential male/female mortality at European contact and multiple degrees of geographical and genetic isolation over the subsequent five centuries, the Y-chromosome Native American component is expected to vary across different geographic regions and communities in Panama. To address this issue, we investigated Y-chromosome variation in 408 modern males from the nine provinces of Panama and one indigenous territory (the comarca of Kuna Yala. In contrast to mtDNA data, the Y-chromosome Native American component (haplogroup Q exceeds 50% only in three populations facing the Caribbean Sea: the comarca of Kuna Yala and Bocas del Toro province where Chibchan languages are spoken by the majority, and the province of Colón where many Kuna and people of mixed indigenous-African-and-European descent live. Elsewhere the Old World component is dominant and mostly represented by western Eurasian haplogroups, which signal the strong male genetic impact of invaders. Sub-Saharan African input accounts for 5.9% of male haplotypes. This reflects the consequences of the colonial Atlantic slave trade and more recent influxes of West Indians of African heritage. Overall, our findings reveal a local evolution of the male Native American ancestral gene pool, and a strong but

  19. African American and European American Students' Peer Groups during Early Adolescence: Structure, Status, and Academic Achievement

    Science.gov (United States)

    Wilson, Travis; Karimpour, Ramin; Rodkin, Philip C.

    2011-01-01

    Focusing on a sample of 382 African American (206 female) and 264 European American (132 female) students in diverse fourth and fifth grade classrooms, this study investigated three questions concerning the connections between peer groups and academic achievement during early adolescence: (a) How is group structure (i.e., hierarchy and cohesion)…

  20. Genome-wide association study of white blood cell count in 16,388 African Americans: the continental origins and genetic epidemiology network (COGENT.

    Directory of Open Access Journals (Sweden)

    Alexander P Reiner

    2011-06-01

    Full Text Available Total white blood cell (WBC and neutrophil counts are lower among individuals of African descent due to the common African-derived "null" variant of the Duffy Antigen Receptor for Chemokines (DARC gene. Additional common genetic polymorphisms were recently associated with total WBC and WBC sub-type levels in European and Japanese populations. No additional loci that account for WBC variability have been identified in African Americans. In order to address this, we performed a large genome-wide association study (GWAS of total WBC and cell subtype counts in 16,388 African-American participants from 7 population-based cohorts available in the Continental Origins and Genetic Epidemiology Network. In addition to the DARC locus on chromosome 1q23, we identified two other regions (chromosomes 4q13 and 16q22 associated with WBC in African Americans (P<2.5×10(-8. The lead SNP (rs9131 on chromosome 4q13 is located in the CXCL2 gene, which encodes a chemotactic cytokine for polymorphonuclear leukocytes. Independent evidence of the novel CXCL2 association with WBC was present in 3,551 Hispanic Americans, 14,767 Japanese, and 19,509 European Americans. The index SNP (rs12149261 on chromosome 16q22 associated with WBC count is located in a large inter-chromosomal segmental duplication encompassing part of the hydrocephalus inducing homolog (HYDIN gene. We demonstrate that the chromosome 16q22 association finding is most likely due to a genotyping artifact as a consequence of sequence similarity between duplicated regions on chromosomes 16q22 and 1q21. Among the WBC loci recently identified in European or Japanese populations, replication was observed in our African-American meta-analysis for rs445 of CDK6 on chromosome 7q21 and rs4065321 of PSMD3-CSF3 region on chromosome 17q21. In summary, the CXCL2, CDK6, and PSMD3-CSF3 regions are associated with WBC count in African American and other populations. We also demonstrate that large inter

  1. The Role of Plumes in Breakup Processes - Traces Found in the Deep Crustal Structure at the Intersection of Walvis Ridge with the African Continental Margin

    Science.gov (United States)

    Fromm, T.; Jokat, W.; Behrmann, J. H.; Ryberg, T.; Weber, M. H.

    2014-12-01

    Large igneous provinces (LIP) are often found in close temporal and spatial proximity with continental breakups, supporting the model, that an arriving mantle plume produces large amounts of melt and has a massive influence on the breakup process. The South Atlantic is a classical example, with flood basalts on both adjacent continents and a paired age progressing ridge system connecting them with the current hotspot location at Tristan da Cunha. To estimate the influence of the plume on the preexisting continental crust, a large-scale geophysical experiment was conducted in 2011 at the intersection of Walvis Ridge with the African continent. We present four P-wave velocity models derived from seismic refraction data. One extends 430 km along the ridge crest and continues onshore to a total length of 730 km, while the other three crossing the ridge perpendicular: one (480 km long) far offshore in the oceanic regime, one (600 km) close to shelf break and the last one (400 km) onshore. Crustal velocities beneath Walvis Ridge range between 5.5 km/s and 7.0 km/s, which are typical velocities for oceanic crust. The crustal thickness, however, is approximately three times larger than of normal oceanic crust: 17 km in the western part increasing to 22 km towards the continent. The continent ocean transition is characterized by 30 km thick crust with a high velocity body (HVB) in the lower crust and seismic velocities up to 7.5 km/s. The western extend of the HVB is to a similar distance from shore as for HVBs observed south of Walvis Ridge. In contrast, the eastern boundary lies well within the continental domain, at the 40 km thick crust of the Kaoko fold belt. Here, the variation of seismic velocities indicates that hot material intruded the continental crust during the initial rifting stage. However, beyond this relatively sharp boundary (40 km wide), the remaining continental crust seems unaffected by intrusions and the root of the Kaoko belt is no eroded. The cross

  2. Ancestry Analysis in the 11-M Madrid Bomb Attack Investigation

    OpenAIRE

    Christopher Phillips; Lourdes Prieto; Manuel Fondevila; Antonio Salas; Antonio Gómez-Tato; José Alvarez-Dios; Antonio Alonso; Alejandro Blanco-Verea; María Brión; Marta Montesino; Angel Carracedo; María Victoria Lareu

    2009-01-01

    The 11-M Madrid commuter train bombings of 2004 constituted the second biggest terrorist attack to occur in Europe after Lockerbie, while the subsequent investigation became the most complex and wide-ranging forensic case in Spain. Standard short tandem repeat (STR) profiling of 600 exhibits left certain key incriminatory samples unmatched to any of the apprehended suspects. A judicial order to perform analyses of unmatched samples to differentiate European and North African ancestry became a...

  3. The Features of Development in the Pacific Countries of the African, Caribbean and Pacific Group

    Science.gov (United States)

    Cuenca Garcia, Eduardo; Rodriguez Martin, Jose Antonio; Navarro Pabsdorf, Margarita

    2010-01-01

    In this article we present a new proposal for the measurement of development, applied to the Pacific Countries of the African, Caribbean and Pacific Group (ACP), conditional on their insularity, and with privileged relations with the European Union. Our index has been constructed attending to the criteria defined in the Goals of the Millennium…

  4. Evolution of the African continental crust as recorded by U-Pb, Lu-Hf and O isotopes in detrital zircons from modern rivers

    Science.gov (United States)

    Iizuka, Tsuyoshi; Campbell, Ian H.; Allen, Charlotte M.; Gill, James B.; Maruyama, Shigenori; Makoka, Frédéric

    2013-04-01

    To better understand the evolutionary history of the African continental crust, a combined U-Pb, Lu-Hf and O isotopic study has been carried out by in situ analyses of approximately 450 detrital zircon grains from the Niger, Nile, Congo, Zambezi and Orange Rivers. The U-Pb isotopic data show age peaks at ca. 2.7, 2.1-1.8, 1.2-1.0, ca. 0.8, 0.7-0.5 and ca. 0.3 Ga. These peaks, with the exception of the one at ca. 0.8 Ga, correspond with the assembly of supercontinents. Furthermore, the detrital zircons that crystallized during these periods of supercontinent assembly have dominantly non-mantle-like O and Hf isotopic signatures, in contrast to the ca. 0.8 Ga detrital zircons which have juvenile characteristics. These data can be interpreted as showing that continental collisions during supercontinent assembly resulted in supermountain building accompanied by remelting of older continental crust, which in turn led to significant erosion of young igneous rocks with non-mantle-like isotopic signatures. Alternatively, the data may indicate that the major mode of crustal development changed during the supercontinent cycle: the generation of juvenile crust in extensional settings was dominant during supercontinent fragmentation, whereas the stabilization of the generated crust via crustal accretion and reworking was important during supercontinent assembly. The Lu-Hf and O isotope systematics indicate that terreigneous sediments could attain elevated 18O/16O via prolonged sediment-sediment recycling over long crustal residence time, and also that reworking of carbonate and chert which generally have elevated 18O/16O and low Hf contents is minor in granitoid magmatism. The highest 18O/16O in detrital zircon abruptly increased at ca. 2.1 Ga and became nearly constant thereafter. This indicates that reworking of mature sediments increased abruptly at that time, probably as a result of a transition in the dynamics of either granitoid crust formation or sedimentary evolution

  5. Assessment in multicultural groups: The South African case

    Directory of Open Access Journals (Sweden)

    A. J. R. Van De Vijver

    2004-10-01

    Full Text Available It is argued that the 1998 Employment Equity Act, in which the onus of the proof to demonstrate the adequacy of psychometric instruments is on psychology as a profession, creates daunting tasks, but also creates unique opportunities. Recent developments in the assessment of multicultural groups are described, with an emphasis on procedures to enhance the validity of measures for all groups involved and on procedures to examine validity. Bias and equivalence are treated as key concepts in multicultural assessment. Four kinds of procedures for dealing with multicultural assessment (namely, establishing equivalence of existing instruments, defining new norms, developing new instruments, and studying validity-threatening factors in multicultural assessment are described and illustrated. Opsomming Daar word geredeneer dat die Wet op Billike Indiensneming, 1998, waarvolgens die onus om die geskiktheid van psigometriese instrumente te bewys na psigologie as professie verskuif, nie net oorweldigende take nie maar ook unieke geleenthede skep. Onlangse ontwikkelings rakende die evaluering van multikulturele groepe word beskryf, met die klem op prosedures om die geldigheid van metings vir alle groepe te verhoog en op prosedures om hierdie geldigheid te ondersoek. Sydigheid en ekwivalensie word as sleutelkonsepte in multikulturele evaluering behandel. Vier soorte prosedures om multikulturele evaluering te hanteer (te wete bepaling van die ekwivalensie van bestaande instrumente, definiëring van nuwe norme, ontwikkeling van nuwe instrumente en ‘n studie van faktore wat die geldigheid van multikulturele evaluering bedreig word beskryf en geïllustreer.

  6. Associations of PON1 and genetic ancestry with obesity in early childhood.

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    Karen Huen

    Full Text Available Obesity in children has become an epidemic in the U.S. and is particularly prominent in minority populations such as Mexican-Americans. In addition to physical activity and diet, genetics also plays a role in obesity etiology. A few studies in adults and adolescents suggest a link between obesity and paraoxonase 1 (PON1, a multifunctional enzyme that can metabolize organophosphate pesticides and also has antioxidant properties. We determined PON1192 genotype and arylesterase levels (ARYase, measure of PON1 enzyme quantity, to characterize the relationship between PON1 and obesity in young Mexican-American children (n = 373 living in an agricultural community in California. Since PON1 polymorphisms and obesity both vary between ethnic groups, we estimated proportional genetic ancestry using 106 ancestral informative markers (AIMs. Among children, PON1192 allele frequencies were 0.5 for both alleles, and the prevalence of obesity was high (15% and 33% at ages two and five, respectively. The average proportion of European, African, and Native American ancestry was 0.40, 0.09, and 0.51, yet there was wide inter-individual variation. We found a significantly higher odds of obesity (9.3 and 2.5- fold in PON1192QQ children compared to PON1192RR children at ages two and five, respectively. Similar relationships were seen with BMI Z-scores at age two and waist circumference at age five. After adjusting for genetic ancestry in models of PON1 and BMI Z-score, effect estimates for PON1192 genotype changed 15% and 9% among two and five year old children, respectively, providing evidence of genetic confounding by population stratification. However even after adjustment for genetic ancestry, the trend of increased BMI Z-scores with increased number of PON1192 Q alleles remained. Our findings suggest that PON1 may play a role in obesity independent of genetic ancestry and that studies of PON1 and health outcomes, especially in admixed populations, should

  7. Genetic ancestry, social classification, and racial inequalities in blood pressure in Southeastern Puerto Rico.

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    Clarence C Gravlee

    Full Text Available BACKGROUND: The role of race in human genetics and biomedical research is among the most contested issues in science. Much debate centers on the relative importance of genetic versus sociocultural factors in explaining racial inequalities in health. However, few studies integrate genetic and sociocultural data to test competing explanations directly. METHODOLOGY/PRINCIPAL FINDINGS: We draw on ethnographic, epidemiologic, and genetic data collected in Southeastern Puerto Rico to isolate two distinct variables for which race is often used as a proxy: genetic ancestry versus social classification. We show that color, an aspect of social classification based on the culturally defined meaning of race in Puerto Rico, better predicts blood pressure than does a genetic-based estimate of continental ancestry. We also find that incorporating sociocultural variables reveals a new and significant association between a candidate gene polymorphism for hypertension (alpha(2C adrenergic receptor deletion and blood pressure. CONCLUSIONS/SIGNIFICANCE: This study addresses the recognized need to measure both genetic and sociocultural factors in research on racial inequalities in health. Our preliminary results provide the most direct evidence to date that previously reported associations between genetic ancestry and health may be attributable to sociocultural factors related to race and racism, rather than to functional genetic differences between racially defined groups. Our results also imply that including sociocultural variables in future research may improve our ability to detect significant allele-phenotype associations. Thus, measuring sociocultural factors related to race may both empower future genetic association studies and help to clarify the biological consequences of social inequalities.

  8. Men of African Descent and Carcinoma of the Prostate Consortium

    Science.gov (United States)

    The Men of African Descent and Carcinoma of the Prostate Consortium collaborates on epidemiologic studies to address the high burden of prostate cancer and to understand the causes of etiology and outcomes among men of African ancestry.

  9. Exploring the Musical Culture of an African American Child with Developmental Disabilities in Group Music Therapy

    Directory of Open Access Journals (Sweden)

    Meghan Cork

    2013-07-01

    Full Text Available The purpose of this study was to explore the role of the musical culture of an African American child with developmental disabilities in group music therapy. Qualitative methods were employed in an early childhood education setting. First, interview questions were sent home to parents and guardians of participants regarding music in the home, and music examples were analyzed based on the genres reported in the interview answers. Then, one session of four male participants with developmental disabilities, ages 4-5, was conducted and analyzed. The participants were of African American, Hispanic, Pakistani, and Caucasian ethnicities. The researcher focused on the African American child, utilizing clinical data and an examination of the musical sources that represent the child’s musical culture in the home. The results indicated that the musical culture of the child played a significant role in the group music therapy process. The musical culture of the African American child in the study was found to be characterized by three main elements: emphasis on a strong rhythmic pulse, emphasis on movement, and singing or chanting as a means of expression. The child seemed to be less engaged when the music was syncopated, lacked a strong rhythmic pulse, was interspersed with verbal injections, or contained Spanish lyrics. Although some conclusions have been drawn to indicate the significance of musical culture in a group music therapy setting with children, there is a great need for further research in order to determine more precise ways in which musical culture influences the group music therapy process. Thus, this study serves as a catalyst for future music therapy research.

  10. Exploring the Musical Culture of an African American Child with Developmental Disabilities in Group Music Therapy

    OpenAIRE

    Meghan Cork

    2013-01-01

    The purpose of this study was to explore the role of the musical culture of an African American child with developmental disabilities in group music therapy. Qualitative methods were employed in an early childhood education setting. First, interview questions were sent home to parents and guardians of participants regarding music in the home, and music examples were analyzed based on the genres reported in the interview answers. Then, one session of four male participants with developmental d...

  11. Variation in APOL1 Contributes to Ancestry-Level Differences in HDLc-Kidney Function Association

    Directory of Open Access Journals (Sweden)

    Amy Rebecca Bentley

    2012-01-01

    Full Text Available Low levels of high-density cholesterol (HDLc accompany chronic kidney disease, but the association between HDLc and the estimated glomerular filtration rate (eGFR in the general population is unclear. We investigated the HDLc-eGFR association in nondiabetic Han Chinese (HC, n=1100, West Africans (WA, n=1497, and African Americans (AA, n=1539. There were significant differences by ancestry: HDLc was positively associated with eGFR in HC (β=0.13, P<0.0001, but negatively associated among African ancestry populations (WA: −0.19, P<0.0001; AA: −0.09, P=0.02. These differences were also seen in nationally-representative NHANES data (among European Americans: 0.09, P=0.005; among African Americans −0.14, P=0.03. To further explore the findings in African ancestry populations, we investigated the role of an African ancestry-specific nephropathy risk variant, rs73885319, in the gene encoding HDL-associated APOL1. Among AA, an inverse HDLc-eGFR association was observed only with the risk genotype (−0.38 versus 0.001; P=0.03. This interaction was not seen in WA. In summary, counter to expectation, an inverse HDLc-eGFR association was observed among those of African ancestry. Given the APOL1 × HDLc interaction among AA, genetic factors may contribute to this paradoxical association. Notably, these findings suggest that the unexplained mechanism by which APOL1 affects kidney-disease risk may involve HDLc.

  12. What Is Genetic Ancestry Testing?

    Science.gov (United States)

    ... type of test because Y chromosome and mitochondrial DNA test results, which represent only single ancestral lines, do ... relationships. On a larger scale, combined genetic ancestry test results from many people can be used ... promotes the use of DNA testing in genealogy. The American Society of Human ...

  13. Why do some South African ethnic groups have very high HIV rates and others not?

    Science.gov (United States)

    Kenyon, Chris; Zondo, Sizwe

    2011-04-01

    The differences in HIV prevalence between South Africa's racial/ethnic groups (19.9%, 3.2%, and 0.5% among 15-49-year-old blacks, coloureds and whites, respectively) are as big as those between the countries with the highest and lowest levels of HIV prevalence worldwide. These large racial/ethnic differences are largely determined by different sexual network structures. In networks among black South Africans, sexual partnerships are more likely to be arranged concurrently - a configuration that leads to exponential increases in the spread of HIV. An examination of the historical origins of polygamy (where it is normative for partnerships to be arranged concurrently) and monogamy (serial or lifetime) reveals that it is the practice of universal monogamy in stratified societies which is the outlier. The ideology and practice of universal monogamy originated in Europe as the result of several factors, most prominently conflicts between the Christian Church and the nobility. After its imposition in Europe, the European colonial project would see this ideology disseminated around the world. Under the influence of liberalism it would mutate into a secular and unacknowledged value-programme of monogamy as a universal norm. This value-programme and practice of monogamy (mostly serial) is still the norm for white South Africans; thus, this sexual behaviour 'spandrel' (by-product of other historical processes) is a large contributor to the lower levels of HIV prevalence among whites. In pre-colonial African societies, polygyny was normative, and the Christian value-programme of monogamy never achieved the hegemonic status it did in Europe and other areas of conquest. Married black African men who converted to Christianity were no less likely to have additional sexual partners, but only more likely to conceal them. The ongoing secrecy about having concurrent partners has contributed to the connectedness of sexual networks among black Africans at large and in this manner has

  14. Expert groups in Denmark with special reference to Classical and African swine fever

    DEFF Research Database (Denmark)

    Uttenthal, Åse

    2012-01-01

    The Danish (National Veterinary) Expert group for Classical and African swine fever has been active during the last 10 years. The group is composed of experts in EU-legislation, in Danish pig production, in pig diseases and in virology. The group has participated in a national workshop on CSFV...... surveillance, in Contingency planning exercises and many efforts is done to keep the group updated on the current international situation for swine fevers. The group has been very stabile and especially our participation in a Taiex workshop in 2005 in Romania was a very good basis for our fruitful...... collaboration. In many later discussions our experiences then when we observed the problems in vivo. The obligations of the expert group are both to follow the progress of eradication but definitely also to take care of some of the more time consuming discussions that could otherwise burden the Veterinary...

  15. Determining ancestry proportions in complex admixture scenarios in South Africa using a novel proxy ancestry selection method.

    Directory of Open Access Journals (Sweden)

    Emile R Chimusa

    Full Text Available Admixed populations can make an important contribution to the discovery of disease susceptibility genes if the parental populations exhibit substantial variation in susceptibility. Admixture mapping has been used successfully, but is not designed to cope with populations that have more than two or three ancestral populations. The inference of admixture proportions and local ancestry and the imputation of missing genotypes in admixed populations are crucial in both understanding variation in disease and identifying novel disease loci. These inferences make use of reference populations, and accuracy depends on the choice of ancestral populations. Using an insufficient or inaccurate ancestral panel can result in erroneously inferred ancestry and affect the detection power of GWAS and meta-analysis when using imputation. Current algorithms are inadequate for multi-way admixed populations. To address these challenges we developed PROXYANC, an approach to select the best proxy ancestral populations. From the simulation of a multi-way admixed population we demonstrate the capability and accuracy of PROXYANC and illustrate the importance of the choice of ancestry in both estimating admixture proportions and imputing missing genotypes. We applied this approach to a complex, uniquely admixed South African population. Using genome-wide SNP data from over 764 individuals, we accurately estimate the genetic contributions from the best ancestral populations: isiXhosa [Formula: see text], ‡Khomani SAN [Formula: see text], European [Formula: see text], Indian [Formula: see text], and Chinese [Formula: see text]. We also demonstrate that the ancestral allele frequency differences correlate with increased linkage disequilibrium in the South African population, which originates from admixture events rather than population bottlenecks.The collective term for people of mixed ancestry in southern Africa is "Coloured," and this is officially recognized in South

  16. Gravity study of the Central African Rift system: a model of continental disruption 2. The Darfur domal uplift and associated Cainozoic volcanism

    Science.gov (United States)

    Bermingham, P. M.; Fairhead, J. D.; Stuart, G. W.

    1983-05-01

    Gravity studies of the Darfur uplift, Western Sudan, show it to be associated with a circular negative Bouguer anomaly, 50 mGal in amplitude and 700 km across. A three-dimensional model interpretation of the Darfur anomaly, using constraints deduced from geophysical studies of similar but more evolved Kenya and Ethiopia domes, suggests either a low-density laccolithic body at mid-lithospheric depth (~ 60 km) or a thinned lithosphere with emplacement at high level of low-density asthenospheric material. The regional setting of the Darfur uplift is described in terms of it being an integral part of the Central African Rift System which is shown to be broadly equivalent to the early to middle Miocene stage in the development of the Afro-Arabian Rift System. Comparisons between these rift systems suggest that extensional tectonics and passive rifting, resulting in the subsiding sedimentary rift basins associated with the Ngaoundere, Abu Gabra, Red Sea and Gulf of Aden rifts, are more typical of the early stage development of passive continental margins than the active domal uplift and development of rifted features associated with the Darfur, Kenya and Ethiopia domes.

  17. Ancestry reported by white adults with cutaneous melanoma and control subjects in central Alabama

    Directory of Open Access Journals (Sweden)

    Hollowell William W

    2004-08-01

    Full Text Available Abstract Background We sought to evaluate the hypothesis that the high incidence of cutaneous melanoma in white persons in central Alabama is associated with a predominance of Irish and Scots descent. Methods Frequencies of country of ancestry reports were tabulated. The reports were also converted to scores that reflect proportional countries of ancestry in individuals. Using the scores, we computed aggregate country of ancestry indices as estimates of group ancestry composition. HLA-DRB1*04 allele frequencies and relationships to countries of ancestry were compared in probands and controls. Results were compared to those of European populations with HLA-DRB1*04 frequencies. Results Ninety evaluable adult white cutaneous melanoma probands and 324 adult white controls reported countries of ancestry of their grandparents. The respective frequencies of Ireland, and Scotland and "British Isles" reported countries of ancestry were significantly greater in probands than in controls. The respective frequencies of Wales, France, Italy and Poland were significantly greater in controls. 16.7% of melanoma probands and 23.8% of controls reported "Native American" ancestry; the corresponding "Native American" country of ancestry index was not significantly different in probands and controls. The frequency of HLA-DRB1*04 was significantly greater in probands, but was not significantly associated with individual or aggregate countries of ancestry. The frequency of DRB1*04 observed in Alabama was compared to DRB1*04 frequencies reported from England, Wales, Ireland, Orkney Island, France, Germany, and Australia. Conclusion White adults with cutaneous melanoma in central Alabama have a predominance of Irish, Scots, and "British Isles" ancestry and HLA-DRB1*04 that likely contributes to their high incidence of cutaneous melanoma.

  18. Race, Ethnicity and Ancestry in Unrelated Transplant Matching for the National Marrow Donor Program: A Comparison of Multiple Forms of Self-Identification with Genetics.

    Science.gov (United States)

    Hollenbach, Jill A; Saperstein, Aliya; Albrecht, Mark; Vierra-Green, Cynthia; Parham, Peter; Norman, Paul J; Maiers, Martin

    2015-01-01

    We conducted a nationwide study comparing self-identification to genetic ancestry classifications in a large cohort (n = 1752) from the National Marrow Donor Program. We sought to determine how various measures of self-identification intersect with genetic ancestry, with the aim of improving matching algorithms for unrelated bone marrow transplant. Multiple dimensions of self-identification, including race/ethnicity and geographic ancestry were compared to classifications based on ancestry informative markers (AIMs), and the human leukocyte antigen (HLA) genes, which are required for transplant matching. Nearly 20% of responses were inconsistent between reporting race/ethnicity versus geographic ancestry. Despite strong concordance between AIMs and HLA, no measure of self-identification shows complete correspondence with genetic ancestry. In certain cases geographic ancestry reporting matches genetic ancestry not reflected in race/ethnicity identification, but in other cases geographic ancestries show little correspondence to genetic measures, with important differences by gender. However, when respondents assign ancestry to grandparents, we observe sub-groups of individuals with well- defined genetic ancestries, including important differences in HLA frequencies, with implications for transplant matching. While we advocate for tailored questioning to improve accuracy of ancestry ascertainment, collection of donor grandparents' information will improve the chances of finding matches for many patients, particularly for mixed-ancestry individuals.

  19. Sensitive detection of chromosomal segments of distinct ancestry in admixed populations.

    Directory of Open Access Journals (Sweden)

    Alkes L Price

    2009-06-01

    Full Text Available Identifying the ancestry of chromosomal segments of distinct ancestry has a wide range of applications from disease mapping to learning about history. Most methods require the use of unlinked markers; but, using all markers from genome-wide scanning arrays, it should in principle be possible to infer the ancestry of even very small segments with exquisite accuracy. We describe a method, HAPMIX, which employs an explicit population genetic model to perform such local ancestry inference based on fine-scale variation data. We show that HAPMIX outperforms other methods, and we explore its utility for inferring ancestry, learning about ancestral populations, and inferring dates of admixture. We validate the method empirically by applying it to populations that have experienced recent and ancient admixture: 935 African Americans from the United States and 29 Mozabites from North Africa. HAPMIX will be of particular utility for mapping disease genes in recently admixed populations, as its accurate estimates of local ancestry permit admixture and case-control association signals to be combined, enabling more powerful tests of association than with either signal alone.

  20. Ancestry analysis in the 11-M Madrid bomb attack investigation.

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    Christopher Phillips

    Full Text Available The 11-M Madrid commuter train bombings of 2004 constituted the second biggest terrorist attack to occur in Europe after Lockerbie, while the subsequent investigation became the most complex and wide-ranging forensic case in Spain. Standard short tandem repeat (STR profiling of 600 exhibits left certain key incriminatory samples unmatched to any of the apprehended suspects. A judicial order to perform analyses of unmatched samples to differentiate European and North African ancestry became a critical part of the investigation and was instigated to help refine the search for further suspects. Although mitochondrial DNA (mtDNA and Y-chromosome markers routinely demonstrate informative geographic differentiation, the populations compared in this analysis were known to show a proportion of shared mtDNA and Y haplotypes as a result of recent gene-flow across the western Mediterranean, while any two loci can be unrepresentative of the ancestry of an individual as a whole. We based our principal analysis on a validated 34plex autosomal ancestry-informative-marker single nucleotide polymorphism (AIM-SNP assay to make an assignment of ancestry for DNA from seven unmatched case samples including a handprint from a bag containing undetonated explosives together with personal items recovered from various locations in Madrid associated with the suspects. To assess marker informativeness before genotyping, we predicted the probable classification success for the 34plex assay with standard error estimators for a naïve Bayesian classifier using Moroccan and Spanish training sets (each n = 48. Once misclassification error was found to be sufficiently low, genotyping yielded seven near-complete profiles (33 of 34 AIM-SNPs that in four cases gave probabilities providing a clear assignment of ancestry. One of the suspects predicted to be North African by AIM-SNP analysis of DNA from a toothbrush was identified late in the investigation as Algerian in origin. The

  1. The Genomic Ancestry of Individuals from Different Geographical Regions of Brazil Is More Uniform Than Expected

    Science.gov (United States)

    Pena, Sérgio D. J.; Di Pietro, Giuliano; Fuchshuber-Moraes, Mateus; Genro, Julia Pasqualini; Hutz, Mara H.; Kehdy, Fernanda de Souza Gomes; Kohlrausch, Fabiana; Magno, Luiz Alexandre Viana; Montenegro, Raquel Carvalho; Moraes, Manoel Odorico; de Moraes, Maria Elisabete Amaral; de Moraes, Milene Raiol; Ojopi, Élida B.; Perini, Jamila A.; Racciopi, Clarice; Ribeiro-dos-Santos, Ândrea Kely Campos; Rios-Santos, Fabrício; Romano-Silva, Marco A.; Sortica, Vinicius A.; Suarez-Kurtz, Guilherme

    2011-01-01

    Based on pre-DNA racial/color methodology, clinical and pharmacological trials have traditionally considered the different geographical regions of Brazil as being very heterogeneous. We wished to ascertain how such diversity of regional color categories correlated with ancestry. Using a panel of 40 validated ancestry-informative insertion-deletion DNA polymorphisms we estimated individually the European, African and Amerindian ancestry components of 934 self-categorized White, Brown or Black Brazilians from the four most populous regions of the Country. We unraveled great ancestral diversity between and within the different regions. Especially, color categories in the northern part of Brazil diverged significantly in their ancestry proportions from their counterparts in the southern part of the Country, indicating that diverse regional semantics were being used in the self-classification as White, Brown or Black. To circumvent these regional subjective differences in color perception, we estimated the general ancestry proportions of each of the four regions in a form independent of color considerations. For that, we multiplied the proportions of a given ancestry in a given color category by the official census information about the proportion of that color category in the specific region, to arrive at a “total ancestry” estimate. Once such a calculation was performed, there emerged a much higher level of uniformity than previously expected. In all regions studied, the European ancestry was predominant, with proportions ranging from 60.6% in the Northeast to 77.7% in the South. We propose that the immigration of six million Europeans to Brazil in the 19th and 20th centuries - a phenomenon described and intended as the “whitening of Brazil” - is in large part responsible for dissipating previous ancestry dissimilarities that reflected region-specific population histories. These findings, of both clinical and sociological importance for Brazil, should also be

  2. Forensic ancestry analysis with two capillary electrophoresis ancestry informative marker (AIM) panels: Results of a collaborative EDNAP exercise.

    Science.gov (United States)

    Santos, C; Fondevila, M; Ballard, D; Banemann, R; Bento, A M; Børsting, C; Branicki, W; Brisighelli, F; Burrington, M; Capal, T; Chaitanya, L; Daniel, R; Decroyer, V; England, R; Gettings, K B; Gross, T E; Haas, C; Harteveld, J; Hoff-Olsen, P; Hoffmann, A; Kayser, M; Kohler, P; Linacre, A; Mayr-Eduardoff, M; McGovern, C; Morling, N; O'Donnell, G; Parson, W; Pascali, V L; Porto, M J; Roseth, A; Schneider, P M; Sijen, T; Stenzl, V; Court, D Syndercombe; Templeton, J E; Turanska, M; Vallone, P M; van Oorschot, R A H; Zatkalikova, L; Carracedo, Á; Phillips, C

    2015-11-01

    There is increasing interest in forensic ancestry tests, which are part of a growing number of DNA analyses that can enhance routine profiling by obtaining additional genetic information about unidentified DNA donors. Nearly all ancestry tests use single nucleotide polymorphisms (SNPs), but these currently rely on SNaPshot single base extension chemistry that can fail to detect mixed DNA. Insertion-deletion polymorphism (Indel) tests have been developed using dye-labeled primers that allow direct capillary electrophoresis detection of PCR products (PCR-to-CE). PCR-to-CE maintains the direct relationship between input DNA and signal strength as each marker is detected with a single dye, so mixed DNA is more reliably detected. We report the results of a collaborative inter-laboratory exercise of 19 participants (15 from the EDNAP European DNA Profiling group) that assessed a 34-plex SNP test using SNaPshot and a 46-plex Indel test using PCR-to-CE. Laboratories were asked to type five samples with different ancestries and detect an additional mixed DNA sample. Statistical inference of ancestry was made by participants using the Snipper online Bayes analysis portal plus an optional PCA module that analyzes the genotype data alongside calculation of Bayes likelihood ratios. Exercise results indicated consistent genotyping performance from both tests, reaching a particularly high level of reliability for the Indel test. SNP genotyping gave 93.5% concordance (compared to the organizing laboratory's data) that rose to 97.3% excluding one laboratory with a large number of miscalled genotypes. Indel genotyping gave a higher concordance rate of 99.8% and a reduced no-call rate compared to SNP analysis. All participants detected the mixture from their Indel peak height data and successfully assigned the correct ancestry to the other samples using Snipper, with the exception of one laboratory with SNP miscalls that incorrectly assigned ancestry of two samples and did not obtain

  3. La oportunidad de un atlas sobre el estado del continente africano / The Opportunity of an Atlas about the Situation of the African Continent

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    Eva Pérez Hernández

    2014-12-01

    Full Text Available Desde la Antigüedad clásica hasta nuestros días se han multiplicado las representaciones cartográficas de la Tierra, sin embargo, no todos los territorios del planeta han recibido la misma atención. En el caso del continente africano son escasas las colecciones de mapas recientes y, especialmente, las que conforman atlas temáticos. Esta circunstancia fue determinante en la orientación de las prácticas desarrolladas en Casa África durante el curso académico 2012-2013, al amparo del Consorcio Casa África-Universidad de Las Palmas de Gran Canaria. El objetivo de las prácticas fue la elaboración de un atlas digital de África que tuvo como resultado la realización de cuarenta mapas temáticos basados en indicadores geográficos, ambientales, demográficos, económicos, sociales, geopolíticos, culturales y de sus relaciones económicas y políticas con España. La elaboración de dicho atlas se vio afectada por numerosas dificultades en cuanto a la búsqueda y tratamiento de las fuentes de información y por un trabajo de diseño y edición que requirió de la utilización de las nuevas tecnologías de la información geográfica. El presente artículo reflexiona acerca de la importancia de la cartografía como herramienta imprescindible de conocimiento geográfico y acerca de la superación de dificultades que entrañan retos como el de la realización de un atlas sobre el estado actual del continente africano.From Classical Antiquity to the present days, cartographic representations of the Earth have multiplied. However, not all the territories of the planet have received the same attention. In the case of the African continent, there are few collections of recent maps, especially, of those that are composed of thematic atlases. This circumstance was decisive in determining the focus of the internship in Casa África during academic year 2012-2013, under the auspices of the Consortium Casa África - University of Las Palmas de Gran

  4. The imprint of the Slave Trade in an African American population: mitochondrial DNA, Y chromosome and HTLV-1 analysis in the Noir Marron of French Guiana

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    Larrouy Georges

    2010-10-01

    Full Text Available Abstract Background Retracing the genetic histories of the descendant populations of the Slave Trade (16th-19th centuries is particularly challenging due to the diversity of African ethnic groups involved and the different hybridisation processes with Europeans and Amerindians, which have blurred their original genetic inheritances. The Noir Marron in French Guiana are the direct descendants of maroons who escaped from Dutch plantations in the current day Surinam. They represent an original ethnic group with a highly blended culture. Uniparental markers (mtDNA and NRY coupled with HTLV-1 sequences (env and LTR were studied to establish the genetic relationships linking them to African American and African populations. Results All genetic systems presented a high conservation of the African gene pool (African ancestry: mtDNA = 99.3%; NRY = 97.6%; HTLV-1 env = 20/23; HTLV-1 LTR = 6/8. Neither founder effect nor genetic drift was detected and the genetic diversity is within a range commonly observed in Africa. Higher genetic similarities were observed with the populations inhabiting the Bight of Benin (from Ivory Coast to Benin. Other ancestries were identified but they presented an interesting sex-bias. Whilst male origins spread throughout the north of the bight (from Benin to Senegal, female origins were spread throughout the south (from the Ivory Coast to Angola. Conclusions The Noir Marron are unique in having conserved their African genetic ancestry, despite major cultural exchanges with Amerindians and Europeans through inhabiting the same region for four centuries. Their maroon identity and the important number of slaves deported in this region have maintained the original African diversity. All these characteristics permit to identify a major origin located in the former region of the Gold Coast and the Bight of Benin; regions highly impacted by slavery, from which goes a sex-biased longitudinal gradient of ancestry.

  5. Racial group regard, barrier socialization, and African American adolescents' engagement: patterns and processes by gender.

    Science.gov (United States)

    Smalls, Ciara; Cooper, Shauna M

    2012-08-01

    The current study examined gendered processes via 1) profiles of racial barrier socialization, regard for one's racial group (private regard), and behavioral engagement and grades and, 2) gender and private regard as a moderator in the link between barrier messages and academic engagement outcomes. One-hundred and twenty-five African American adolescents (ages 10-14, M = 12.39, SD = 1.07) completed measures of socialization, private regard, grades and behavioral engagement. Latent Profile Analysis revealed a 2-cluster solution fit the data best - 1) High Engagement-Race Salient (HERS) cluster and 2) Low Engagement-Non-Salient cluster (LENS). Girls had higher representation in the HERS cluster. When private regard was examined as a moderator, girls' grades were unrelated to barrier socialization and private regard. In contrast, barrier socialization was associated with lower grades for low private regard boys. Findings are discussed in the context of gendered racial school contexts that African American youth must navigate to be academically successful.

  6. Dating Violence and Sexual Assault Prevention with African American Middle Schoolers: Does Group Gender Composition Impact Dating Violence Attitudes?

    Science.gov (United States)

    Black, Beverly M.; Weisz, Arlene N.; Jayasundara, Dheeshana S.

    2012-01-01

    A dating violence and sexual assault prevention program was presented to 396, predominately African American, middle schoolers in two inner city schools in the United States. In one school the program was offered with a same-gender group composition; in the other school, the same program was offered with mixed-gender group composition. A…

  7. Mosaic maternal ancestry in the Great Lakes region of East Africa.

    Science.gov (United States)

    Gomes, Verónica; Pala, Maria; Salas, Antonio; Álvarez-Iglesias, Vanesa; Amorim, António; Gómez-Carballa, Alberto; Carracedo, Ángel; Clarke, Douglas J; Hill, Catherine; Mormina, Maru; Shaw, Marie-Anne; Dunne, David W; Pereira, Rui; Pereira, Vânia; Prata, Maria João; Sánchez-Diz, Paula; Rito, Teresa; Soares, Pedro; Gusmão, Leonor; Richards, Martin B

    2015-09-01

    The Great Lakes lie within a region of East Africa with very high human genetic diversity, home of many ethno-linguistic groups usually assumed to be the product of a small number of major dispersals. However, our knowledge of these dispersals relies primarily on the inferences of historical, linguistics and oral traditions, with attempts to match up the archaeological evidence where possible. This is an obvious area to which archaeogenetics can contribute, yet Uganda, at the heart of these developments, has not been studied for mitochondrial DNA (mtDNA) variation. Here, we compare mtDNA lineages at this putative genetic crossroads across 409 representatives of the major language groups: Bantu speakers and Eastern and Western Nilotic speakers. We show that Uganda harbours one of the highest mtDNA diversities within and between linguistic groups, with the various groups significantly differentiated from each other. Despite an inferred linguistic origin in South Sudan, the data from the two Nilotic-speaking groups point to a much more complex history, involving not only possible dispersals from Sudan and the Horn but also large-scale assimilation of autochthonous lineages within East Africa and even Uganda itself. The Eastern Nilotic group also carries signals characteristic of West-Central Africa, primarily due to Bantu influence, whereas a much stronger signal in the Western Nilotic group suggests direct West-Central African ancestry. Bantu speakers share lineages with both Nilotic groups, and also harbour East African lineages not found in Western Nilotic speakers, likely due to assimilating indigenous populations since arriving in the region ~3000 years ago. PMID:26188410

  8. Methodological Considerations in Estimation of Phenotype Heritability Using Genome-Wide SNP Data, Illustrated by an Analysis of the Heritability of Height in a Large Sample of African Ancestry Adults

    OpenAIRE

    Chen, Fang; He, Jing; Zhang, Jianqi; Chen, Gary K.; Thomas, Venetta; Ambrosone, Christine B.; Bandera, Elisa V.; Berndt, Sonja I.; Bernstein, Leslie; William J Blot; Cai, Qiuyin; Carpten, John; Casey, Graham; Chanock, Stephen J.; Cheng, Iona

    2015-01-01

    Height has an extremely polygenic pattern of inheritance. Genome-wide association studies (GWAS) have revealed hundreds of common variants that are associated with human height at genome-wide levels of significance. However, only a small fraction of phenotypic variation can be explained by the aggregate of these common variants. In a large study of African-American men and women (n = 14,419), we genotyped and analyzed 966,578 autosomal SNPs across the entire genome using a linear mixed model ...

  9. Admixture in Latin America: geographic structure, phenotypic diversity and self-perception of ancestry based on 7,342 individuals.

    Directory of Open Access Journals (Sweden)

    Andrés Ruiz-Linares

    2014-09-01

    Full Text Available The current genetic makeup of Latin America has been shaped by a history of extensive admixture between Africans, Europeans and Native Americans, a process taking place within the context of extensive geographic and social stratification. We estimated individual ancestry proportions in a sample of 7,342 subjects ascertained in five countries (Brazil, Chile, Colombia, México and Perú. These individuals were also characterized for a range of physical appearance traits and for self-perception of ancestry. The geographic distribution of admixture proportions in this sample reveals extensive population structure, illustrating the continuing impact of demographic history on the genetic diversity of Latin America. Significant ancestry effects were detected for most phenotypes studied. However, ancestry generally explains only a modest proportion of total phenotypic variation. Genetically estimated and self-perceived ancestry correlate significantly, but certain physical attributes have a strong impact on self-perception and bias self-perception of ancestry relative to genetically estimated ancestry.

  10. Admixture in Latin America: Geographic Structure, Phenotypic Diversity and Self-Perception of Ancestry Based on 7,342 Individuals

    Science.gov (United States)

    Ruiz-Linares, Andrés; Adhikari, Kaustubh; Acuña-Alonzo, Victor; Quinto-Sanchez, Mirsha; Jaramillo, Claudia; Arias, William; Fuentes, Macarena; Pizarro, María; Everardo, Paola; de Avila, Francisco; Gómez-Valdés, Jorge; León-Mimila, Paola; Hunemeier, Tábita; Ramallo, Virginia; Silva de Cerqueira, Caio C.; Burley, Mari-Wyn; Konca, Esra; de Oliveira, Marcelo Zagonel; Veronez, Mauricio Roberto; Rubio-Codina, Marta; Attanasio, Orazio; Gibbon, Sahra; Ray, Nicolas; Gallo, Carla; Poletti, Giovanni; Rosique, Javier; Schuler-Faccini, Lavinia; Salzano, Francisco M.; Bortolini, Maria-Cátira; Canizales-Quinteros, Samuel; Rothhammer, Francisco; Bedoya, Gabriel; Balding, David; Gonzalez-José, Rolando

    2014-01-01

    The current genetic makeup of Latin America has been shaped by a history of extensive admixture between Africans, Europeans and Native Americans, a process taking place within the context of extensive geographic and social stratification. We estimated individual ancestry proportions in a sample of 7,342 subjects ascertained in five countries (Brazil, Chile, Colombia, México and Perú). These individuals were also characterized for a range of physical appearance traits and for self-perception of ancestry. The geographic distribution of admixture proportions in this sample reveals extensive population structure, illustrating the continuing impact of demographic history on the genetic diversity of Latin America. Significant ancestry effects were detected for most phenotypes studied. However, ancestry generally explains only a modest proportion of total phenotypic variation. Genetically estimated and self-perceived ancestry correlate significantly, but certain physical attributes have a strong impact on self-perception and bias self-perception of ancestry relative to genetically estimated ancestry. PMID:25254375

  11. Admixture mapping of end stage kidney disease genetic susceptibility using estimated mutual information ancestry informative markers

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    Geiger Dan

    2010-10-01

    Full Text Available Abstract Background The question of a genetic contribution to the higher prevalence and incidence of end stage kidney disease (ESKD among African Americans (AA remained unresolved, until recent findings using admixture mapping pointed to the association of a genomic locus on chromosome 22 with this disease phenotype. In the current study we utilize this example to demonstrate the utility of applying a multi-step admixture mapping approach. Methods A multi-step case only admixture mapping study, consisted of the following steps was designed: 1 Assembly of the sample dataset (ESKD AA; 2 Design of the estimated mutual information ancestry informative markers (n = 2016 screening panel 3; Genotyping the sample set whose size was determined by a power analysis (n = 576 appropriate for the initial screening panel; 4 Inference of local ancestry for each individual and identification of regions with increased AA ancestry using two different ancestry inference statistical approaches; 5 Enrichment of the initial screening panel; 6 Power analysis of the enriched panel 7 Genotyping of additional samples. 8 Re-analysis of the genotyping results to identify a genetic risk locus. Results The initial screening phase yielded a significant peak using the ADMIXMAP ancestry inference program applying case only statistics. Subgroup analysis of 299 ESKD patients with no history of diabetes yielded peaks using both the ANCESTRYMAP and ADMIXMAP ancestry inference programs. The significant peak was found on chromosome 22. Genotyping of additional ancestry informative markers on chromosome 22 that took into account linkage disequilibrium in the ancestral populations, and the addition of samples increased the statistical significance of the finding. Conclusions A multi-step admixture mapping analysis of AA ESKD patients replicated the finding of a candidate risk locus on chromosome 22, contributing to the heightened susceptibility of African Americans to develop non

  12. Head rubbing and licking reinforce social bonds in a group of captive African lions, Panthera leo.

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    Tomoyuki Matoba

    Full Text Available Many social animals have a species-specific repertoire of affiliative behaviours that characterise individualised relationships within a group. To date, however, quantitative studies on intragroup affiliative behaviours in social carnivores have been limited. Here, we investigated the social functions of the two most commonly observed affiliative behaviours in captive African lions (Panthera leo: head rubbing and licking. We conducted behavioural observations on a captive group of lions composed of 7 males and 14 females, and tested hypotheses regarding three social functions: tension reduction, social bonding, and social status expression. Disproportionately frequent male-male and female-to-male head rubbing was observed, while more than 95% of all licking interactions occurred in female-female dyads. In accordance with the social bond hypothesis, and in disagreement with the social status expression hypothesis, both head rubbing and licking interactions were reciprocal. After controlling for spatial association, the dyadic frequency of head rubbing was negatively correlated with age difference while licking was positively correlated with relatedness. Group reunion after daily separation did not affect the frequencies of the affiliative behaviours, which was in disagreement with the predictions from the tension reduction hypothesis. These results support the social bond hypothesis for the functions of head rubbing and licking. Different patterns of affiliative behaviour between the sexes may reflect differences in the relationship quality in each sex or the differential predisposition to licking due to its original function in offspring care.

  13. Genomic Insights into the Ancestry and Demographic History of South America.

    Science.gov (United States)

    Homburger, Julian R; Moreno-Estrada, Andrés; Gignoux, Christopher R; Nelson, Dominic; Sanchez, Elena; Ortiz-Tello, Patricia; Pons-Estel, Bernardo A; Acevedo-Vasquez, Eduardo; Miranda, Pedro; Langefeld, Carl D; Gravel, Simon; Alarcón-Riquelme, Marta E; Bustamante, Carlos D

    2015-12-01

    South America has a complex demographic history shaped by multiple migration and admixture events in pre- and post-colonial times. Settled over 14,000 years ago by Native Americans, South America has experienced migrations of European and African individuals, similar to other regions in the Americas. However, the timing and magnitude of these events resulted in markedly different patterns of admixture throughout Latin America. We use genome-wide SNP data for 437 admixed individuals from 5 countries (Colombia, Ecuador, Peru, Chile, and Argentina) to explore the population structure and demographic history of South American Latinos. We combined these data with population reference panels from Africa, Asia, Europe and the Americas to perform global ancestry analysis and infer the subcontinental origin of the European and Native American ancestry components of the admixed individuals. By applying ancestry-specific PCA analyses we find that most of the European ancestry in South American Latinos is from the Iberian Peninsula; however, many individuals trace their ancestry back to Italy, especially within Argentina. We find a strong gradient in the Native American ancestry component of South American Latinos associated with country of origin and the geography of local indigenous populations. For example, Native American genomic segments in Peruvians show greater affinities with Andean indigenous peoples like Quechua and Aymara, whereas Native American haplotypes from Colombians tend to cluster with Amazonian and coastal tribes from northern South America. Using ancestry tract length analysis we modeled post-colonial South American migration history as the youngest in Latin America during European colonization (9-14 generations ago), with an additional strong pulse of European migration occurring between 3 and 9 generations ago. These genetic footprints can impact our understanding of population-level differences in biomedical traits and, thus, inform future medical

  14. Genomic Insights into the Ancestry and Demographic History of South America.

    Directory of Open Access Journals (Sweden)

    Julian R Homburger

    2015-12-01

    Full Text Available South America has a complex demographic history shaped by multiple migration and admixture events in pre- and post-colonial times. Settled over 14,000 years ago by Native Americans, South America has experienced migrations of European and African individuals, similar to other regions in the Americas. However, the timing and magnitude of these events resulted in markedly different patterns of admixture throughout Latin America. We use genome-wide SNP data for 437 admixed individuals from 5 countries (Colombia, Ecuador, Peru, Chile, and Argentina to explore the population structure and demographic history of South American Latinos. We combined these data with population reference panels from Africa, Asia, Europe and the Americas to perform global ancestry analysis and infer the subcontinental origin of the European and Native American ancestry components of the admixed individuals. By applying ancestry-specific PCA analyses we find that most of the European ancestry in South American Latinos is from the Iberian Peninsula; however, many individuals trace their ancestry back to Italy, especially within Argentina. We find a strong gradient in the Native American ancestry component of South American Latinos associated with country of origin and the geography of local indigenous populations. For example, Native American genomic segments in Peruvians show greater affinities with Andean indigenous peoples like Quechua and Aymara, whereas Native American haplotypes from Colombians tend to cluster with Amazonian and coastal tribes from northern South America. Using ancestry tract length analysis we modeled post-colonial South American migration history as the youngest in Latin America during European colonization (9-14 generations ago, with an additional strong pulse of European migration occurring between 3 and 9 generations ago. These genetic footprints can impact our understanding of population-level differences in biomedical traits and, thus, inform

  15. Living Circumstances of Suicide Mortality in a South African City: An Ecological Study of Differences across Race Groups and Sexes

    Science.gov (United States)

    Burrows, Stephanie; Laflamme, Lucie

    2005-01-01

    In this study the importance of living area circumstances for suicide mortality was explored. Suicide mortality was assessed across race and sex groups in a South African city and the influence of area-based compositional and sociophysical characteristics on suicide risk was considered. Suicide mortality rates are highest among Whites, in…

  16. Prostate cancer disparities in Black men of African descent: a comparative literature review of prostate cancer burden among Black men in the United States, Caribbean, United Kingdom, and West Africa

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    Reams R Renee

    2009-02-01

    Full Text Available Abstract Background African American men have the highest prostate cancer morbidity and mortality rates than any other racial or ethnic group in the US. Although the overall incidence of and mortality from prostate cancer has been declining in White men since 1991, the decline in African American men lags behind White men. Of particular concern is the growing literature on the disproportionate burden of prostate cancer among other Black men of West African ancestry in the Caribbean Islands, United Kingdom and West Africa. This higher incidence of prostate cancer observed in populations of African descent may be attributed to the fact that these populations share ancestral genetic factors. To better understand the burden of prostate cancer among men of West African Ancestry, we conducted a review of the literature on prostate cancer incidence, prevalence, and mortality in the countries connected by the Transatlantic Slave Trade. Results Several published studies indicate high prostate cancer burden in Nigeria and Ghana. There was no published literature for the countries Benin, Gambia and Senegal that met our review criteria. Prostate cancer morbidity and/or mortality data from the Caribbean Islands and the United Kingdom also provided comparable or worse prostate cancer burden to that of US Blacks. Conclusion The growing literature on the disproportionate burden of prostate cancer among other Black men of West African ancestry follows the path of the Transatlantic Slave Trade. To better understand and address the global prostate cancer disparities seen in Black men of West African ancestry, future studies should explore the genetic and environmental risk factors for prostate cancer among this group.

  17. Challenges and opportunities for HIV prevention and care: insights from focus groups of HIV-infected African American men.

    Science.gov (United States)

    Buseh, Aaron G; Stevens, Patricia E; McManus, Patricia; Addison, Reverend Jim; Morgan, Sarah; Millon-Underwood, Sandra

    2006-01-01

    Given the inordinate burden of HIV illness borne by African American men, investigations of HIV prevention and care in this population are urgently needed. In this qualitative study, a sample of 20 HIV-infected African American men participated in two focus groups in which they exchanged experiences and ideas about living with HIV. They shared details about how they were personally impacted by HIV, and together they constructed a perspective on the larger societal context in which the HIV infection rate among African American men continues unabated. The men focused on growing complacency about HIV/AIDS in the United States, underfunding of supports and services, stigmas operative in African American communities, and differential care based on race, gender, and diagnosis. They saw opportunity in personal strategies that help individual men infected with HIV to take a more empowered stance to deal with the disease and improve their health but looked for changes undertaken by African Americans at the community level to make a real difference in the epidemic. Their vision included enhanced support for HIV prevention and care from influential community institutions like Black churches, more open dialogue about drugs and sexual behavior, and capacity-building for families whose members are HIV-infected or at risk for HIV. PMID:16849084

  18. Typing of 111 ancestry informative markers in an Albanian population

    DEFF Research Database (Denmark)

    Ribeiro, Joana; Pereira, V.; Kondili, A.;

    2015-01-01

    Genetically based prediction of ancestry has a great potential in forensic genetics and may be used as an investigative lead in crime case work or missing person identification.The EUROFORGEN-NoE consortium developed four PCR and SBE multiplexes for typing of 111 ancestry informative markers (AIMs...... set and, at the same time, the performance of each SNP assay was evaluated. After PCR and SBE, samples were typed using the Sequenom MassARRAY®. All samples were typed at least two times. The mass spectra were analyzed using Typer 4 and the genotype calls were further analyzed with a custom designed...... script in the software R.The results were compared to other population samples previously typed for the same markers. The panel of AIMs was capable of differentiating the Albanian population from other population groups except for the Greek population. These results were expected due to the history...

  19. Methodological Considerations in Estimation of Phenotype Heritability Using Genome-Wide SNP Data, Illustrated by an Analysis of the Heritability of Height in a Large Sample of African Ancestry Adults.

    Directory of Open Access Journals (Sweden)

    Fang Chen

    Full Text Available Height has an extremely polygenic pattern of inheritance. Genome-wide association studies (GWAS have revealed hundreds of common variants that are associated with human height at genome-wide levels of significance. However, only a small fraction of phenotypic variation can be explained by the aggregate of these common variants. In a large study of African-American men and women (n = 14,419, we genotyped and analyzed 966,578 autosomal SNPs across the entire genome using a linear mixed model variance components approach implemented in the program GCTA (Yang et al Nat Genet 2010, and estimated an additive heritability of 44.7% (se: 3.7% for this phenotype in a sample of evidently unrelated individuals. While this estimated value is similar to that given by Yang et al in their analyses, we remain concerned about two related issues: (1 whether in the complete absence of hidden relatedness, variance components methods have adequate power to estimate heritability when a very large number of SNPs are used in the analysis; and (2 whether estimation of heritability may be biased, in real studies, by low levels of residual hidden relatedness. We addressed the first question in a semi-analytic fashion by directly simulating the distribution of the score statistic for a test of zero heritability with and without low levels of relatedness. The second question was addressed by a very careful comparison of the behavior of estimated heritability for both observed (self-reported height and simulated phenotypes compared to imputation R2 as a function of the number of SNPs used in the analysis. These simulations help to address the important question about whether today's GWAS SNPs will remain useful for imputing causal variants that are discovered using very large sample sizes in future studies of height, or whether the causal variants themselves will need to be genotyped de novo in order to build a prediction model that ultimately captures a large fraction of the

  20. Methodological Considerations in Estimation of Phenotype Heritability Using Genome-Wide SNP Data, Illustrated by an Analysis of the Heritability of Height in a Large Sample of African Ancestry Adults

    Science.gov (United States)

    Chen, Fang; He, Jing; Zhang, Jianqi; Chen, Gary K.; Thomas, Venetta; Ambrosone, Christine B.; Bandera, Elisa V.; Berndt, Sonja I.; Bernstein, Leslie; Blot, William J.; Cai, Qiuyin; Carpten, John; Casey, Graham; Chanock, Stephen J.; Cheng, Iona; Chu, Lisa; Deming, Sandra L.; Driver, W. Ryan; Goodman, Phyllis; Hayes, Richard B.; Hennis, Anselm J. M.; Hsing, Ann W.; Hu, Jennifer J.; Ingles, Sue A.; John, Esther M.; Kittles, Rick A.; Kolb, Suzanne; Leske, M. Cristina; Monroe, Kristine R.; Murphy, Adam; Nemesure, Barbara; Neslund-Dudas, Christine; Nyante, Sarah; Ostrander, Elaine A; Press, Michael F.; Rodriguez-Gil, Jorge L.; Rybicki, Ben A.; Schumacher, Fredrick; Stanford, Janet L.; Signorello, Lisa B.; Strom, Sara S.; Stevens, Victoria; Van Den Berg, David; Wang, Zhaoming; Witte, John S.; Wu, Suh-Yuh; Yamamura, Yuko; Zheng, Wei; Ziegler, Regina G.; Stram, Alexander H.; Kolonel, Laurence N.; Marchand, Loïc Le; Henderson, Brian E.; Haiman, Christopher A.; Stram, Daniel O.

    2015-01-01

    Height has an extremely polygenic pattern of inheritance. Genome-wide association studies (GWAS) have revealed hundreds of common variants that are associated with human height at genome-wide levels of significance. However, only a small fraction of phenotypic variation can be explained by the aggregate of these common variants. In a large study of African-American men and women (n = 14,419), we genotyped and analyzed 966,578 autosomal SNPs across the entire genome using a linear mixed model variance components approach implemented in the program GCTA (Yang et al Nat Genet 2010), and estimated an additive heritability of 44.7% (se: 3.7%) for this phenotype in a sample of evidently unrelated individuals. While this estimated value is similar to that given by Yang et al in their analyses, we remain concerned about two related issues: (1) whether in the complete absence of hidden relatedness, variance components methods have adequate power to estimate heritability when a very large number of SNPs are used in the analysis; and (2) whether estimation of heritability may be biased, in real studies, by low levels of residual hidden relatedness. We addressed the first question in a semi-analytic fashion by directly simulating the distribution of the score statistic for a test of zero heritability with and without low levels of relatedness. The second question was addressed by a very careful comparison of the behavior of estimated heritability for both observed (self-reported) height and simulated phenotypes compared to imputation R2 as a function of the number of SNPs used in the analysis. These simulations help to address the important question about whether today's GWAS SNPs will remain useful for imputing causal variants that are discovered using very large sample sizes in future studies of height, or whether the causal variants themselves will need to be genotyped de novo in order to build a prediction model that ultimately captures a large fraction of the variability

  1. The Middle Neoproterozoic Sidi Flah Group (Anti-Atlas, Morocco): synrift deposition in a Pan-African continent/ocean transition zone

    Science.gov (United States)

    Fekkak, A.; Pouclet, A.; Benharref, M.

    2003-08-01

    The Middle Neoproterozoic (Cryogenian) Sidi Flah Group rocks are located in the Saghro inlier of the Eastern Anti-Atlas and consists of siliciclastic detrital sediment, interbedded basaltic lavas and small ultramafic bodies. Sediment deposition occurred in three turbiditic formations of a deep-sea fan environment and was controlled by synsedimentary collapses. The composition of sandstones and typological study of zircons indicate that detrital material came from the gneisses and granites of a proximal craton. The lavas are synsedimentary subaqueous flows. They show chemical signatures of initial rift tholeiites and of plume-related alkaline intraplate basalts. The ultramafic rocks are serpentinized peridotites that were emplaced along N160° synsedimentary faults as numerous bodies 20-50 m in size. Their petrographical (Cr-spinel signature) and chemical features correspond to intracontinental ultramafic cumulates. The emplacement of the ultramafic rocks was associated with hydrothermal activity that generated calcareous and siliceous rocks such as ophicalcites and jaspers. All the features of the sediments, the lavas and the ultramafic bodies strongly suggest a continent-ocean transition geotectonic context, in an advanced stage of continental rifting that we attribute to the pre-Pan-African ocean passive margin extension.

  2. New World cattle show ancestry from multiple independent domestication events.

    Science.gov (United States)

    McTavish, Emily Jane; Decker, Jared E; Schnabel, Robert D; Taylor, Jeremy F; Hillis, David M

    2013-04-01

    Previous archeological and genetic research has shown that modern cattle breeds are descended from multiple independent domestication events of the wild aurochs (Bos primigenius) ∼10,000 y ago. Two primary areas of domestication in the Middle East/Europe and the Indian subcontinent resulted in taurine and indicine lines of cattle, respectively. American descendants of cattle brought by European explorers to the New World beginning in 1493 generally have been considered to belong to the taurine lineage. Our analyses of 47,506 single nucleotide polymorphisms show that these New World cattle breeds, as well as many related breeds of cattle in southern Europe, actually exhibit ancestry from both the taurine and indicine lineages. In this study, we show that, although European cattle are largely descended from the taurine lineage, gene flow from African cattle (partially of indicine origin) contributed substantial genomic components to both southern European cattle breeds and their New World descendants. New World cattle breeds, such as Texas Longhorns, provide an opportunity to study global population structure and domestication in cattle. Following their introduction into the Americas in the late 1400s, semiferal herds of cattle underwent between 80 and 200 generations of predominantly natural selection, as opposed to the human-mediated artificial selection of Old World breeding programs. Our analyses of global cattle breed population history show that the hybrid ancestry of New World breeds contributed genetic variation that likely facilitated the adaptation of these breeds to a novel environment. PMID:23530234

  3. End-Member modelling and quantification of terrigenous flux rates to the NW African continental margin during the late Pleistocene to Holocene

    Science.gov (United States)

    Just, Janna; von Dobeneck, Tilo; Bickert, Torsten; Frederichs, Thomas

    2010-05-01

    The region off Gambia is an interesting study area because of its geographical location in between the ITCZ summer and winter position. We study a sediment core spanning the last 60 kyrs off the Gambia river mouth (W Africa) to identify different sources of the terrigenous sediment components exported to the continental margin. Our aim is the quantification of terrigenous flux rates of fluvial and aeolian load, respectively to improve our understanding of palaeoclimatic conditions and climatic changes in the Sahel and Sahara. It is known that in western Africa arid conditions prevailed during glacials and North Atlantic Heinrich Events. After the Last Glacial Maximum (LGM) a humid climate dominated northern Africa between 5-12 kyrs BP, known as the African Humid Period (AHP). These climatic changes have already been documented in magnetic, chemical, mineralogical and sedimentological proxies, respectively. However, these investigations were mainly carried out in qualitative approaches and lack an integrated multi-proxy validation. We apply a multi-proxy approach using XRF-element data and environmental magnetic parameter analysis on 5 cm interval samples of sediment core GeoB13602-1 (13°32.71 N; 17°50.96 W). Carbonate and biogenic opal content were analysed to estimate the total terrigenous fraction. Environmental magnetic parameters including ARM, IRM, HIRM, SIRM and frequency-dependent susceptibility allow the estimation of magnetic minerals, e.g. magnetite, hematite and goethite. Ratios of these parameters reflect grainsizes of the magnetic minerals which are indicative of transport mechanisms. We performed an End-Member (EM) analysis of IRM acquisition curves, decomposing the bulk sample into different components which represent individual sediment sources. Our approach is to include chemical, sedimentological and magnetic parameters in this EM model to reconstruct the composition as well as the transport pathways of the sediments. Based on an age model

  4. HLA-DRB1 and -DQB1 loci in three west African ethnic groups: genetic relationship with sub-Saharan African and European populations.

    Science.gov (United States)

    Lulli, Patrizia; Mangano, Valentina D; Onori, Annamaria; Batini, Chiara; Luoni, Gaia; Sirima, Bienvenu S; Nebie, Issa; Chessa, Luciana; Petrarca, Vincenzo; Modiano, David

    2009-11-01

    The Fulani of west Africa have been shown to be less susceptible to malaria and to mount a stronger immune response to malaria than sympatric ethnic groups. The analysis of HLA diversity is useful for the assessment of the genetic distance between the Fulani and sympatric populations, which represents the necessary theoretical background for the investigation of genetic determinants of susceptibility to malaria. We assessed the polymorphism of HLA-DRB1 and -DQB1 loci and analyzed the distribution of alleles/haplotypes in Fulani, Mossi, and Rimaibé from Burkina Faso. We then investigated the genetic relationship of these three ethnic groups with other sub-Saharan African populations as well as with Europeans. We confirmed that the Fulani from Burkina Faso are genetically distinct from sympatric Mossi and Rimaibé. Furthermore the Fulani from Burkina Faso are close to those from The Gambia and, intriguingly, share the distribution of specific alleles with east African populations (Amhara and Oromo). It is noteworthy that the HLA-DRB1*04 and -DQB1*02 alleles, which are implicated in the development of several autoimmune diseases, are present at high frequency in the Fulani, suggesting their potential involvement in the enhanced immune reactivity observed in this population.

  5. Global divergence of the human follicle mite Demodex folliculorum: Persistent associations between host ancestry and mite lineages.

    Science.gov (United States)

    Palopoli, Michael F; Fergus, Daniel J; Minot, Samuel; Pei, Dorothy T; Simison, W Brian; Fernandez-Silva, Iria; Thoemmes, Megan S; Dunn, Robert R; Trautwein, Michelle

    2015-12-29

    Microscopic mites of the genus Demodex live within the hair follicles of mammals and are ubiquitous symbionts of humans, but little molecular work has been done to understand their genetic diversity or transmission. Here we sampled mite DNA from 70 human hosts of diverse geographic ancestries and analyzed 241 sequences from the mitochondrial genome of the species Demodex folliculorum. Phylogenetic analyses recovered multiple deep lineages including a globally distributed lineage common among hosts of European ancestry and three lineages that primarily include hosts of Asian, African, and Latin American ancestry. To a great extent, the ancestral geography of hosts predicted the lineages of mites found on them; 27% of the total molecular variance segregated according to the regional ancestries of hosts. We found that D. folliculorum populations are stable on an individual over the course of years and that some Asian and African American hosts maintain specific mite lineages over the course of years or generations outside their geographic region of birth or ancestry. D. folliculorum haplotypes were much more likely to be shared within families and between spouses than between unrelated individuals, indicating that transmission requires close contact. Dating analyses indicated that D. folliculorum origins may predate modern humans. Overall, D. folliculorum evolution reflects ancient human population divergences, is consistent with an out-of-Africa dispersal hypothesis, and presents an excellent model system for further understanding the history of human movement. PMID:26668374

  6. Forensic ancestry analysis with two capillary electrophoresis ancestry informative marker (AIM) panels

    DEFF Research Database (Denmark)

    Santos, C; Fondevila, M; Ballard, D;

    2015-01-01

    There is increasing interest in forensic ancestry tests, which are part of a growing number of DNA analyses that can enhance routine profiling by obtaining additional genetic information about unidentified DNA donors. Nearly all ancestry tests use single nucleotide polymorphisms (SNPs), but these...

  7. Developing a guide for community-based groups to reduce alcohol-related harm among African migrants.

    Science.gov (United States)

    Jaworski, Alison; Brown, Tony; Norman, Catherine; Hata, Kiri; Toohey, Mark; Vasiljevic, Dubravka; Rowe, Rachel

    2016-04-01

    Issue addressed Alcohol-related harm is an issue of concern for African migrant communities living in Australia. However, there has been little information available to guide workers in developing culturally sensitive health promotion strategies. Methods A three-step approach, comprising a literature review, community consultations and an external review, was undertaken to develop a guide to assist organisations and health promotion groups working with African migrant communities to address alcohol-related harms. Discussion There was a high level of agreement between the three steps. Addressing alcohol harms with African migrant communities requires approaches that are sensitive to the needs, structures and experiences of communities. The process should incorporate targeted approaches that enable communities to achieve their resettlement goals as well as strengthening mainstream health promotion efforts. Conclusions The resource produced guides alcohol harm prevention coalitions and workers from the first steps of understanding the influences of acculturation and resettlement on alcohol consumption, through to planning, developing and evaluating an intervention in partnership with communities. So what? This paper advances knowledge by providing a precise summary of Australian African migrant focused alcohol and other drug research to date. It also describes a three-step approach that aimed to incorporate a diversity of community views in the creation of a health promotion and community capacity-building resource. PMID:26726816

  8. Genetic analysis of ancestry, admixture and selection in Bolivian and Totonac populations of the New World

    Directory of Open Access Journals (Sweden)

    Watkins W

    2012-05-01

    Full Text Available Abstract Background Populations of the Americas were founded by early migrants from Asia, and some have experienced recent genetic admixture. To better characterize the native and non-native ancestry components in populations from the Americas, we analyzed 815,377 autosomal SNPs, mitochondrial hypervariable segments I and II, and 36 Y-chromosome STRs from 24 Mesoamerican Totonacs and 23 South American Bolivians. Results and Conclusions We analyzed common genomic regions from native Bolivian and Totonac populations to identify 324 highly predictive Native American ancestry informative markers (AIMs. As few as 40–50 of these AIMs perform nearly as well as large panels of random genome-wide SNPs for predicting and estimating Native American ancestry and admixture levels. These AIMs have greater New World vs. Old World specificity than previous AIMs sets. We identify highly-divergent New World SNPs that coincide with high-frequency haplotypes found at similar frequencies in all populations examined, including the HGDP Pima, Maya, Colombian, Karitiana, and Surui American populations. Some of these regions are potential candidates for positive selection. European admixture in the Bolivian sample is approximately 12%, though individual estimates range from 0–48%. We estimate that the admixture occurred ~360–384 years ago. Little evidence of European or African admixture was found in Totonac individuals. Bolivians with pre-Columbian mtDNA and Y-chromosome haplogroups had 5–30% autosomal European ancestry, demonstrating the limitations of Y-chromosome and mtDNA haplogroups and the need for autosomal ancestry informative markers for assessing ancestry in admixed populations.

  9. Aid & Trade: The European Union-African, Caribbean, & Pacific Group of States Framework within a Multi-Level Europe

    OpenAIRE

    Smith, Brent

    2009-01-01

    This project demonstrates how the European Union's aid and trade relationship with the African, Caribbean & Pacific (ACP) group of states fits within the context of a multi-level Europe. The analysis draws on the multi-level governance (MLG) typology designed by Liesbet Hooghe and Gary Marks, and the earlier intellectual endeavours of G.P.E. Walzenbach and colleagues to explain the EU governmental and policy process policies in aid and trade with ACP. By examining the nature and evolution...

  10. A comprehensive examination of breast cancer risk loci in African American women

    OpenAIRE

    Feng, Ye; Stram, Daniel O.; Rhie, Suhn Kyong; Millikan, Robert C.; Ambrosone, Christine B.; John, Esther M; Bernstein, Leslie; Zheng, Wei; Olshan, Andrew F.; Jennifer J Hu; Ziegler, Regina G.; Nyante, Sarah; Bandera, Elisa V.; Sue A Ingles; Michael F. Press

    2014-01-01

    Genome-wide association studies have identified 73 breast cancer risk variants mainly in European populations. Given considerable differences in linkage disequilibrium structure between populations of European and African ancestry, the known risk variants may not be informative for risk in African ancestry populations. In a previous fine-mapping investigation of 19 breast cancer loci, we were able to identify SNPs in four regions that better captured risk associations in African American wome...

  11. Body Image and Quality of Life in a Group of African American Women

    Science.gov (United States)

    Cox, Tiffany L.; Zunker, Christie; Wingo, Brooks; Thomas, Dana-Marie; Ard, Jamy D.

    2010-01-01

    African American (AA) women's preference for a larger body size and underestimation of their body weight may affect the relationship between their body weight and weight-related quality of life (QOL). We wanted to examine the relationship between weight-related QOL and body mass index (BMI) in a sample of overweight AA women. Thirty-three…

  12. Geography and genography: prediction of continental origin using randomly selected single nucleotide polymorphisms

    Directory of Open Access Journals (Sweden)

    Ramoni Marco F

    2007-03-01

    Full Text Available Abstract Background Recent studies have shown that when individuals are grouped on the basis of genetic similarity, group membership corresponds closely to continental origin. There has been considerable debate about the implications of these findings in the context of larger debates about race and the extent of genetic variation between groups. Some have argued that clustering according to continental origin demonstrates the existence of significant genetic differences between groups and that these differences may have important implications for differences in health and disease. Others argue that clustering according to continental origin requires the use of large amounts of genetic data or specifically chosen markers and is indicative only of very subtle genetic differences that are unlikely to have biomedical significance. Results We used small numbers of randomly selected single nucleotide polymorphisms (SNPs from the International HapMap Project to train naïve Bayes classifiers for prediction of ancestral continent of origin. Predictive accuracy was tested on two independent data sets. Genetically similar groups should be difficult to distinguish, especially if only a small number of genetic markers are used. The genetic differences between continentally defined groups are sufficiently large that one can accurately predict ancestral continent of origin using only a minute, randomly selected fraction of the genetic variation present in the human genome. Genotype data from only 50 random SNPs was sufficient to predict ancestral continent of origin in our primary test data set with an average accuracy of 95%. Genetic variations informative about ancestry were common and widely distributed throughout the genome. Conclusion Accurate characterization of ancestry is possible using small numbers of randomly selected SNPs. The results presented here show how investigators conducting genetic association studies can use small numbers of arbitrarily

  13. Frequencies of HID-ion ampliseq ancestry panel markers among greenlanders

    DEFF Research Database (Denmark)

    Espregueira Themudo, Gonçalo; Smidt Mogensen, Helle; Børsting, Claus;

    2016-01-01

    set of 89 individuals and a test set of 15 individuals. All loci showed genotype distributions consistent with Hardy-Weinberg expectations. Linkage disequilibrium tests indicated that 14 pairs of loci were in association in Greenlanders. Population assignment of the training set to populations......The HID-Ion AmpliSeq Ancestry Panel from Life Techologies includes 123 SNPs from the Seldin panel and 55 SNPs from Kidd panel in a single multiplex assay that helps to determine the continental biogeographic ancestry of individuals. We tested the panel on 104 Greenlanders, divided into a training...... included in the HID SNP genotyper plugin placed most individuals in American, Asian, and in a few cases European populations. By including the genotype frequencies of this training set as a possible population of origin, all 15 individuals from the test set were correctly predicted to be Greenlanders using...

  14. I too, am America: a review of research on systemic lupus erythematosus in African-Americans.

    Science.gov (United States)

    Williams, Edith M; Bruner, Larisa; Adkins, Alyssa; Vrana, Caroline; Logan, Ayaba; Kamen, Diane; Oates, James C

    2016-01-01

    Systemic lupus erythematosus (SLE) is a multi-organ autoimmune disorder that can cause significant morbidity and mortality. A large body of evidence has shown that African-Americans experience the disease more severely than other racial-ethnic groups. Relevant literature for the years 2000 to August 2015 were obtained from systematic searches of PubMed, Scopus, and the EBSCOHost platform that includes MEDLINE, CINAHL, etc. to evaluate research focused on SLE in African-Americans. Thirty-six of the 1502 articles were classified according to their level of evidence. The systematic review of the literature reported a wide range of adverse outcomes in African-American SLE patients and risk factors observed in other mono and multi-ethnic investigations. Studies limited to African-Americans with SLE identified novel methods for more precise ascertainment of risk and observed novel findings that hadn't been previously reported in African-Americans with SLE. Both environmental and genetic studies included in this review have highlighted unique African-American populations in an attempt to isolate risk attributable to African ancestry and observed increased genetic influence on overall disease in this cohort. The review also revealed emerging research in areas of quality of life, race-tailored interventions, and self-management. This review reemphasizes the importance of additional studies to better elucidate the natural history of SLE in African-Americans and optimize therapeutic strategies for those who are identified as being at high risk. PMID:27651918

  15. Chromosome Connections: Compelling Clues to Common Ancestry

    Science.gov (United States)

    Flammer, Larry

    2013-01-01

    Students compare banding patterns on hominid chromosomes and see striking evidence of their common ancestry. To test this, human chromosome no. 2 is matched with two shorter chimpanzee chromosomes, leading to the hypothesis that human chromosome 2 resulted from the fusion of the two shorter chromosomes. Students test that hypothesis by looking for…

  16. A group of black South Africans' experience of telling their untold stories about the apartheid era / Jacques Vermeulen

    OpenAIRE

    Vermeulen, Jacques

    2006-01-01

    The aim or this research was to explore a group of black South Africans' experiences of telling their untold stories of survival about the apartheid era. The expectation was that if they did become more aware of these alternative stories, it could have a far-reaching effect on their lives. Research indicates that when attention is given to these narratives they may be a powerful tool in not only recovering the story but also in focusing on the survivors' own consciousness and g...

  17. Genome-wide Scan of 29,141 African Americans Finds No Evidence of Directional Selection since Admixture

    OpenAIRE

    Bhatia, Gaurav; Tandon, Arti; Patterson, Nick; Aldrich, Melinda C.; Ambrosone, Christine B.; Amos, Christopher; Bandera, Elisa V.; Berndt, Sonja I.; Bernstein, Leslie; Blot, William J.; Bock, Cathryn H.; Caporaso, Neil; Casey, Graham; Deming, Sandra L.; Diver, W. Ryan

    2014-01-01

    The extent of recent selection in admixed populations is currently an unresolved question. We scanned the genomes of 29,141 African Americans and failed to find any genome-wide-significant deviations in local ancestry, indicating no evidence of selection influencing ancestry after admixture. A recent analysis of data from 1,890 African Americans reported that there was evidence of selection in African Americans after their ancestors left Africa, both before and after admixture. Selection afte...

  18. The Great Migration and African-American Genomic Diversity.

    Directory of Open Access Journals (Sweden)

    Soheil Baharian

    2016-05-01

    Full Text Available We present a comprehensive assessment of genomic diversity in the African-American population by studying three genotyped cohorts comprising 3,726 African-Americans from across the United States that provide a representative description of the population across all US states and socioeconomic status. An estimated 82.1% of ancestors to African-Americans lived in Africa prior to the advent of transatlantic travel, 16.7% in Europe, and 1.2% in the Americas, with increased African ancestry in the southern United States compared to the North and West. Combining demographic models of ancestry and those of relatedness suggests that admixture occurred predominantly in the South prior to the Civil War and that ancestry-biased migration is responsible for regional differences in ancestry. We find that recent migrations also caused a strong increase in genetic relatedness among geographically distant African-Americans. Long-range relatedness among African-Americans and between African-Americans and European-Americans thus track north- and west-bound migration routes followed during the Great Migration of the twentieth century. By contrast, short-range relatedness patterns suggest comparable mobility of ∼15-16km per generation for African-Americans and European-Americans, as estimated using a novel analytical model of isolation-by-distance.

  19. Russia's Literary Genius Alexander Pushkin: The Great-Grandson of an African Slave.

    Science.gov (United States)

    Lounsbery, Anne

    2000-01-01

    Alexander Pushkin, Russia's most celebrated literary figure, descended from an African slave. On both parents' sides, he was related to Avram Petrovich Gannibal, who was born to an African prince and abducted to become a slave to a Russian diplomat. Pushkin chose to pride himself on both his aristocratic life and his African ancestry. (SM)

  20. Information system agnostic ancestry for digital objects

    OpenAIRE

    Heuscher, S J B

    2010-01-01

    More and more information is becoming available in digital form, most of it derived from digital sources. Digital information is made available as digital objects composed of a sequence of bits and managed by information systems. To date, these digital objects have no independent identification which can be refered outside of a specific information system. However, they normally outlive these systems and can be copied to other systems. In order for the ancestry of digital information to span ...

  1. Continental drilling

    Energy Technology Data Exchange (ETDEWEB)

    Shoemaker, E.M. (ed.)

    1975-01-01

    The Workshop on Continental Drilling was convened to prepare a report for submission to the US Geodynamics Committee with respect to the contribution that could be made by land drilling to resolve major problems of geodynamics and consider the mechanisms by which the responsibility for scientific planning, establishment of priorities, administration, and budgeting for a land-drilling program within the framework of the aims of the Geodynamics Project would best be established. A new and extensive program to study the continental crust is outlined in this report. The Workshop focused on the following topics: processes in the continental crust (mechanism of faulting and earthquakes, hydrothermal systems and active magma chambers); state and structure of the continental crust (heat flow and thermal structure of the crust; state of ambient stress in the North American plate; extent, regional structure, and evolution of crystalline continental crust); short hole investigations; present state and needs of drilling technology; drill hole experimentation and instrumentation; suggestions for organization and operation of drilling project; and suggested level of effort and funding. Four recommendations are set down. 8 figures, 5 tables. (RWR)

  2. Pharmacogenomic diversity among Brazilians: Influence of ancestry, self-reported Color and geographical origin

    Directory of Open Access Journals (Sweden)

    Guilherme eSuarez-Kurtz

    2012-11-01

    Full Text Available By virtue of being the product of the genetic admixture of three ancestral roots: Europeans, Africans and Amerindians, the present day Brazilian population displays very high levels of genomic diversity, which have important pharmacogenetic/-genomic (PGx implications. Recognition of this fact has prompted the creation of the Brazilian Pharmacogenomics Network (Refargen, a nationwide consortium of research groups, with the mission to provide leadership in PGx research and education in Brazil, with a population heath impact. Here, we present original data and review published results from a Refargen comprehensive study of the distribution of PGx polymorphisms in a representative cohort of the Brazilian people, comprising 1,034 healthy, unrelated adults, self-identified as white, brown or black, according to the Color categories adopted by the Brazilian Census. Multinomial log-linear regression analysis was applied to infer the statistical association between allele, genotype and haplotype distributions among Brazilians (response variables and self-reported Color, geographical region and biogeographical ancestry (explanatory variables, whereas Wright´s FST statistics was used to assess the extent of PGx divergence among different strata of the Brazilian population. Major PGx implications of these findings are: first, extrapolation of data from relatively well-defined ethnic groups is clearly not applicable to the majority of Brazilians; second, the frequency distribution of polymorphisms in several pharmacogenes of clinical relevance (e.g. ABCB1, CYP3A5, CYP2C9, VKORC varies continuously among Brazilians and is not captured by race/Color self-identification; third, the intrinsic heterogeneity of the Brazilian population must be acknowledged in the design and interpretation of PGx studies in order to avoid spurious conclusions based on improper matching of study cohorts.

  3. What the Face and Body Reveal: In-Group Emotion Effects and Stereotyping of Emotion in African American and European American Children

    Science.gov (United States)

    Tuminello, Elizabeth R.; Davidson, Denise

    2011-01-01

    This study examined whether 3- to 7-year-old African American and European American children's assessment of emotion in face-only, face + body, and body-only photographic stimuli was affected by in-group emotion recognition effects and racial or gender stereotyping of emotion. Evidence for racial in-group effects was found, with European American…

  4. "The bullets sound like music to my ears" : socialization of child soldiers within African rebel groups

    NARCIS (Netherlands)

    Vermeij, L.

    2014-01-01

    Based on over 400 in-depth interviews with child soldiers and their commanders, this research reveals how rebel group socialization leads to allegiance among child soldiers and how this contributes to the creation of a cohesive group.

  5. Comparing genetic ancestry and self-reported race/ethnicity in a multiethnic population in New York City

    Indian Academy of Sciences (India)

    Yin Leng Lee; Susan Teitelbaum; Mary S. Wolff; James G. Wetmur; Jia Chen

    2010-12-01

    Self-reported race/ethnicity is frequently used in epidemiological studies to assess an individual’s background origin. However, in admixed populations such as Hispanic, self-reported race/ethnicity may not accurately represent them genetically because they are admixed with European, African and Native American ancestry. We estimated the proportions of genetic admixture in an ethnically diverse population of 396 mothers and 188 of their children with 35 ancestry informative markers (AIMs) using the STRUCTURE version 2.2 program. The majority of the markers showed significant deviation from Hardy–Weinberg equilibrium in our study population. In mothers self-identified as Black and White, the imputed ancestry proportions were 77.6% African and 75.1% European respectively, while the racial composition among self-identified Hispanics was 29.2% European, 26.0% African, and 44.8% Native American.We also investigated the utility of AIMs by showing the improved fitness of models in paraoxanase-1 genotype–phenotype associations after incorporating AIMs; however, the improvement was moderate at best. In summary, a minimal set of 35 AIMs is sufficient to detect population stratification and estimate the proportion of individual genetic admixture; however, the utility of these markers remains questionable.

  6. Forming Representative Household and Factor Groups for a South African SAM

    OpenAIRE

    Pauw, Kalie

    2005-01-01

    This Technical Paper explains the formation of representative households and factor groups for inclusion in the PROVIDE Project Social Accounting Matrix. A general guideline for forming household and/or factor groups is that they should reproduce the socio-economic stratification within the society as accurately as possible. Such groups should also be made up of 'relatively homogenous' groups that are easily recognisable for policy purposes. Here the Income and Expenditure Survey (2000) and L...

  7. Influence of prey dispersion on territory and group size of African lions: a test of the resource dispersion hypothesis.

    Science.gov (United States)

    Valeix, Marion; Loveridge, Andrew J; MacDonald, David W

    2012-11-01

    Empirical tests of the resource dispersion hypothesis (RDH), a theory to explain group living based on resource heterogeneity, have been complicated by the fact that resource patch dispersion and richness have proved difficult to define and measure in natural systems. Here, we studied the ecology of African lions Panthera leo in Hwange National Park, Zimbabwe, where waterholes are prey hotspots, and where dispersion of water sources and abundance of prey at these water sources are quantifiable. We combined a 10-year data set from GPS-collared lions for which information of group composition was available concurrently with data for herbivore abundance at waterholes. The distance between two neighboring waterholes was a strong determinant of lion home range size, which provides strong support for the RDH prediction that territory size increases as resource patches are more dispersed in the landscape. The mean number of herbivore herds using a waterhole, a good proxy of patch richness, determined the maximum lion group biomass an area can support. This finding suggests that patch richness sets a maximum ceiling on lion group size. This study demonstrates that landscape ecology is a major driver of ranging behavior and suggests that aspects of resource dispersion limit group sizes.

  8. Environmental conditions associated with repetitive behavior in a group of African elephants.

    Science.gov (United States)

    Hasenjager, Matthew J; Bergl, Richard A

    2015-01-01

    Repetitive movement patterns are commonly observed in zoo elephants. The extent to which these behaviors constitute a welfare concern varies, as their expression ranges from stereotypies to potentially beneficial anticipatory behaviors. Nevertheless, their occurrence in zoo animals is often viewed negatively. To better identify conditions that prompt their performance, observations were conducted on six African elephants (Loxodonta africana) at the North Carolina Zoo. Individuals spent most of their time engaged in feeding, locomotion, resting, and repetitive behavior. Both generalized estimating equation and zero-inflated negative binomial models were used to identify factors associated with increased rates of repetitive behavior. Time of day in conjunction with location on- or off-exhibit best explained patterns of repetitive behavior. Repetitive behaviors occurred at a lower rate in the morning when on-exhibit, as compared to afternoons on-exhibit or at any time of day off-exhibit. Increased repetitive behavior rates observed on-exhibit in the afternoon prior to the evening transfer and feeding were possibly anticipatory responses towards those events. In contrast, consistently elevated frequencies of repetitive behavior off-exhibit at all times of day could be related to differences in exhibit complexity between off-exhibit and on-exhibit areas, as well as a lack of additional foraging opportunities. Our study contributes valuable information on captive elephant behavior and represents a good example of how behavioral research can be employed to improve management of zoo animals. PMID:25919392

  9. Ancestry informative markers and complete blood count parameters in Brazilian blood donors

    Directory of Open Access Journals (Sweden)

    Gabriela E. S. Felix

    2010-01-01

    Full Text Available A complete blood count is very useful in clinical diagnoses when reference ranges are well established for the population. Complete blood counts and allele frequencies of Ancestry Informative Markers (AIMs were analyzed in Brazilians with the aim of characterizing the hematological values of an admixed population. Positive associations were observed between gender and neutrophils, monocytes, eosinophils, erythrocytes, hemoglobin, hematocrit, MCV, MCHC and platelet counts. No significant differences were found for age, alcohol consumption, educational status, ethnicity, smoking in respect to the complete blood count values. In general, men had higher red blood cell values, while women had higher values for white blood cells and platelets. The study of the population was highly heterogeneous with mean proportions (± SE of African, European and Amerindian ancestry being 49.0 ± 3.0%, 44.0 ± 9.0% and 7.0 ± 9.0%, respectively. Amerindian ancestry showed limited contribution to the makeup of the population, but estimated ancestral proportions were statistically significant (r = 0.9838; P<0.001. These hematologic values are similar to Afro-Americans, another admixed population.

  10. Continental tectonics and continental kinetics

    International Nuclear Information System (INIS)

    We present a model of continental growth which combines the results of geochemical studies and tectonic ideas about the evolution of continents through geological time. The process of continental growth is mainly controlled by surface phenomena. Continental material is extracted from the mantle along subduction zones at the periphery of oceans, and is destroyed in collision zones where it is remobilized and made available for subduction. We derive an equation for S, the portion of the Earth's surface occupied by continents, which reads as follows: dS/dt=a . √(1-S)-b . S. Coefficients a and b depend on the geometry of plates, on their number and on their velocities. We assume that they decrease exponentially with time with the same time-scale α. This model satisfies both geochemical and tectonic constraints, and allows the integration of several current observations in a single framework. (orig.)

  11. Maximum-likelihood estimation of recent shared ancestry (ERSA)

    OpenAIRE

    Huff, Chad D.; Witherspoon, David J.; Simonson, Tatum S.; Xing, Jinchuan; Watkins, W Scott; Zhang, Yuhua; Tuohy, Therese M; Neklason, Deborah W.; Burt, Randall W.; Guthery, Stephen L; Woodward, Scott R.; Jorde, Lynn B

    2011-01-01

    Accurate estimation of recent shared ancestry is important for genetics, evolution, medicine, conservation biology, and forensics. Established methods estimate kinship accurately for first-degree through third-degree relatives. We demonstrate that chromosomal segments shared by two individuals due to identity by descent (IBD) provide much additional information about shared ancestry. We developed a maximum-likelihood method for the estimation of recent shared ancestry (ERSA) from the number a...

  12. The Myanmar continental shelf

    Digital Repository Service at National Institute of Oceanography (India)

    Ramaswamy, V.; Rao, P.S.

    mostly on the continental shelf. These rivers have contributed significantly to the deep Andaman Basin in the past, especially during low sea- level stands (Rodolfo, 1969a). The continental shelf of Myanmar is strongly influenced by monsoonal processes... the Andaman Sea and the hilly Shan Plateau to the north (Fig. 1 inset). The Western Mountain Belt includes a group of low mountains called the Rakhine Mountains (Arakan Yoma) which extend from the Myanmar-India Border to the Bay of Bengal. This belt also...

  13. Attitudes of non-African American focus group participants toward return of results from exome and whole genome sequencing.

    Science.gov (United States)

    Yu, Joon-Ho; Crouch, Julia; Jamal, Seema M; Bamshad, Michael J; Tabor, Holly K

    2014-09-01

    Exome sequencing and whole genome sequencing (ES/WGS) present individuals with the opportunity to benefit from a broad scope of genetic results of clinical and personal utility. Yet, it is unclear which genetic results people want to receive (i.e., what type of genetic information they want to learn about themselves) or conversely not receive, and how they want to receive or manage results over time. Very little is known about whether and how attitudes toward receiving individual results from ES/WGS vary among racial/ethnic populations. We conducted 13 focus groups with a racially and ethnically diverse parent population (n = 76) to investigate attitudes toward return of individual results from WGS. We report on our findings for non-African American (non-AA) participants. Non-AA participants were primarily interested in genetic results on which they could act or "do something about." They defined "actionability" broadly to include individual medical treatment and disease prevention. The ability to plan for the future was both a motivation for and an expected benefit of receiving results. Their concerns focused on the meaning of results, specifically the potential inaccuracy and uncertainty of results. Non-AA participants expected healthcare providers to be involved in results management by helping them interpret results in the context of their own health and by providing counseling support. We compare and contrast these themes with those we previously reported from our analysis of African American (AA) perspectives to highlight the importance of varying preferences for results, characterize the central role of temporal orientation in framing expectations about the possibility of receiving ES/WGS results, and identify potential avenues by which genomic healthcare disparities may be inadvertently perpetuated.

  14. Group Work as "Terrains of Learning" for Students in South African Higher Education

    Science.gov (United States)

    Thondhlana, Gladman; Belluigi, Dina Zoe

    2014-01-01

    A common global perception of group work in the higher education context is that it has the potential to act as a platform which can enable student learning by means of interactions, shared diverse experiences, deep engagement with subject concepts and the achievement of tasks collaboratively. Indeed, in different socio-economic, historical and…

  15. Group Interventions with Low-Income African American Women Recovering from Chemical Dependency.

    Science.gov (United States)

    Washington, Olivia G. M.; Moxley, David P.

    2003-01-01

    Presents finding from an investigation of two group therapy modalities involving 93 women with dependent children and limited education and income levels. An overview of intervention activities that participants found beneficial is presented. Programs were found to help participants develop a sense of community, reduce stress, improve…

  16. Worldwide Estimates Relative to Five Continental-Scale Populations

    OpenAIRE

    Steele, Christopher D.; Court, Denise Syndercombe; Balding, David J.

    2014-01-01

    We estimate the population genetics parameter (also referred to as the fixation index) from short tandem repeat (STR) allele frequencies, comparing many worldwide human subpopulations at approximately the national level with continental-scale populations. is commonly used to measure population differentiation, and is important in forensic DNA analysis to account for remote shared ancestry between a suspect and an alternative source of the DNA. We estimate comparing subpopulations with a hypot...

  17. Analysis of pharmacogenetic traits in two distinct South African populations

    Directory of Open Access Journals (Sweden)

    Ikediobi Ogechi

    2011-05-01

    Full Text Available Abstract Our knowledge of pharmacogenetic variability in diverse populations is scarce, especially in sub-Saharan Africa. To bridge this gap in knowledge, we characterised population frequencies of clinically relevant pharmacogenetic traits in two distinct South African population groups. We genotyped 211 tagging single nucleotide polymorphisms (tagSNPs in 12 genes that influence antiretroviral drug disposition, in 176 South African individuals belonging to two distinct population groups residing in the Western Cape: the Xhosa (n = 109 and Cape Mixed Ancestry (CMA (n = 67 groups. The minor allele frequencies (MAFs of eight tagSNPs in six genes (those encoding the ATP binding cassette sub-family B, member 1 [ABCB1], four members of the cytochrome P450 family [CYP2A7P1, CYP2C18, CYP3A4, CYP3A5] and UDP-glucuronosyltransferase 1 [UGT1A1] were significantly different between the Xhosa and CMA populations (Bonferroni p CYP2C18, CYP3A4, the gene encoding solute carrier family 22 member 6 [SLC22A6] and UGT1A1 between the two South African populations. Characterising the Xhosa and CMA population frequencies of variant alleles important for drug transport and metabolism can help to establish the clinical relevance of pharmacogenetic testing in these populations.

  18. The South African Personality Inventory (SAPI): a culture-informed instrument for the country's main ethnocultural groups.

    Science.gov (United States)

    Fetvadjiev, Velichko H; Meiring, Deon; van de Vijver, Fons J R; Nel, J Alewyn; Hill, Carin

    2015-09-01

    We present the development and the underlying structure of a personality inventory for the main ethnocultural groups of South Africa, using an emic-etic approach. The South African Personality Inventory (SAPI) was developed based on an extensive qualitative study of the implicit personality conceptions in the country's 11 official languages (Nel et al., 2012). Items were generated and selected (to a final set of 146) with a continuous focus on cultural adequacy and translatability. Students and community adults (671 Blacks, 198 Coloreds, 104 Indians, and 391 Whites) completed the inventory. A 6-dimensional structure (comprising a positive and a negative Social-Relational factor, Neuroticism, Extraversion, Conscientiousness, and Openness) was equivalent across groups and replicated in an independent sample of 139 Black and 270 White students. The SAPI correlated highly overall with impression-management aspects, but lower with lying aspects of social desirability. The SAPI social-relational factors were distinguishable from the Big Five in a joint factor analysis; the multiple correlations with the Big Five were .64 (positive) and .51 (negative social-relational). Implications and suggestions for emic-etic instrument and model development are discussed. PMID:25602691

  19. Continental dynamics and continental earthquakes

    Institute of Scientific and Technical Information of China (English)

    张东宁; 张国民; 张培震

    2003-01-01

    Two key research projects in geoscience field in China since the IUGG meeting in Birmingham in 1999, the project of "East Asian Continental Geodynamics" and the project of "Mechanism and Prediction of Strong Continental Earthquakes" are introduced in this paper. Some details of two projects, such as their sub-projects, some initial research results published are also given here. Because of the large magnitude of the November 14, 2001 Kunlun Mountain Pass MS=8.1 earthquake, in the third part of this paper, some initial research results are reviewed for the after-shock monitoring and the multi-discipline field survey, the impact and disaster of this earthquake on the construction site of Qinghai-Xizang (Tibet) railway and some other infrastructure.

  20. The ability of health promoters to deliver group diabetes education in South African primary care

    Directory of Open Access Journals (Sweden)

    Anna S. Botes

    2013-01-01

    Full Text Available Background: Diabetes makes a significant contribution to the burden of disease in South Africa.This study assesses a group diabetes education programme using motivational interviewingin public sector health centres serving low socio-economic communities in Cape Town.The programme was delivered by mid-level health promotion officers (HPOs.Objectives: The aim of the study was to explore the experience of the HPOs and to observetheir fidelity to the educational programme.Methods: Three focus group interviews were held with the 14 HPOs who delivered theeducational programme in 17 health centres. Thirty-three sessions were observed directly andthe audio tapes were analysed using the motivational interviewing (MI integrity code.Results: The HPOs felt confident in their ability to deliver group education after receiving thetraining. They reported a significant shift in their communication style and skills. They feltthe new approach was feasible and better than before. The resource material was found to berelevant, understandable and useful. The HPOs struggled with poor patient attendance and alack of suitable space at the facilities. They delivered the majority of the content and achievedbeginning-level proficiency in the MI guiding style of communication and the use of openquestions. The HPOs did not demonstrate proficiency in active listening and continued to offersome unsolicited advice.Conclusion: The HPOs demonstrated their potential to deliver group diabetes education despiteissues that should be addressed in future training and the district health services. Thefindings will help with the interpretation of results from a randomised controlled trial evaluatingthe effectiveness of the education.

  1. The genetics of East African populations: a Nilo-Saharan component in the African genetic landscape.

    Science.gov (United States)

    Dobon, Begoña; Hassan, Hisham Y; Laayouni, Hafid; Luisi, Pierre; Ricaño-Ponce, Isis; Zhernakova, Alexandra; Wijmenga, Cisca; Tahir, Hanan; Comas, David; Netea, Mihai G; Bertranpetit, Jaume

    2015-01-01

    East Africa is a strategic region to study human genetic diversity due to the presence of ethnically, linguistically, and geographically diverse populations. Here, we provide new insight into the genetic history of populations living in the Sudanese region of East Africa by analysing nine ethnic groups belonging to three African linguistic families: Niger-Kordofanian, Nilo-Saharan and Afro-Asiatic. A total of 500 individuals were genotyped for 200,000 single-nucleotide polymorphisms. Principal component analysis, clustering analysis using ADMIXTURE, FST statistics, and the three-population test were used to investigate the underlying genetic structure and ancestry of the different ethno-linguistic groups. Our analyses revealed a genetic component for Sudanese Nilo-Saharan speaking groups (Darfurians and part of Nuba populations) related to Nilotes of South Sudan, but not to other Sudanese populations or other sub-Saharan populations. Populations inhabiting the North of the region showed close genetic affinities with North Africa, with a component that could be remnant of North Africans before the migrations of Arabs from Arabia. In addition, we found very low genetic distances between populations in genes important for anti-malarial and anti-bacterial host defence, suggesting similar selective pressures on these genes and stressing the importance of considering functional pathways to understand the evolutionary history of populations.

  2. A zymodeme study of Entamoeba histolytica in a group of South African schoolchildren.

    Science.gov (United States)

    Sargeaunt, P G; Williams, J E; Jackson, T F; Simjee, A E

    1982-01-01

    Using a biphasic culture medium, stocks of intestinal amoebae were isolated from a group of children attending school in Durban, South Africa. These were compared with stocks collected in other areas of the world already characterized using the electrophoretic patterns of four enzymes: glucose phosphate isomerase (GPI), phosphoglucomutase (PGM) L-malate: NADP+ oxido-reductase (oxalacetate-decarboxylating) (ME) and hexokinase (HK). 33% of 94 samples grew Entamoeba histolytica, only one of which gave a pattern indicative of a pathogenic stock. Entamoeba hartmanni, Dientamoeba fragilis and Entamoeba coli were also grown from some samples, increasing the total positive samples for all species isolated to 40%. PMID:6287686

  3. Association of genetic ancestry with breast cancer in ethnically diverse women from Chicago.

    Directory of Open Access Journals (Sweden)

    Umaima Al-Alem

    Full Text Available INTRODUCTION: Non-Hispanic (nH Black and Hispanic women are disproportionately affected by early onset disease, later stage, and with more aggressive, higher grade and ER/PR negative breast cancers. The purpose of this analysis was to examine whether genetic ancestry could account for these variation in breast cancer characteristics, once data were stratified by self-reported race/ethnicity and adjusted for potential confounding by social and behavioral factors. METHODS: We used a panel of 100 ancestry informative markers (AIMs to estimate individual genetic ancestry in 656 women from the "Breast Cancer Care in Chicago" study, a multi-ethnic cohort of breast cancer patients to examine the association between individual genetic ancestry and breast cancer characteristics. In addition we examined the association of individual AIMs and breast cancer to identify genes/regions that may potentially play a role in breast cancer disease disparities. RESULTS: As expected, nH Black and Hispanic patients were more likely than nH White patients to be diagnosed at later stages, with higher grade, and with ER/PR negative tumors. Higher European genetic ancestry was protective against later stage at diagnosis (OR 0.7 95%CI: 0.54-0.92 among Hispanic patients, and higher grade (OR 0.73, 95%CI: 0.56-0.95 among nH Black patients. After adjustment for multiple social and behavioral risk factors, the association with later stage remained, while the association with grade was not significant. We also found that the AIM SNP rs10954631 on chromosome 7 was associated with later stage (p = 0.02 and higher grade (p = 0.012 in nH Whites and later stage (p = 0.03 in nH Blacks. CONCLUSION: Non-European genetic ancestry was associated with later stage at diagnosis in ethnic minorities. The relation between genetic ancestry and stage at diagnosis may be due to genetic factors and/or unmeasured environmental factors that are overrepresented within certain racial

  4. Electron microprobe chemical ages of monazite from Qinling Group in the Qinling Orogen:Evidence for Late Pan-African metamorphism?

    Institute of Scientific and Technical Information of China (English)

    CHEN Qiang; CHEN Nengsong; WANG Qinyan; SUN Min; WANG Xinyu; LI Xiaoyan; SHU Guiming

    2006-01-01

    Electron microprobe chemical dating was carried out on monazites enclosed in two generations of mineral paragenesis of St + Ky + Grt and Sil + And + Grt + St, respectively, from the Qinling Group. Two different ages, 520±23 Ma and 435±9 Ma,were obtained from these monazites. This indicates that the Qinling Group experienced a metamorphism during the Early Cambrian, which is probably in response to the Late Pan-African subduction-accretion tectonothermal event.

  5. The effects of socioeconomic status, clinical factors, and genetic ancestry on pulmonary tuberculosis disease in northeastern Mexico.

    Directory of Open Access Journals (Sweden)

    Bonnie N Young

    Full Text Available Diverse socioeconomic and clinical factors influence susceptibility to tuberculosis (TB disease in Mexico. The role of genetic factors, particularly those that differ between the parental groups that admixed in Mexico, is unclear. The objectives of this study are to identify the socioeconomic and clinical predictors of the transition from latent TB infection (LTBI to pulmonary TB disease in an urban population in northeastern Mexico, and to examine whether genetic ancestry plays an independent role in this transition. We recruited 97 pulmonary TB disease patients and 97 LTBI individuals from a public hospital in Monterrey, Nuevo León. Socioeconomic and clinical variables were collected from interviews and medical records, and genetic ancestry was estimated for a subset of 142 study participants from 291,917 single nucleotide polymorphisms (SNPs. We examined crude associations between the variables and TB disease status. Significant predictors from crude association tests were analyzed using multivariable logistic regression. We also compared genetic ancestry between LTBI individuals and TB disease patients at 1,314 SNPs in 273 genes from the TB biosystem in the NCBI BioSystems database. In crude association tests, 12 socioeconomic and clinical variables were associated with TB disease. Multivariable logistic regression analyses indicated that marital status, diabetes, and smoking were independently associated with TB status. Genetic ancestry was not associated with TB disease in either crude or multivariable analyses. Separate analyses showed that LTBI individuals recruited from hospital staff had significantly higher European genetic ancestry than LTBI individuals recruited from the clinics and waiting rooms. Genetic ancestry differed between individuals with LTBI and TB disease at SNPs located in two genes in the TB biosystem. These results indicate that Monterrey may be structured with respect to genetic ancestry, and that genetic

  6. Voice and handgrip strength predict reproductive success in a group of indigenous African females.

    Directory of Open Access Journals (Sweden)

    Jeremy Atkinson

    Full Text Available Evolutionary accounts of human traits are often based on proxies for genetic fitness (e.g., number of sex partners, facial attractiveness. Instead of using proxies, actual differences in reproductive success is a more direct measure of darwinian fitness. Certain voice acoustics such as fundamental frequency and measures of health such as handgrip strength correlate with proxies of fitness, yet there are few studies showing the relation of these traits to reproduction. Here, we explore whether the fundamental frequency of the voice and handgrip strength account for differences in actual reproduction among a population of natural fertility humans. Our results show that both fundamental frequency and handgrip strength predict several measures of reproductive success among a group of indigenous Namibian females, particularly amongst the elderly, with weight also predicting reproductive outcomes among males. These findings demonstrate that both hormonally regulated and phenotypic quality markers can be used as measures of darwinian fitness among humans living under conditions that resemble the evolutionary environment of Homo sapiens. We also argue that these findings provide support for the Grandmother Hypothesis.

  7. The Antidiabetic Efficacy of Combined Extracts from Two Continental Plants: Azadirachta indica (A. Juss (Neem and Vernonia amygdalina (Del. (African Bitter Leaf

    Directory of Open Access Journals (Sweden)

    Patrick Ekong Ebong

    2008-01-01

    Full Text Available Polyherbal therapy is said to be a current pharmacological principle having the advantage of producing maximum therapeutic efficacy with minimum side effects. We assessed the antidiabetic efficacy and hence the impact on biochemical indices of toxicity by a combination of extracts from neem and bitterleaf. Thirty rats, 25 diabetic and 5 non-diabetic rats, were used for the study. The diabetic rats were divided equally into five groups and respectively treated: saline (diabetic control, extracts from neem and bitterleaf combined, neem only, bitterleaf only and chlorpropamide for a 24 day period. After oral administration of the first dose of extract (400 mg kg-1 b.w. and chlorpropamide (4.286 mg kg-1 b.w., blood glucose was monitored in vivo at various time intervals for 9 h, thereafter daily administration continued for 24 days. Whereas single dose treatment with neem only showed peak reduction (28.56% an hour after, treatments with combined extracts, bitterleaf and chlorpropamide had their peak reductions all at the 7th hour (24.78, 47.31 and 60.51%, respectively. Percentage reductions in blood glucose relative to their initial values at the end of treatment were 71.05, 44.95, 88.63 and 75.83 for combined extract, neem, bitterleaf and chlorpropamide respectively. The decrease in blood glucose for the groups treated with combined extracts and bitterleaf only compared well (p<0.01 with chlorpropamide and non diabetic control, but not with neem alone. Determination of markers of hepatotoxicity in serum including GPT and GOT activities, total protein, albumin and urea indicated that, of the four treatments, neem provides the best protection against hepatic dysfunction. In the group treated with combined extracts these alternate selective advantages of neem and bitterleaf were expressed as a positive synergy, hence more beneficial than individual treatments.

  8. A novel genomic alteration of LSAMP associates with aggressive prostate cancer in African American men

    DEFF Research Database (Denmark)

    Petrovics, Gyorgy; Li, Hua; Stümpel, Tanja;

    2015-01-01

    Evaluation of cancer genomes in global context is of great interest in light of changing ethnic distribution of the world population. We focused our study on men of African ancestry because of their disproportionately higher rate of prostate cancer (CaP) incidence and mortality. We present a syst......, the frequency of inter-chromosomal rearrangements was significantly higher in AA than CA tumors. These findings reveal differentially distributed somatic mutations in CaP across ancestral groups, which have implications for precision medicine strategies.......Evaluation of cancer genomes in global context is of great interest in light of changing ethnic distribution of the world population. We focused our study on men of African ancestry because of their disproportionately higher rate of prostate cancer (CaP) incidence and mortality. We present...... a systematic whole genome analyses, revealing alterations that differentiate African American (AA) and Caucasian American (CA) CaP genomes. We discovered a recurrent deletion on chromosome 3q13.31 centering on the LSAMP locus that was prevalent in tumors from AA men (cumulative analyses of 435 patients: whole...

  9. Continental Rifts

    Science.gov (United States)

    Rosendahl, B. R.

    Continental Rifts, edited by A. M. Quennell, is a new member of the Benchmark Papers in Geology Series, edited in toto by R. W. Fairbridge. In this series the individual volume editors peruse the literature on a given topic, select a few dozen papers of ostensibly benchmark quality, and then reorder them in some sensible fashion. Some of the original papers are republished intact, but many are chopped into “McNuggets™” of information. Depending upon the volume editor, the chopping process can range from a butchering job to careful and prudent pruning. The collecting, sifting, and reorganizing tasks are, of course, equally editor-sensitive. The end product of this series is something akin to a set of Reader's Digest of Geology.

  10. Frequencies of HID-ion ampliseq ancestry panel markers among greenlanders.

    Science.gov (United States)

    Espregueira Themudo, Gonçalo; Smidt Mogensen, Helle; Børsting, Claus; Morling, Niels

    2016-09-01

    The HID-Ion AmpliSeq Ancestry Panel from Life Techologies includes 123 SNPs from the Seldin panel and 55 SNPs from Kidd panel in a single multiplex assay that helps to determine the continental biogeographic ancestry of individuals. We tested the panel on 104 Greenlanders, divided into a training set of 89 individuals and a test set of 15 individuals. All loci showed genotype distributions consistent with Hardy-Weinberg expectations. Linkage disequilibrium tests indicated that 14 pairs of loci were in association in Greenlanders. Population assignment of the training set to populations included in the HID SNP genotyper plugin placed most individuals in American, Asian, and in a few cases European populations. By including the genotype frequencies of this training set as a possible population of origin, all 15 individuals from the test set were correctly predicted to be Greenlanders using the Seldin SNPs, and nine were classified as Greenlanders using the Kidd SNPs. Population structure analysis indicated that Greenlanders have a genetic profile that is distinguishable from those of populations from America or Asia. PMID:27326551

  11. Spatial and temporal changes in group dynamics and range use enable anti-predator responses in African buffalo.

    Science.gov (United States)

    Tambling, Craig J; Druce, Dave J; Hayward, Matt W; Castley, J Guy; Adendorff, John; Kerley, Graham I H

    2012-06-01

    The reintroduction of large predators provides a framework to investigate responses by prey species to predators. Considerable research has been directed at the impact that reintroduced wolves (Canis lupus) have on cervids, and to a lesser degree, bovids, in northern temperate regions. Generally, these impacts alter feeding, activity, and ranging behavior, or combinations of these. However, there are few studies on the response of African bovids to reintroduced predators, and thus, there is limited data to compare responses by tropical and temperate ungulates to predator reintroductions. Using the reintroduction of lion (Panthera leo) into the Addo Elephant National Park (AENP) Main Camp Section, South Africa, we show that Cape buffalo (Syncerus caffer) responses differ from northern temperate ungulates. Following lion reintroduction, buffalo herds amalgamated into larger, more defendable units; this corresponded with an increase in the survival of juvenile buffalo. Current habitat preference of buffalo breeding herds is for open habitats, especially during the night and morning, when lion are active. The increase in group size and habitat preference countered initial high levels of predation on juvenile buffalo, resulting in a return in the proportion of juveniles in breeding herds to pre-lion levels. Our results show that buffalo responses to reintroduced large predators in southern Africa differ to those of northern temperate bovids or cervids in the face of wolf predation. We predict that the nature of the prey response to predator reintroduction is likely to reflect the trade-off between the predator selection and hunting strategy of predators against the life history and foraging strategies of each prey species.

  12. Multiple origins and regional dispersal of resistant dhps in African Plasmodium falciparum malaria.

    Directory of Open Access Journals (Sweden)

    Richard J Pearce

    2009-04-01

    Full Text Available BACKGROUND: Although the molecular basis of resistance to a number of common antimalarial drugs is well known, a geographic description of the emergence and dispersal of resistance mutations across Africa has not been attempted. To that end we have characterised the evolutionary origins of antifolate resistance mutations in the dihydropteroate synthase (dhps gene and mapped their contemporary distribution. METHODS AND FINDINGS: We used microsatellite polymorphism flanking the dhps gene to determine which resistance alleles shared common ancestry and found five major lineages each of which had a unique geographical distribution. The extent to which allelic lineages were shared among 20 African Plasmodium falciparum populations revealed five major geographical groupings. Resistance lineages were common to all sites within these regions. The most marked differentiation was between east and west African P. falciparum, in which resistance alleles were not only of different ancestry but also carried different resistance mutations. CONCLUSIONS: Resistant dhps has emerged independently in multiple sites in Africa during the past 10-20 years. Our data show the molecular basis of resistance differs between east and west Africa, which is likely to translate into differing antifolate sensitivity. We have also demonstrated that the dispersal patterns of resistance lineages give unique insights into recent parasite migration patterns.

  13. Disparities in Birth Weight and Gestational Age by Ethnic Ancestry in South American countries

    Science.gov (United States)

    Wehby, George L.; Gili, Juan A.; Pawluk, Mariela; Castilla, Eduardo E.; López-Camelo, Jorge S.

    2015-01-01

    Objective We examine disparities in birth weight and gestational age by ethnic ancestry in 2000–2011 in eight South American countries. Methods The sample included 60480 singleton live-births. Regression models were estimated to evaluate differences in birth outcomes by ethnic ancestry controlling for time trends. Results Significant disparities were found in seven countries. In four countries – Brazil, Ecuador, Uruguay, and Venezuela – we found significant disparities in both low birth weight and preterm birth. Disparities in preterm birth alone were observed in Argentina, Bolivia, and Colombia. Several differences in continuous birth weight, gestational age, and fetal growth rate were also observed. There were no systematic patterns of disparities between the evaluated ethnic ancestry groups across the study countries, in that no racial/ethnic group consistently had the best or worst outcomes in all countries. Conclusions Racial/ethnic disparities in infant health are common in several South American countries. Differences across countries suggest that racial/ethnic disparities are driven by social and economic mechanisms. Researchers and policymakers should acknowledge these disparities and develop research and policy programs to effectively target them. PMID:25542227

  14. Forensic ancestry analysis with two capillary electrophoresis ancestry informative marker (AIM) panels:Results of a collaborative EDNAP exercise

    OpenAIRE

    Santos, C.; Fondevila, M; Ballard, D; Banemann, R; Bento, A. M.; Børsting, C; Branicki, W.; Brisighelli, F.; Burrington, M.; Capal, T.; Chaitanya, L; Daniel, R; Decroyer, V.; R. England; Gettings, K. B.

    2015-01-01

    There is increasing interest in forensic ancestry tests, which are part of a growing number of DNA analyses that can enhance routine profiling by obtaining additional genetic information about unidentified DNA donors. Nearly all ancestry tests use single nucleotide polymorphisms (SNPs), but these currently rely on SNaPshot single base extension chemistry that can fail to detect mixed DNA. Insertion-deletion polymorphism (Indel) tests have been developed using dye-labeled primers that allow di...

  15. Meta-analysis of loci associated with age at natural menopause in African-American women

    OpenAIRE

    Chen, Christina T. L.; Liu, Ching-Ti; Chen, Gary K.; Andrews, Jeanette S.; Arnold, Alice M.; Dreyfus, Jill; Franceschini, Nora; Garcia, Melissa E.; Kerr, Kathleen F.; Li, Guo; Lohman, Kurt K.; Musani, Solomon K.; Michael A Nalls; Raffel, Leslie J.; Smith, Jennifer

    2014-01-01

    Age at menopause marks the end of a woman's reproductive life and its timing associates with risks for cancer, cardiovascular and bone disorders. GWAS and candidate gene studies conducted in women of European ancestry have identified 27 loci associated with age at menopause. The relevance of these loci to women of African ancestry has not been previously studied. We therefore sought to uncover additional menopause loci and investigate the relevance of European menopause loci by performing a G...

  16. Characterizing genetic risk at known prostate cancer susceptibility loci in African Americans.

    Directory of Open Access Journals (Sweden)

    Christopher A Haiman

    2011-05-01

    Full Text Available GWAS of prostate cancer have been remarkably successful in revealing common genetic variants and novel biological pathways that are linked with its etiology. A more complete understanding of inherited susceptibility to prostate cancer in the general population will come from continuing such discovery efforts and from testing known risk alleles in diverse racial and ethnic groups. In this large study of prostate cancer in African American men (3,425 prostate cancer cases and 3,290 controls, we tested 49 risk variants located in 28 genomic regions identified through GWAS in men of European and Asian descent, and we replicated associations (at p≤0.05 with roughly half of these markers. Through fine-mapping, we identified nearby markers in many regions that better define associations in African Americans. At 8q24, we found 9 variants (p≤6×10(-4 that best capture risk of prostate cancer in African Americans, many of which are more common in men of African than European descent. The markers found to be associated with risk at each locus improved risk modeling in African Americans (per allele OR = 1.17 over the alleles reported in the original GWAS (OR = 1.08. In summary, in this detailed analysis of the prostate cancer risk loci reported from GWAS, we have validated and improved upon markers of risk in some regions that better define the association with prostate cancer in African Americans. Our findings with variants at 8q24 also reinforce the importance of this region as a major risk locus for prostate cancer in men of African ancestry.

  17. Genome-Wide Association of the Laboratory-Based Nicotine Metabolite Ratio in Three Ancestries

    Science.gov (United States)

    Baurley, James W.; Edlund, Christopher K.; Pardamean, Carissa I.; Conti, David V.; Krasnow, Ruth; Javitz, Harold S.; Hops, Hyman; Swan, Gary E.; Benowitz, Neal L.

    2016-01-01

    Introduction: Metabolic enzyme variation and other patient and environmental characteristics influence smoking behaviors, treatment success, and risk of related disease. Population-specific variation in metabolic genes contributes to challenges in developing and optimizing pharmacogenetic interventions. We applied a custom genome-wide genotyping array for addiction research (Smokescreen), to three laboratory-based studies of nicotine metabolism with oral or venous administration of labeled nicotine and cotinine, to model nicotine metabolism in multiple populations. The trans-3′-hydroxycotinine/cotinine ratio, the nicotine metabolite ratio (NMR), was the nicotine metabolism measure analyzed. Methods: Three hundred twelve individuals of self-identified European, African, and Asian American ancestry were genotyped and included in ancestry-specific genome-wide association scans (GWAS) and a meta-GWAS analysis of the NMR. We modeled natural-log transformed NMR with covariates: principal components of genetic ancestry, age, sex, body mass index, and smoking status. Results: African and Asian American NMRs were statistically significantly (P values ≤ 5E-5) lower than European American NMRs. Meta-GWAS analysis identified 36 genome-wide significant variants over a 43 kilobase pair region at CYP2A6 with minimum P = 2.46E-18 at rs12459249, proximal to CYP2A6. Additional minima were located in intron 4 (rs56113850, P = 6.61E-18) and in the CYP2A6-CYP2A7 intergenic region (rs34226463, P = 1.45E-12). Most (34/36) genome-wide significant variants suggested reduced CYP2A6 activity; functional mechanisms were identified and tested in knowledge-bases. Conditional analysis resulted in intergenic variants of possible interest (P values genome-wide association of CYP2A6 single nucleotide and insertion–deletion polymorphisms. We identify three regions of genome-wide significance: proximal, intronic, and distal to CYP2A6. We replicate the top-ranking single nucleotide polymorphism

  18. Multiplex genotyping system for efficient inference of matrilineal genetic ancestry with continental resolution

    NARCIS (Netherlands)

    M. van Oven (Mannis); M. Vermeulen (Mark); M.H. Kayser (Manfred)

    2011-01-01

    textabstractAbstract Background: In recent years, phylogeographic studies have produced detailed knowledge on the worldwide distribution of mitochondrial DNA (mtDNA) variants, linking specific clades of the mtDNA phylogeny with certain geographic areas. However, a multiplex genotyping system for the

  19. The landscape of recombination in African Americans

    OpenAIRE

    Anjali G Hinch; Tandon, Arti; Patterson, Nick; Song, Yunli; Rohland, Nadin; Palmer, Cameron D; Chen, Gary K.; Wang, Kai; Buxbaum, Sarah G.; Akylbekova, Meggie; Aldrich, Melinda C.; Ambrosone, Christine B.; Amos, Christopher; Bandera, Elisa V.; Berndt, Sonja I.

    2011-01-01

    Recombination, together with mutation, is the ultimate source of genetic variation in populations. We leverage the recent mixture of people of African and European ancestry in the Americas to build a genetic map measuring the probability of crossing-over at each position in the genome, based on about 2.1 million crossovers in 30,000 unrelated African Americans. At intervals of more than three megabases it is nearly identical to a map built in Europeans. At finer scales it differs significantl...

  20. Genome-wide scan of 29,141 African Americans finds no evidence of directional selection since admixture.

    Science.gov (United States)

    Bhatia, Gaurav; Tandon, Arti; Patterson, Nick; Aldrich, Melinda C; Ambrosone, Christine B; Amos, Christopher; Bandera, Elisa V; Berndt, Sonja I; Bernstein, Leslie; Blot, William J; Bock, Cathryn H; Caporaso, Neil; Casey, Graham; Deming, Sandra L; Diver, W Ryan; Gapstur, Susan M; Gillanders, Elizabeth M; Harris, Curtis C; Henderson, Brian E; Ingles, Sue A; Isaacs, William; De Jager, Phillip L; John, Esther M; Kittles, Rick A; Larkin, Emma; McNeill, Lorna H; Millikan, Robert C; Murphy, Adam; Neslund-Dudas, Christine; Nyante, Sarah; Press, Michael F; Rodriguez-Gil, Jorge L; Rybicki, Benjamin A; Schwartz, Ann G; Signorello, Lisa B; Spitz, Margaret; Strom, Sara S; Tucker, Margaret A; Wiencke, John K; Witte, John S; Wu, Xifeng; Yamamura, Yuko; Zanetti, Krista A; Zheng, Wei; Ziegler, Regina G; Chanock, Stephen J; Haiman, Christopher A; Reich, David; Price, Alkes L

    2014-10-01

    The extent of recent selection in admixed populations is currently an unresolved question. We scanned the genomes of 29,141 African Americans and failed to find any genome-wide-significant deviations in local ancestry, indicating no evidence of selection influencing ancestry after admixture. A recent analysis of data from 1,890 African Americans reported that there was evidence of selection in African Americans after their ancestors left Africa, both before and after admixture. Selection after admixture was reported on the basis of deviations in local ancestry, and selection before admixture was reported on the basis of allele-frequency differences between African Americans and African populations. The local-ancestry deviations reported by the previous study did not replicate in our very large sample, and we show that such deviations were expected purely by chance, given the number of hypotheses tested. We further show that the previous study's conclusion of selection in African Americans before admixture is also subject to doubt. This is because the FST statistics they used were inflated and because true signals of unusual allele-frequency differences between African Americans and African populations would be best explained by selection that occurred in Africa prior to migration to the Americas.

  1. Genome-wide Scan of 29,141 African Americans Finds No Evidence of Directional Selection since Admixture

    Science.gov (United States)

    Bhatia, Gaurav; Tandon, Arti; Patterson, Nick; Aldrich, Melinda C.; Ambrosone, Christine B.; Amos, Christopher; Bandera, Elisa V.; Berndt, Sonja I.; Bernstein, Leslie; Blot, William J.; Bock, Cathryn H.; Caporaso, Neil; Casey, Graham; Deming, Sandra L.; Diver, W. Ryan; Gapstur, Susan M.; Gillanders, Elizabeth M.; Harris, Curtis C.; Henderson, Brian E.; Ingles, Sue A.; Isaacs, William; De Jager, Phillip L.; John, Esther M.; Kittles, Rick A.; Larkin, Emma; McNeill, Lorna H.; Millikan, Robert C.; Murphy, Adam; Neslund-Dudas, Christine; Nyante, Sarah; Press, Michael F.; Rodriguez-Gil, Jorge L.; Rybicki, Benjamin A.; Schwartz, Ann G.; Signorello, Lisa B.; Spitz, Margaret; Strom, Sara S.; Tucker, Margaret A.; Wiencke, John K.; Witte, John S.; Wu, Xifeng; Yamamura, Yuko; Zanetti, Krista A.; Zheng, Wei; Ziegler, Regina G.; Chanock, Stephen J.; Haiman, Christopher A.; Reich, David; Price, Alkes L.

    2014-01-01

    The extent of recent selection in admixed populations is currently an unresolved question. We scanned the genomes of 29,141 African Americans and failed to find any genome-wide-significant deviations in local ancestry, indicating no evidence of selection influencing ancestry after admixture. A recent analysis of data from 1,890 African Americans reported that there was evidence of selection in African Americans after their ancestors left Africa, both before and after admixture. Selection after admixture was reported on the basis of deviations in local ancestry, and selection before admixture was reported on the basis of allele-frequency differences between African Americans and African populations. The local-ancestry deviations reported by the previous study did not replicate in our very large sample, and we show that such deviations were expected purely by chance, given the number of hypotheses tested. We further show that the previous study’s conclusion of selection in African Americans before admixture is also subject to doubt. This is because the FST statistics they used were inflated and because true signals of unusual allele-frequency differences between African Americans and African populations would be best explained by selection that occurred in Africa prior to migration to the Americas. PMID:25242497

  2. Incidence of prostatic calcification in blacks in Washington, D.C., and selected African cities. Correlation of specimen roentgenographs and pathologic findings. Cooperative Prostatic Research Group.

    Science.gov (United States)

    Kovi, J; Rao, M S; Heshmat, M Y; Akberzie, M E; Jackson, M A; Ogunmuyiwa, T A

    1979-10-01

    The incidence of calcification in the prostate gland of black men from Washington, D.C., and from Ibadan, Nigeria, and Accra, Ghana, West Africa, was assessed in a total of 874 consecutive, unselected prostate specimens removed at autopsy during a five-year period (1973--1978). In the combined series there was a significant positive association between prostatic calcification and age (p less than 0.001). The frequency of calcification was significantly higher in the Washington, D.C. series than in the West African series at all age levels (p less than 0.001). This difference most likely reflects the different dietary patterns of the two population groups.

  3. African therapy for a fractured world(view: The life of founder bishop Johannes Richmond and the invention of tradition and group cohesion in an African Initiated Church

    Directory of Open Access Journals (Sweden)

    Cas Wepener

    2015-03-01

    Full Text Available In the book The invention of tradition historian Eric Hobsbawm claims that the process of the invention of tradition serves the formation of group cohesion. The different versions of the life story of the founder bishop of the Corinthian Church of South Africa (AIC, as documented during many years of conducting qualitative field work in this church, are used in this article as a case study in this regard. The article unpacks the way in which the invention of tradition as a process is in this particular AIC currently a work in progress contributing to the formation of a particular type of group cohesion that stretches over racial, religious and denominational boundaries especially by means of the unique liturgical rituals that were influenced by the life story of the founder. The group cohesion that this process fosters is in essence aimed at healing in all its multifaceted dimensions, which includes healing from physical ailments, ‘healing’ from barrenness, healing from spirit possession to healing as (re-incorporation of an individual into the larger group, the healing of a nation as well as healing from a dualistic spirit-matter worldview.

  4. Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility.

    Science.gov (United States)

    Mahajan, Anubha; Go, Min Jin; Zhang, Weihua; Below, Jennifer E; Gaulton, Kyle J; Ferreira, Teresa; Horikoshi, Momoko; Johnson, Andrew D; Ng, Maggie C Y; Prokopenko, Inga; Saleheen, Danish; Wang, Xu; Zeggini, Eleftheria; Abecasis, Goncalo R; Adair, Linda S; Almgren, Peter; Atalay, Mustafa; Aung, Tin; Baldassarre, Damiano; Balkau, Beverley; Bao, Yuqian; Barnett, Anthony H; Barroso, Ines; Basit, Abdul; Been, Latonya F; Beilby, John; Bell, Graeme I; Benediktsson, Rafn; Bergman, Richard N; Boehm, Bernhard O; Boerwinkle, Eric; Bonnycastle, Lori L; Burtt, Noël; Cai, Qiuyin; Campbell, Harry; Carey, Jason; Cauchi, Stephane; Caulfield, Mark; Chan, Juliana C N; Chang, Li-Ching; Chang, Tien-Jyun; Chang, Yi-Cheng; Charpentier, Guillaume; Chen, Chien-Hsiun; Chen, Han; Chen, Yuan-Tsong; Chia, Kee-Seng; Chidambaram, Manickam; Chines, Peter S; Cho, Nam H; Cho, Young Min; Chuang, Lee-Ming; Collins, Francis S; Cornelis, Marylin C; Couper, David J; Crenshaw, Andrew T; van Dam, Rob M; Danesh, John; Das, Debashish; de Faire, Ulf; Dedoussis, George; Deloukas, Panos; Dimas, Antigone S; Dina, Christian; Doney, Alex S; Donnelly, Peter J; Dorkhan, Mozhgan; van Duijn, Cornelia; Dupuis, Josée; Edkins, Sarah; Elliott, Paul; Emilsson, Valur; Erbel, Raimund; Eriksson, Johan G; Escobedo, Jorge; Esko, Tonu; Eury, Elodie; Florez, Jose C; Fontanillas, Pierre; Forouhi, Nita G; Forsen, Tom; Fox, Caroline; Fraser, Ross M; Frayling, Timothy M; Froguel, Philippe; Frossard, Philippe; Gao, Yutang; Gertow, Karl; Gieger, Christian; Gigante, Bruna; Grallert, Harald; Grant, George B; Grrop, Leif C; Groves, Chrisropher J; Grundberg, Elin; Guiducci, Candace; Hamsten, Anders; Han, Bok-Ghee; Hara, Kazuo; Hassanali, Neelam; Hattersley, Andrew T; Hayward, Caroline; Hedman, Asa K; Herder, Christian; Hofman, Albert; Holmen, Oddgeir L; Hovingh, Kees; Hreidarsson, Astradur B; Hu, Cheng; Hu, Frank B; Hui, Jennie; Humphries, Steve E; Hunt, Sarah E; Hunter, David J; Hveem, Kristian; Hydrie, Zafar I; Ikegami, Hiroshi; Illig, Thomas; Ingelsson, Erik; Islam, Muhammed; Isomaa, Bo; Jackson, Anne U; Jafar, Tazeen; James, Alan; Jia, Weiping; Jöckel, Karl-Heinz; Jonsson, Anna; Jowett, Jeremy B M; Kadowaki, Takashi; Kang, Hyun Min; Kanoni, Stavroula; Kao, Wen Hong L; Kathiresan, Sekar; Kato, Norihiro; Katulanda, Prasad; Keinanen-Kiukaanniemi, Kirkka M; Kelly, Ann M; Khan, Hassan; Khaw, Kay-Tee; Khor, Chiea-Chuen; Kim, Hyung-Lae; Kim, Sangsoo; Kim, Young Jin; Kinnunen, Leena; Klopp, Norman; Kong, Augustine; Korpi-Hyövälti, Eeva; Kowlessur, Sudhir; Kraft, Peter; Kravic, Jasmina; Kristensen, Malene M; Krithika, S; Kumar, Ashish; Kumate, Jesus; Kuusisto, Johanna; Kwak, Soo Heon; Laakso, Markku; Lagou, Vasiliki; Lakka, Timo A; Langenberg, Claudia; Langford, Cordelia; Lawrence, Robert; Leander, Karin; Lee, Jen-Mai; Lee, Nanette R; Li, Man; Li, Xinzhong; Li, Yun; Liang, Junbin; Liju, Samuel; Lim, Wei-Yen; Lind, Lars; Lindgren, Cecilia M; Lindholm, Eero; Liu, Ching-Ti; Liu, Jian Jun; Lobbens, Stéphane; Long, Jirong; Loos, Ruth J F; Lu, Wei; Luan, Jian'an; Lyssenko, Valeriya; Ma, Ronald C W; Maeda, Shiro; Mägi, Reedik; Männisto, Satu; Matthews, David R; Meigs, James B; Melander, Olle; Metspalu, Andres; Meyer, Julia; Mirza, Ghazala; Mihailov, Evelin; Moebus, Susanne; Mohan, Viswanathan; Mohlke, Karen L; Morris, Andrew D; Mühleisen, Thomas W; Müller-Nurasyid, Martina; Musk, Bill; Nakamura, Jiro; Nakashima, Eitaro; Navarro, Pau; Ng, Peng-Keat; Nica, Alexandra C; Nilsson, Peter M; Njølstad, Inger; Nöthen, Markus M; Ohnaka, Keizo; Ong, Twee Hee; Owen, Katharine R; Palmer, Colin N A; Pankow, James S; Park, Kyong Soo; Parkin, Melissa; Pechlivanis, Sonali; Pedersen, Nancy L; Peltonen, Leena; Perry, John R B; Peters, Annette; Pinidiyapathirage, Janini M; Platou, Carl G; Potter, Simon; Price, Jackie F; Qi, Lu; Radha, Venkatesan; Rallidis, Loukianos; Rasheed, Asif; Rathman, Wolfgang; Rauramaa, Rainer; Raychaudhuri, Soumya; Rayner, N William; Rees, Simon D; Rehnberg, Emil; Ripatti, Samuli; Robertson, Neil; Roden, Michael; Rossin, Elizabeth J; Rudan, Igor; Rybin, Denis; Saaristo, Timo E; Salomaa, Veikko; Saltevo, Juha; Samuel, Maria; Sanghera, Dharambir K; Saramies, Jouko; Scott, James; Scott, Laura J; Scott, Robert A; Segrè, Ayellet V; Sehmi, Joban; Sennblad, Bengt; Shah, Nabi; Shah, Sonia; Shera, A Samad; Shu, Xiao Ou; Shuldiner, Alan R; Sigurđsson, Gunnar; Sijbrands, Eric; Silveira, Angela; Sim, Xueling; Sivapalaratnam, Suthesh; Small, Kerrin S; So, Wing Yee; Stančáková, Alena; Stefansson, Kari; Steinbach, Gerald; Steinthorsdottir, Valgerdur; Stirrups, Kathleen; Strawbridge, Rona J; Stringham, Heather M; Sun, Qi; Suo, Chen; Syvänen, Ann-Christine; Takayanagi, Ryoichi; Takeuchi, Fumihiko; Tay, Wan Ting; Teslovich, Tanya M; Thorand, Barbara; Thorleifsson, Gudmar; Thorsteinsdottir, Unnur; Tikkanen, Emmi; Trakalo, Joseph; Tremoli, Elena; Trip, Mieke D; Tsai, Fuu Jen; Tuomi, Tiinamaija; Tuomilehto, Jaakko; Uitterlinden, Andre G; Valladares-Salgado, Adan; Vedantam, Sailaja; Veglia, Fabrizio; Voight, Benjamin F; Wang, Congrong; Wareham, Nicholas J; Wennauer, Roman; Wickremasinghe, Ananda R; Wilsgaard, Tom; Wilson, James F; Wiltshire, Steven; Winckler, Wendy; Wong, Tien Yin; Wood, Andrew R; Wu, Jer-Yuarn; Wu, Ying; Yamamoto, Ken; Yamauchi, Toshimasa; Yang, Mingyu; Yengo, Loic; Yokota, Mitsuhiro; Young, Robin; Zabaneh, Delilah; Zhang, Fan; Zhang, Rong; Zheng, Wei; Zimmet, Paul Z; Altshuler, David; Bowden, Donald W; Cho, Yoon Shin; Cox, Nancy J; Cruz, Miguel; Hanis, Craig L; Kooner, Jaspal; Lee, Jong-Young; Seielstad, Mark; Teo, Yik Ying; Boehnke, Michael; Parra, Esteban J; Chambers, Jonh C; Tai, E Shyong; McCarthy, Mark I; Morris, Andrew P

    2014-03-01

    To further understanding of the genetic basis of type 2 diabetes (T2D) susceptibility, we aggregated published meta-analyses of genome-wide association studies (GWAS), including 26,488 cases and 83,964 controls of European, east Asian, south Asian and Mexican and Mexican American ancestry. We observed a significant excess in the directional consistency of T2D risk alleles across ancestry groups, even at SNPs demonstrating only weak evidence of association. By following up the strongest signals of association from the trans-ethnic meta-analysis in an additional 21,491 cases and 55,647 controls of European ancestry, we identified seven new T2D susceptibility loci. Furthermore, we observed considerable improvements in the fine-mapping resolution of common variant association signals at several T2D susceptibility loci. These observations highlight the benefits of trans-ethnic GWAS for the discovery and characterization of complex trait loci and emphasize an exciting opportunity to extend insight into the genetic architecture and pathogenesis of human diseases across populations of diverse ancestry. PMID:24509480

  5. Explaining the visible and the invisible: Public knowledge of genetics, ancestry, physical appearance and race in Colombia.

    Science.gov (United States)

    Schwartz-Marín, Ernesto; Wade, Peter

    2015-12-01

    Using data from focus groups conducted in Colombia, we explore how educated lay audiences faced with scenarios about ancestry and genetics draw on widespread and dominant notions of nation, race and belonging in Colombia to ascribe ancestry to collectivities and to themselves as individuals. People from a life sciences background tend to deploy idioms of race and genetics more readily than people from a humanities and race-critical background. When they considered individuals, people tempered or domesticated the more mechanistic explanations about racialized physical appearance, ancestry and genetics that were apparent at the collective level. Ideas of the latency and manifestation of invisible traits were an aspect of this domestication. People ceded ultimate authority to genetic science, but deployed it to work alongside what they already knew. Notions of genetic essentialism co-exist with the strategic use of genetic ancestry in ways that both fix and unfix race. Our data indicate the importance of attending to the different epistemological stances through which people define authoritative knowledge and to the importance of distinguishing the scale of resolution at which the question of diversity is being posed.

  6. Continental Divide Trail

    Data.gov (United States)

    Earth Data Analysis Center, University of New Mexico — This shapefile was created to show the proximity of the Continental Divide to the Continental Divide National Scenic Trail in New Mexico. This work was done as part...

  7. In search of genetic markers for nonsyndromic deafness in Africa: a study in Cameroonians and Black South Africans with the GJB6 and GJA1 candidate genes.

    Science.gov (United States)

    Bosch, Jason; Lebeko, Kamogelo; Nziale, Jean Jacques Noubiap; Dandara, Collet; Makubalo, Nomlindo; Wonkam, Ambroise

    2014-07-01

    Deafness is the most common sensory disability in the world and has a variety of causes. Globally, mutations in GJB2 have been shown to play a major role in nonsyndromic deafness, but this has not been seen in Africans. Two other connexin genes, GJB6 and GJA1, have been implicated in hearing loss but have seldom been investigated in African populations. We set out to investigate the role of genetic variation in GJB6 and GJA1 in a group of Cameroonian and South African Blacks with nonsyndromic recessive hearing loss. A subset of 100 patients, affected with nonsyndromic hearing loss, from a cohort that was previously shown not to have GJB2 mutation, was analyzed by Sanger sequencing of the entire coding regions of GJB6 and GJA1. In addition, the large-scale GJB6-D3S1830 deletion was also investigated. No pathogenic mutation was detected in either GJB6 or GJA1, nor was the GJB6-D3S1830 deletion detected. There were no statistically significant differences in sequence variants between patients and controls. Mutations in GJB6 and GJA1 are not a major cause of nonsyndromic deafness in this group of Africans from Cameroon and South Africa. Currently, there is no sufficient evidence to support their testing in a clinical setting for individuals of African ancestry.

  8. African therapy for a fractured world(view): The life of founder bishop Johannes Richmond and the invention of tradition and group cohesion in an African Initiated Church

    OpenAIRE

    Cas Wepener

    2015-01-01

    In the book The invention of tradition historian Eric Hobsbawm claims that the process of the invention of tradition serves the formation of group cohesion. The different versions of the life story of the founder bishop of the Corinthian Church of South Africa (AIC), as documented during many years of conducting qualitative field work in this church, are used in this article as a case study in this regard. The article unpacks the way in which the invention of tradition as a process is in th...

  9. Grupos tróficos de peixes demersais da plataforma continental interna de Ubatuba, Brasil: I. Chondrichthyes Throphic groups of demersal fish community from the continental shelf: Ubatuba, Brazil. I. Chrondrichthyes

    Directory of Open Access Journals (Sweden)

    Lucy Satiko Hashimoto Soares

    1992-01-01

    Full Text Available Com o objetivo de detectar grupos tróficos, foram analisadas amostras de conteúdos estomacais de sete espécies de peixes cartilaginosos. Os exemplares foram coletados no período de Outubro/85 a Julho/87 na plataforma interna de Ubatuba, SP, Brasil (da costa, até a isóbata de 50 m. A importância dos itens alimentares foi analisada através da freqüência numérica (FN e da freqüência de ocorrência (FO. As espécies foram agrupadas em três grupos distintos: Piscívoros: Squalus cubensis; comedores de peixes e crustáceos bentônicos: Raja castelnaui, Raja cyclophora, Raja agassizi; comedores de invertebrados bentônicos: Psammobatis glansdissimilis, Rhinobatos horkelii, Zapteryx brevirostris.Stomach contents of seven cartilaginous fish species were analysed with the aim to detect trophic groups. Sampling was effectuated between October/85 and July/87 off the coast of Ubatuba (São Paulo, Brazil in waters up 50 m depth. The relative importance of different components of the diet was expressed as a percentage frequency of occurrence and percentage number. The seven species were grouped in: fish feeders - Squalus cubensis; benthonic crustacean and fish feeders - Raja castelnaui, Raja cyclophora, Raja agassizi; benthonic invertebrate feeders - Rhinobatos horkelii, Zapteryx brevirostris, Psammobatis glansdissimilis.

  10. CCR2-V64I polymorphism is associated with increased risk of cervical cancer but not with HPV infection or pre-cancerous lesions in African women

    International Nuclear Information System (INIS)

    Cervical cancer, caused by specific oncogenic types of human papillomavirus (HPV), is the second most common cancer in women worldwide. A large number of young sexually active women get infected by HPV but only a small fraction of them have persistent infection and develop cervical cancer pointing to co- factors including host genetics that might play a role in outcome of the HPV infection. This study investigated the role of CCR2-V64I polymorphism in cervical cancer, pre-cancers and HPV infection in South African women resident in Western Cape. CCR2-V64I polymorphism has been previously reported to influence the progression to cervical cancer in some populations and has also been associated with decreased progression from HIV infection to AIDS. Genotyping for CCR2-V64I was done by PCR-SSP in a case-control study of 446 women (106 black African and 340 mixed-ancestry) with histologically confirmed invasive cervical cancer and 1432 controls (322 black African and 1110 mixed-ancestry) group-matched (1:3) by age, ethnicity and domicile status. In the control women HPV was detected using the Digene Hybrid Capture II test and cervical disease was detected by cervical cytology. The CCR2-64I variant was significantly associated with cervical cancer when cases were compared to the control group (P = 0.001). Further analysis comparing selected groups within the controls showed that individuals with abnormal cytology and high grade squamous intraepitleial neoplasia (HSIL) did not have this association when compared to women with normal cytology. HPV infection also showed no association with CCR2-64I variant. Comparing SIL positive controls with the cases showed a significant association of CCR2-64I variant (P = 0.001) with cervical cancer. This is the first study of the role of CCR2-V64I polymorphism in cervical cancer in an African population. Our results show that CCR2-64I variant is associated with the risk of cervical cancer but does not affect the susceptibility to HPV

  11. Manifestations of Differential Cultural Capital in a University Classroom: Views from Classroom Observations and Focus Group Discussions in a South African University

    Directory of Open Access Journals (Sweden)

    Edmore Mutekwe

    2014-11-01

    Full Text Available Based predominantly on Pierre Bourdieu’s social and cultural reproduction theory, particularly his notions of cultural capital and symbolic violence, this paper explores how first year post graduate Diploma in Higher Education (PGDHE university students from diverse socio-linguistic backgrounds differ in the levels at which they understand and express themselves in classroom activities. The paper’s thesis is that the diverse nature of South African classrooms presents a number of challenges not only for students but also for educators in terms of the use of English as a medium of instruction or the language for learning and teaching (LOLT. Owing to the fact that the South African Language in Education Policy (LiEP of 1997 empowers both learners and educators in schools to use any of the eleven South African official languages as a LOLT wherever that is reasonably possible, students whose English backgrounds were deficient in enculturating them in the use of English as a learning tool often encounter challenges in expressing their ideas in the classroom, whether in writing or in oral presentations. The discussion is anchored in the data elicited through two data collection methods, lesson observations in a Diploma in Higher Education, Research class composed of students from diverse racial and ethnic backgrounds and through focus group discussion sessions with 40 multi-ethnic Diploma in Higher Education students from the same classroom. The data management and analysis for this study was done thematically, with views emerging from the observations and focus group discussions being clustered into superordinate themes for convenience of the discussion of the findings. The findings of this study were that students from affluent socio-economic backgrounds who enter university with a rich and relevant English linguistic capital, values and attitudes enjoy an enormous advantage compared to their counterparts whose social class and linguistic

  12. Enhanced Statistical Tests for GWAS in Admixed Populations: Assessment using African Americans from CARe and a Breast Cancer Consortium

    OpenAIRE

    Pasaniuc, Bogdan; Zaitlen, Noah; Lettre, Guillaume; Chen, Gary K.; Tandon, Arti; Kao, W. H. Linda; Ruczinski, Ingo; Fornage, Myriam; Siscovick, David S; Zhu, Xiaofeng; Larkin, Emma; Lange, Leslie A.; Cupples, L. Adrienne; Yang, Qiong; Akylbekova, Ermeg L.

    2011-01-01

    While genome-wide association studies (GWAS) have primarily examined populations of European ancestry, more recent studies often involve additional populations, including admixed populations such as African Americans and Latinos. In admixed populations, linkage disequilibrium (LD) exists both at a fine scale in ancestral populations and at a coarse scale (admixture-LD) due to chromosomal segments of distinct ancestry. Disease association statistics in admixed populations have previously consi...

  13. Enhanced statistical tests for GWAS in admixed populations: assessment using African Americans from CARe and a Breast Cancer Consortium.

    OpenAIRE

    Bogdan Pasaniuc; Noah Zaitlen; Guillaume Lettre; Chen, Gary K.; Arti Tandon; Linda Kao, W H; Ingo Ruczinski; Myriam Fornage; Siscovick, David S; Xiaofeng Zhu; Emma Larkin; Lange, Leslie A.; L Adrienne Cupples; Qiong Yang; Akylbekova, Ermeg L.

    2011-01-01

    While genome-wide association studies (GWAS) have primarily examined populations of European ancestry, more recent studies often involve additional populations, including admixed populations such as African Americans and Latinos. In admixed populations, linkage disequilibrium (LD) exists both at a fine scale in ancestral populations and at a coarse scale (admixture-LD) due to chromosomal segments of distinct ancestry. Disease association statistics in admixed populations have previously consi...

  14. Compact Ancestry Labeling Schemes for Trees of Small Depth

    CERN Document Server

    Fraigniaud, Pierre

    2009-01-01

    An {\\em ancestry labeling scheme} labels the nodes of any tree in such a way that ancestry queries between any two nodes in a tree can be answered just by looking at their corresponding labels. The common measure to evaluate the quality of an ancestry labeling scheme is by its {\\em label size}, that is the maximal number of bits stored in a label, taken over all $n$-node trees. The design of ancestry labeling schemes finds applications in XML search engines. In the context of these applications, even small improvements in the label size are important. In fact, the literature about this topic is interested in the exact label size rather than just its order of magnitude. As a result, following the proposal of an original scheme of size $2\\log n$ bits, a considerable amount of work was devoted to improve the bound on the label size. The current state of the art upper bound is $\\log n + O(\\sqrt{\\log n})$ bits which is still far from the known $\\log n + \\Omega(\\log\\log n)$ lower bound. Moreover, the hidden constan...

  15. Building a forensic ancestry panel from the ground up

    DEFF Research Database (Denmark)

    Phillips, C; Parson, W; Lundsberg, Birgitte Møller;

    2014-01-01

    Emerging next-generation sequencing technologies will enable DNA analyses to add pigmentation predictive and ancestry informative (AIM) SNPs to the range of markers detectable from a single PCR test. This prompted us to re-appraise current forensic and genomics AIM-SNPs and from the best sets, to...

  16. Multi-ancestry genome-wide association study of 21,000 cases and 95,000 controls identifies new risk loci for atopic dermatitis.

    Science.gov (United States)

    Paternoster, Lavinia; Standl, Marie; Waage, Johannes; Baurecht, Hansjörg; Hotze, Melanie; Strachan, David P; Curtin, John A; Bønnelykke, Klaus; Tian, Chao; Takahashi, Atsushi; Esparza-Gordillo, Jorge; Alves, Alexessander Couto; Thyssen, Jacob P; den Dekker, Herman T; Ferreira, Manuel A; Altmaier, Elisabeth; Sleiman, Patrick M A; Xiao, Feng Li; Gonzalez, Juan R; Marenholz, Ingo; Kalb, Birgit; Pino-Yanes, Maria; Xu, Cheng-Jian; Carstensen, Lisbeth; Groen-Blokhuis, Maria M; Venturini, Cristina; Pennell, Craig E; Barton, Sheila J; Levin, Albert M; Curjuric, Ivan; Bustamante, Mariona; Kreiner-Møller, Eskil; Lockett, Gabrielle A; Bacelis, Jonas; Bunyavanich, Supinda; Myers, Rachel A; Matanovic, Anja; Kumar, Ashish; Tung, Joyce Y; Hirota, Tomomitsu; Kubo, Michiaki; McArdle, Wendy L; Henderson, A John; Kemp, John P; Zheng, Jie; Smith, George Davey; Rüschendorf, Franz; Bauerfeind, Anja; Lee-Kirsch, Min Ae; Arnold, Andreas; Homuth, Georg; Schmidt, Carsten O; Mangold, Elisabeth; Cichon, Sven; Keil, Thomas; Rodríguez, Elke; Peters, Annette; Franke, Andre; Lieb, Wolfgang; Novak, Natalija; Fölster-Holst, Regina; Horikoshi, Momoko; Pekkanen, Juha; Sebert, Sylvain; Husemoen, Lise L; Grarup, Niels; de Jongste, Johan C; Rivadeneira, Fernando; Hofman, Albert; Jaddoe, Vincent W V; Pasmans, Suzanne G M A; Elbert, Niels J; Uitterlinden, André G; Marks, Guy B; Thompson, Philip J; Matheson, Melanie C; Robertson, Colin F; Ried, Janina S; Li, Jin; Zuo, Xian Bo; Zheng, Xiao Dong; Yin, Xian Yong; Sun, Liang Dan; McAleer, Maeve A; O'Regan, Grainne M; Fahy, Caoimhe M R; Campbell, Linda E; Macek, Milan; Kurek, Michael; Hu, Donglei; Eng, Celeste; Postma, Dirkje S; Feenstra, Bjarke; Geller, Frank; Hottenga, Jouke Jan; Middeldorp, Christel M; Hysi, Pirro; Bataille, Veronique; Spector, Tim; Tiesler, Carla M T; Thiering, Elisabeth; Pahukasahasram, Badri; Yang, James J; Imboden, Medea; Huntsman, Scott; Vilor-Tejedor, Natàlia; Relton, Caroline L; Myhre, Ronny; Nystad, Wenche; Custovic, Adnan; Weiss, Scott T; Meyers, Deborah A; Söderhäll, Cilla; Melén, Erik; Ober, Carole; Raby, Benjamin A; Simpson, Angela; Jacobsson, Bo; Holloway, John W; Bisgaard, Hans; Sunyer, Jordi; Probst-Hensch, Nicole M; Williams, L Keoki; Godfrey, Keith M; Wang, Carol A; Boomsma, Dorret I; Melbye, Mads; Koppelman, Gerard H; Jarvis, Deborah; McLean, W H Irwin; Irvine, Alan D; Zhang, Xue Jun; Hakonarson, Hakon; Gieger, Christian; Burchard, Esteban G; Martin, Nicholas G; Duijts, Liesbeth; Linneberg, Allan; Jarvelin, Marjo-Riitta; Nöthen, Markus M; Lau, Susanne; Hübner, Norbert; Lee, Young-Ae; Tamari, Mayumi; Hinds, David A; Glass, Daniel; Brown, Sara J; Heinrich, Joachim; Evans, David M; Weidinger, Stephan

    2015-12-01

    Genetic association studies have identified 21 loci associated with atopic dermatitis risk predominantly in populations of European ancestry. To identify further susceptibility loci for this common, complex skin disease, we performed a meta-analysis of >15 million genetic variants in 21,399 cases and 95,464 controls from populations of European, African, Japanese and Latino ancestry, followed by replication in 32,059 cases and 228,628 controls from 18 studies. We identified ten new risk loci, bringing the total number of known atopic dermatitis risk loci to 31 (with new secondary signals at four of these loci). Notably, the new loci include candidate genes with roles in the regulation of innate host defenses and T cell function, underscoring the important contribution of (auto)immune mechanisms to atopic dermatitis pathogenesis. PMID:26482879

  17. Worldwide F-ST Estimates Relative to Five Continental-Scale Populations

    OpenAIRE

    Steele, C. D.; Court, D. S.; Balding, D. J.

    2014-01-01

    We estimate the population genetics parameter inline image (also referred to as the fixation index) from short tandem repeat (STR) allele frequencies, comparing many worldwide human subpopulations at approximately the national level with continental-scale populations. inline image is commonly used to measure population differentiation, and is important in forensic DNA analysis to account for remote shared ancestry between a suspect and an alternative source of the DNA. We estimate inline imag...

  18. The landscape of recombination in African Americans.

    Science.gov (United States)

    Hinch, Anjali G; Tandon, Arti; Patterson, Nick; Song, Yunli; Rohland, Nadin; Palmer, Cameron D; Chen, Gary K; Wang, Kai; Buxbaum, Sarah G; Akylbekova, Ermeg L; Aldrich, Melinda C; Ambrosone, Christine B; Amos, Christopher; Bandera, Elisa V; Berndt, Sonja I; Bernstein, Leslie; Blot, William J; Bock, Cathryn H; Boerwinkle, Eric; Cai, Qiuyin; Caporaso, Neil; Casey, Graham; Cupples, L Adrienne; Deming, Sandra L; Diver, W Ryan; Divers, Jasmin; Fornage, Myriam; Gillanders, Elizabeth M; Glessner, Joseph; Harris, Curtis C; Hu, Jennifer J; Ingles, Sue A; Isaacs, William; John, Esther M; Kao, W H Linda; Keating, Brendan; Kittles, Rick A; Kolonel, Laurence N; Larkin, Emma; Le Marchand, Loic; McNeill, Lorna H; Millikan, Robert C; Murphy, Adam; Musani, Solomon; Neslund-Dudas, Christine; Nyante, Sarah; Papanicolaou, George J; Press, Michael F; Psaty, Bruce M; Reiner, Alex P; Rich, Stephen S; Rodriguez-Gil, Jorge L; Rotter, Jerome I; Rybicki, Benjamin A; Schwartz, Ann G; Signorello, Lisa B; Spitz, Margaret; Strom, Sara S; Thun, Michael J; Tucker, Margaret A; Wang, Zhaoming; Wiencke, John K; Witte, John S; Wrensch, Margaret; Wu, Xifeng; Yamamura, Yuko; Zanetti, Krista A; Zheng, Wei; Ziegler, Regina G; Zhu, Xiaofeng; Redline, Susan; Hirschhorn, Joel N; Henderson, Brian E; Taylor, Herman A; Price, Alkes L; Hakonarson, Hakon; Chanock, Stephen J; Haiman, Christopher A; Wilson, James G; Reich, David; Myers, Simon R

    2011-07-20

    Recombination, together with mutation, gives rise to genetic variation in populations. Here we leverage the recent mixture of people of African and European ancestry in the Americas to build a genetic map measuring the probability of crossing over at each position in the genome, based on about 2.1 million crossovers in 30,000 unrelated African Americans. At intervals of more than three megabases it is nearly identical to a map built in Europeans. At finer scales it differs significantly, and we identify about 2,500 recombination hotspots that are active in people of West African ancestry but nearly inactive in Europeans. The probability of a crossover at these hotspots is almost fully controlled by the alleles an individual carries at PRDM9 (P value < 10(-245)). We identify a 17-base-pair DNA sequence motif that is enriched in these hotspots, and is an excellent match to the predicted binding target of PRDM9 alleles common in West Africans and rare in Europeans. Sites of this motif are predicted to be risk loci for disease-causing genomic rearrangements in individuals carrying these alleles. More generally, this map provides a resource for research in human genetic variation and evolution.

  19. Meta-analysis of genome-wide association studies in African Americans provides insights into the genetic architecture of type 2 diabetes

    DEFF Research Database (Denmark)

    Ng, Maggie C Y; Shriner, Daniel; Chen, Brian H;

    2014-01-01

    Type 2 diabetes (T2D) is more prevalent in African Americans than in Europeans. However, little is known about the genetic risk in African Americans despite the recent identification of more than 70 T2D loci primarily by genome-wide association studies (GWAS) in individuals of European ancestry. ...

  20. Assimilation Differences among Africans in America.

    Science.gov (United States)

    Dodoo, F. Nii-Amoo

    1997-01-01

    Census data (1990) indicate that male African immigrants earn more than their Caribbean-born counterparts or native-born African Americans, but controlling for relevant earnings-related endowments erases the African advantage and elevates Caribbean earnings above those of the other groups. Also, African (but not Caribbean) university degree…

  1. Continental margins: linking ecosystems

    OpenAIRE

    Kelly-Gerreyn, Boris; Rabalais, Nancy; Middelburg, Jack; Roy, Sylvie; Liu, Kon-Kee; Thomas, Helmut; Zhang, Jing

    2008-01-01

    Impacts of Global, Local and Human Forcings on Biogeochemical Cycles and Ecosystems, IMBER/LOICZ Continental Margins Open Science Conference; Shanghai, China, 17–21 September 2007; More than 100 scientists from 25 countries came together to address global, regional, local, and human pressures interactively affecting continental margin biogeochemical cycles, marine food webs, and society. Continental margins cover only 12% of the global ocean area yet account for more than 30% of global oceani...

  2. Effects of iron supplementation on dominant bacterial groups in the gut, faecal SCFA and gut inflammation: a randomised, placebo-controlled intervention trial in South African children.

    Science.gov (United States)

    Dostal, Alexandra; Baumgartner, Jeannine; Riesen, Nathalie; Chassard, Christophe; Smuts, Cornelius M; Zimmermann, Michael B; Lacroix, Christophe

    2014-08-28

    Fe supplementation is a common strategy to correct Fe-deficiency anaemia in children; however, it may modify the gut microbiota and increase the risk for enteropathogenic infection. In the present study, we studied the impact of Fe supplementation on the abundance of dominant bacterial groups in the gut, faecal SCFA concentration and gut inflammation in children living in rural South Africa. In a randomised, placebo-controlled intervention trial of 38 weeks, 6- to 11-year-old children with Fe deficiency received orally either tablets containing 50 mg Fe as FeSO₄ (n 22) for 4 d/week or identical placebo (n 27). In addition, Fe-sufficient children (n 24) were included as a non-treated reference group. Faecal samples were analysed at baseline and at 2, 12 and 38 weeks to determine the effects of Fe supplementation on ten bacterial groups in the gut (quantitative PCR), faecal SCFA concentration (HPLC) and gut inflammation (faecal calprotectin concentration). At baseline, concentrations of bacterial groups in the gut, faecal SCFA and faecal calprotectin did not differ between Fe-deficient and Fe-sufficient children. Fe supplementation significantly improved Fe status in Fe-deficient children and did not significantly increase faecal calprotectin concentration. Moreover, no significant effect of Fe treatment or time × treatment interaction on the concentrations of bacterial groups in the gut or faecal SCFA was observed compared with the placebo treatment. Also, there were no significant differences observed in the concentrations of any of the bacterial target groups or faecal SCFA at 2, 12 or 38 weeks between the three groups of children when correcting for baseline values. The present study suggests that in African children with a low enteropathogen burden, Fe status and dietary Fe supplementation did not significantly affect the dominant bacterial groups in the gut, faecal SCFA concentration or gut inflammation.

  3. Malagasy Genetic Ancestry Comes from an Historical Malay Trading Post in Southeast Borneo.

    Science.gov (United States)

    Brucato, Nicolas; Kusuma, Pradiptajati; Cox, Murray P; Pierron, Denis; Purnomo, Gludhug A; Adelaar, Alexander; Kivisild, Toomas; Letellier, Thierry; Sudoyo, Herawati; Ricaut, François-Xavier

    2016-09-01

    Malagasy genetic diversity results from an exceptional protoglobalization process that took place over a thousand years ago across the Indian Ocean. Previous efforts to locate the Asian origin of Malagasy highlighted Borneo broadly as a potential source, but so far no firm source populations were identified. Here, we have generated genome-wide data from two Southeast Borneo populations, the Banjar and the Ngaju, together with published data from populations across the Indian Ocean region. We find strong support for an origin of the Asian ancestry of Malagasy among the Banjar. This group emerged from the long-standing presence of a Malay Empire trading post in Southeast Borneo, which favored admixture between the Malay and an autochthonous Borneo group, the Ma'anyan. Reconciling genetic, historical, and linguistic data, we show that the Banjar, in Malay-led voyages, were the most probable Asian source among the analyzed groups in the founding of the Malagasy gene pool. PMID:27381999

  4. Empirical testing of a 23-AIMs panel of SNPs for ancestry evaluations in four major US populations.

    Science.gov (United States)

    Zeng, Xiangpei; Warshauer, David H; King, Jonathan L; Churchill, Jennifer D; Chakraborty, Ranajit; Budowle, Bruce

    2016-07-01

    Ancestry informative markers (AIMs) can be used to determine population affiliation of the donors of forensic samples. In order to examine ancestry evaluations of the four major populations in the USA, 23 highly informative AIMs were identified from the International HapMap project. However, the efficacy of these 23 AIMs could not be fully evaluated in silico. In this study, these 23 SNPs were multiplexed to test their actual performance in ancestry evaluations. Genotype data were obtained from 189 individuals collected from four American populations. One SNP (rs12149261) on chromosome 16 was removed from this panel because it was duplicated on chromosome 1. The resultant 22-AIMs panel was able to empirically resolve the four major populations as in the in silico study. Eight individuals were assigned to a different group than indicated on their samples. The assignments of the 22 AIMs for these samples were consistent with AIMs results from the ForenSeq(TM) panel. No departures from Hardy-Weinberg equilibrium (HWE) and linkage disequilibrium (LD) were detected for all 22 SNPs in four US populations (after removing the eight problematic samples). The principal component analysis (PCA) results indicated that 181 individuals from these populations were assigned to the expected groups. These 22 SNPs can contribute to the candidate AIMs pool for potential forensic identification purposes in major US populations. PMID:26914801

  5. A quasi-exclusive European ancestry in the Senepol tropical cattle breed highlights the importance of the slick locus in tropical adaptation.

    Directory of Open Access Journals (Sweden)

    Laurence Flori

    Full Text Available BACKGROUND: The Senepol cattle breed (SEN was created in the early XX(th century from a presumed cross between a European (EUT breed (Red Poll and a West African taurine (AFT breed (N'Dama. Well adapted to tropical conditions, it is also believed trypanotolerant according to its putative AFT ancestry. However, such origins needed to be verified to define relevant husbandry practices and the genetic background underlying such adaptation needed to be characterized. METHODOLOGY/PRINCIPAL FINDINGS: We genotyped 153 SEN individuals on 47,365 SNPs and combined the resulting data with those available on 18 other populations representative of EUT, AFT and Zebu (ZEB cattle. We found on average 89% EUT, 10.4% ZEB and 0.6% AFT ancestries in the SEN genome. We further looked for footprints of recent selection using standard tests based on the extent of haplotype homozygosity. We underlined i three footprints on chromosome (BTA 01, two of which are within or close to the polled locus underlying the absence of horns and ii one footprint on BTA20 within the slick hair coat locus, involved in thermotolerance. Annotation of these regions allowed us to propose three candidate genes to explain the observed signals (TIAM1, GRIK1 and RAI14. CONCLUSIONS/SIGNIFICANCE: Our results do not support the accepted concept about the AFT origin of SEN breed. Initial AFT ancestry (if any might have been counter-selected in early generations due to breeding objectives oriented in particular toward meat production and hornless phenotype. Therefore, SEN animals are likely susceptible to African trypanosomes which questions the importation of SEN within the West African tsetse belt, as promoted by some breeding societies. Besides, our results revealed that SEN breed is predominantly a EUT breed well adapted to tropical conditions and confirmed the importance in thermotolerance of the slick locus.

  6. The Guiana and the West African Shield Palaeoproterozoic grouping: new palaeomagnetic data for French Guiana and the Ivory Coast

    Science.gov (United States)

    Nomade, Sébastien; Chen, Yan; Pouclet, André; Féraud, Gilbert; Théveniaut, Hervé; Daouda, Bertin Yao; Vidal, Max; Rigolet, Cécile

    2003-09-01

    The aim of this study is to document the Palaeoproterozoic palaeomagnetic database for the Guiana and West African Shields in order to better understand the paleogeographic evolution of these two cratons. A total of 59 sites were sampled (33 in French Guiana and 26 in the Ivory Coast) in granites and metavolcanic rocks. Magnetic, petrographic and palaeomagnetic investigations were carried out on these rocks. Magnetic experiments and petrographic observations show that undeformed magnetite is the main magnetic remanent carrier in granites of French Guiana and both magnetite and haematite in rocks from the Ivory Coast. Both thermal and magnetic alternating-field demagnetizations were applied to the rocks. Four high-temperature magnetic remanent directions were isolated in French Guiana and the Ivory Coast. These directions are distinct from the present Earth's field and to the local Early Jurassic palaeomagnetic components. Reversal and contact tests were obtained for the collection from French Guiana. Based on these arguments and mineralogical investigations, we propose that the magnetic remanence represent a Palaeoproterozoic magnetization. Four virtual palaeomagnetic poles were calculated: GUI1, GUI2 for French Guiana; IC1 and IC2 for the Ivory Coast with their corresponding coordinates: GUI1: λGUI1=-62°N, φGUI1= 61°E, k= 18, A95= 10°, N= 15; GUI2: λGUI2=-5°N, φGUI2= 50°E, k= 26, A95= 18°, N= 5; IC1: λIC1=-82°N, φIC1= 292°N, k= 28, A95= 13°, N= 6; IC2: λIC2=-25°N, φIC2= 83°E, k= 11, A95= 16°, N= 9. The magnetization age ranged from 2.04 to 1.97 Ga for the French Guiana poles (40Ar/39Ar) and between 2.10 to 2.00 Ga for the Ivory Coast poles (startigraphic ages). Combining these new palaeomagnetic poles and previously published data, two apparent polar wander paths were proposed for these two shields. The comparison of these two Palaeoproterozoic paths seems to indicate that the two cratons belonged to the same block at about 2.00 Ga but

  7. Meta-analysis of loci associated with age at natural menopause in African-American women.

    Science.gov (United States)

    Chen, Christina T L; Liu, Ching-Ti; Chen, Gary K; Andrews, Jeanette S; Arnold, Alice M; Dreyfus, Jill; Franceschini, Nora; Garcia, Melissa E; Kerr, Kathleen F; Li, Guo; Lohman, Kurt K; Musani, Solomon K; Nalls, Michael A; Raffel, Leslie J; Smith, Jennifer; Ambrosone, Christine B; Bandera, Elisa V; Bernstein, Leslie; Britton, Angela; Brzyski, Robert G; Cappola, Anne; Carlson, Christopher S; Couper, David; Deming, Sandra L; Goodarzi, Mark O; Heiss, Gerardo; John, Esther M; Lu, Xiaoning; Le Marchand, Loic; Marciante, Kristin; Mcknight, Barbara; Millikan, Robert; Nock, Nora L; Olshan, Andrew F; Press, Michael F; Vaiyda, Dhananjay; Woods, Nancy F; Taylor, Herman A; Zhao, Wei; Zheng, Wei; Evans, Michele K; Harris, Tamara B; Henderson, Brian E; Kardia, Sharon L R; Kooperberg, Charles; Liu, Yongmei; Mosley, Thomas H; Psaty, Bruce; Wellons, Melissa; Windham, Beverly G; Zonderman, Alan B; Cupples, L Adrienne; Demerath, Ellen W; Haiman, Christopher; Murabito, Joanne M; Rajkovic, Aleksandar

    2014-06-15

    Age at menopause marks the end of a woman's reproductive life and its timing associates with risks for cancer, cardiovascular and bone disorders. GWAS and candidate gene studies conducted in women of European ancestry have identified 27 loci associated with age at menopause. The relevance of these loci to women of African ancestry has not been previously studied. We therefore sought to uncover additional menopause loci and investigate the relevance of European menopause loci by performing a GWAS meta-analysis in 6510 women with African ancestry derived from 11 studies across the USA. We did not identify any additional loci significantly associated with age at menopause in African Americans. We replicated the associations between six loci and age at menopause (P-value < 0.05): AMHR2, RHBLD2, PRIM1, HK3/UMC1, BRSK1/TMEM150B and MCM8. In addition, associations of 14 loci are directionally consistent with previous reports. We provide evidence that genetic variants influencing reproductive traits identified in European populations are also important in women of African ancestry residing in USA.

  8. FGFR2 and other loci identified in genome-wide association studies are associated with breast cancer in African-American and younger women

    OpenAIRE

    Barnholtz-Sloan, Jill S; Shetty, Priya B; Guan, Xiaowei; Nyante, Sarah J; Luo, Jingchun; Brennan, Donal J.; Millikan, Robert C.

    2010-01-01

    Twenty-nine single-nucleotide polymorphisms (SNPs) from previously published genome-wide association studies (GWAS) and multiple ancestry informative markers were genotyped in the Carolina Breast Cancer Study (CBCS) (742 African-American (AA) cases, 1230 White cases; 658 AA controls, 1118 White controls). In the entire study population, 9/10 SNPs in fibroblast growth factor receptor 2 (FGFR2) were significantly associated with breast cancer after adjusting for age, race and European ancestry ...

  9. Statement delivered in the Board of Governors on 28 November 2008 by the Resident Representative of Zimbabwe on behalf of the group of members of the African Union concerning the appointment of the Director General

    International Nuclear Information System (INIS)

    On 28 November 2008, the Resident Representative of Zimbabwe to the Agency delivered a statement in the Board of Governors, on behalf of the group of members of the African Union, concerning the appointment of the Director General. As requested in the statement, the statement is herewith circulated for the information of Member States

  10. Preliminary Efficacy of Group Medical Nutrition Therapy and Motivational Interviewing among Obese African American Women with Type 2 Diabetes: A Pilot Study

    Science.gov (United States)

    Miller, Stephania T.; Oates, Veronica J.; Brooks, Malinda A.; Shintani, Ayumi; Jenkins, Darlene M.

    2014-01-01

    Objective. To assess the efficacy and acceptability of a group medical nutritional therapy (MNT) intervention, using motivational interviewing (MI). Research Design & Method. African American (AA) women with type 2 diabetes (T2D) participated in five, certified diabetes educator/dietitian-facilitated intervention sessions targeting carbohydrate, fat, and fruit/vegetable intake and management. Motivation-based activities centered on exploration of dietary ambivalence and the relationships between diet and personal strengths. Repeated pre- and post-intervention, psychosocial, dietary self-care, and clinical outcomes were collected and analyzed using generalized least squares regression. An acceptability assessment was administered after intervention. Results. Participants (n = 24) were mostly of middle age (mean age 50.8 ± 6.3) with an average BMI of 39 ± 6.5. Compared to a gradual pre-intervention loss of HbA1c control and confidence in choosing restaurant foods, a significant post-intervention improvement in HbA1c (P = 0.03) and a near significant (P = 0.06) increase in confidence in choosing restaurant foods were observed with both returning to pre-intervention levels. 100% reported that they would recommend the study to other AA women with type 2 diabetes. Conclusion. The results support the potential efficacy of a group MNT/MI intervention in improving glycemic control and dietary self-care-related confidence in overweight/obese AA women with type 2 diabetes. PMID:25243082

  11. Preliminary Efficacy of Group Medical Nutrition Therapy and Motivational Interviewing among Obese African American Women with Type 2 Diabetes: A Pilot Study

    Directory of Open Access Journals (Sweden)

    Stephania T. Miller

    2014-01-01

    Full Text Available Objective. To assess the efficacy and acceptability of a group medical nutritional therapy (MNT intervention, using motivational interviewing (MI. Research Design & Method. African American (AA women with type 2 diabetes (T2D participated in five, certified diabetes educator/dietitian-facilitated intervention sessions targeting carbohydrate, fat, and fruit/vegetable intake and management. Motivation-based activities centered on exploration of dietary ambivalence and the relationships between diet and personal strengths. Repeated pre- and post-intervention, psychosocial, dietary self-care, and clinical outcomes were collected and analyzed using generalized least squares regression. An acceptability assessment was administered after intervention. Results. Participants (n = 24 were mostly of middle age (mean age 50.8 ± 6.3 with an average BMI of 39 ± 6.5. Compared to a gradual pre-intervention loss of HbA1c control and confidence in choosing restaurant foods, a significant post-intervention improvement in HbA1c (P = 0.03 and a near significant (P = 0.06 increase in confidence in choosing restaurant foods were observed with both returning to pre-intervention levels. 100% reported that they would recommend the study to other AA women with type 2 diabetes. Conclusion. The results support the potential efficacy of a group MNT/MI intervention in improving glycemic control and dietary self-care-related confidence in overweight/obese AA women with type 2 diabetes.

  12. From Bows to Sound-Chests: Tracing the Ancestry of the Violin

    Directory of Open Access Journals (Sweden)

    Janelle R. Finley

    2016-04-01

    Full Text Available The ancestry of the violin is a subject that has been studied, researched, debated, and written about in great detail. However, despite all of the research and study, the ancestry of the violin is still not certain. This paper presents two schools of thought that propose different theories as to how the ancestry of the violin should be determined and what instruments should be included in the ancestry of the violin. The first school of thought proposes that the violin’s ancestry should be traced through the bow. The second theory proposes that the violin’s ancestry should be traced through the sound-chest of the violin. This paper also presents the different arguments for and against each theory, the importance of this topic, and the paper’s position on this topic. Research for this paper was accomplished through the use of scholarly books on the subject of the history of the violin.

  13. Respirator fit of a medium mask on a group of South Africans: a cross-sectional study

    Directory of Open Access Journals (Sweden)

    Wilson Kerry S

    2011-03-01

    Full Text Available Abstract Background In South Africa, respiratory protective equipment is often the primary control method used to protect workers. This preliminary study investigated how well a common disposable P2 respirator fitted persons with a range of facial dimensions. Methods Quantitative respirator fit tests were performed on 29 volunteers from different racial, gender and face size groups. Two facial dimensions width (bizygomatic and length (menton-sellion were measured for all participants. Results In this study 13.8% of the participants demonstrated a successful fit with the medium sized mask. These included participants from three different racial and both gender groups. The large percentage of failed fit tests (86% indicates that reliance on off-the-shelf respirators could be problematic in South Africa. Conclusions The limitations of this preliminary study notwithstanding, respirator fit appear to be associated with individual facial characteristics and are not specific to racial/ethnic or gender characteristics.

  14. Respirator fit of a medium mask on a group of South Africans: a cross-sectional study

    OpenAIRE

    Wilson Kerry S; Spies Adri; Ferrie Robert

    2011-01-01

    Abstract Background In South Africa, respiratory protective equipment is often the primary control method used to protect workers. This preliminary study investigated how well a common disposable P2 respirator fitted persons with a range of facial dimensions. Methods Quantitative respirator fit tests were performed on 29 volunteers from different racial, gender and face size groups. Two facial dimensions width (bizygomatic) and length (menton-sellion) were measured for all participants. Resul...

  15. Towards engagement: A comparison of fan groups in the context of a major South African football club

    OpenAIRE

    Frederick W. Stander; Leon T. de Beer

    2016-01-01

    Orientation: The commercial growth of sport clubs is often a direct consequence of the level of engagement of its fans. However, limited research has been done to understand how the engagement experience of these fans could be enhanced.Research purpose: The objective of this research was to evaluate whether differences exist amongst groups of sport fans in terms of their levels of engagement. This is conducted on the basis of customer engagement – relationship marketing – and market segmentat...

  16. Benefiting Africans

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Along with thriving Sino-African economic and trade ties,Chinese companies have attached greater importance to their social responsibility to Africans.More than 2,000 sweaters woven by Chinese mothers were sent to orphans and disabled children in Kenya and four other African countries in September. This activity was launched by Hengyuanxiang,aleading Chinese wool manufacturer.

  17. Benefiting Africans

    Institute of Scientific and Technical Information of China (English)

    ZHANG ZHIPING

    2011-01-01

    Along with thriving Sino-African economic and trade ties,Chinese companies have attached greater importance to their social responsibility to Africans.More than 2,000 sweaters woven by Chinese mothers were sent to orphans and disabled children in Kenya and four other African countries in September.This activity was launched by Hengyuanxiang,a leading Chinese wool manufacturer.

  18. Towards engagement: A comparison of fan groups in the context of a major South African football club

    Directory of Open Access Journals (Sweden)

    Frederick W. Stander

    2016-04-01

    Full Text Available Orientation: The commercial growth of sport clubs is often a direct consequence of the level of engagement of its fans. However, limited research has been done to understand how the engagement experience of these fans could be enhanced.Research purpose: The objective of this research was to evaluate whether differences exist amongst groups of sport fans in terms of their levels of engagement. This is conducted on the basis of customer engagement – relationship marketing – and market segmentation theories,and in an effort to inform practical strategies that could be used to leverage engagement. By establishing that differences do exist between segments of sport fans, practical strategies could be developed based on such differences.Research approach, design and method: A cross-sectional, quantitative design was utilised in this study. A convenience sample of 430 adult fans of one of South Africa’s largest and best supported professional football clubs participated in the study. Two fan groupings were compared, namely fans who belonged to a formal supporters’ branch of the club versus fans who did not, and fans who frequented the social media platforms of such club versus fans who did not. Multi group confirmatory factor analysis and latent variable modelling were implemented to compare groups of fans in terms of sport fan engagement. Measurement invariance was reviewed to compare the equivalence of measurement between the groups.Main findings: Statistical analysis revealed greater levels of fan engagement amongst fans that form part of formal supporters’ branches as well as amongst fans who regularly visit the sport club’s social media platforms.Practical/managerial implications: By making use of supporters’ branches and social media,practical engagement strategies are available to professional sport clubs that seek to enhance the engagement experience of their fans. These strategies could assist clubs in developing customised

  19. Behavioral responses of one western lowland gorilla (Gorilla gorilla gorilla) group at Bai Hokou, Central African Republic, to tourists, researchers and trackers.

    Science.gov (United States)

    Klailova, Michelle; Hodgkinson, Chloe; Lee, Phyllis C

    2010-09-01

    Gorilla tourism, widely perceived as a lucrative industry, is propelled by strong market demand with programs in five countries and for three of four gorilla subspecies. Human presence may negatively affect wild gorillas, potentially lowering immunity and increasing the likelihood of acquiring human-borne disease. Yet, behavioral impacts of humans on wild gorilla behavior remain largely unexplored, particularly for western lowland gorillas. We evaluate the impact of tourist presence, human observer numbers (tourists, trackers, and researchers), and human observer distance on the behavior of one habituated gorilla group at Bai Hokou, Central African Republic. Behavioral data were collected for more than 12 months from January 2007. Of silverback aggressive events, 39% (N=229) were human directed, but 65% were low-level soft barks. Adult females, and one in particular, were responsible for the highest number of aggressive events toward humans. Humans maintained closer proximity to the silverback when tourists were present, although tourist numbers had no significant impact on overall group activity budgets or rates of human-directed aggression. However, as research team size increased, group feeding rates decreased. Close observer-silverback distance correlated with a decrease in his feeding rates and an increase in human monitoring. He directed less aggression toward observers at distances >10 m, although observers spent 48.5% of time between 6 and 10 m of the silverback. We discuss gorilla personality as a factor in human-directed aggression. We explore whether the current 7 m distance limit governing gorilla tourism, based on disease transmission risks, is sufficient considering the potential behavioral stressor of close human presence. We recommend increasing minimum observation distance to >10 m where possible, decreasing observer group sizes, particularly after a visit consisting of maximum numbers and restricting tourist access to 1 visit/day. PMID:20806337

  20. Chlamydia trachomatis, human immunodeficiency virus (HIV distribution and sexual behaviors across gender and age group in an African setting.

    Directory of Open Access Journals (Sweden)

    Joel Fleury Djoba Siawaya

    Full Text Available OBJECTIVE: The purpose of this study was to (1 describe the distribution of Chlamydia trachomatis (CT and Human Immunodeficiency Virus (HIV cases across gender and age groups in Libreville (Gabon; (2 examine Gabonese Sexually Transmitted Infections (STIs-related risk behaviour. METHODS: The sampled population was people attending the "Laboratoire National de Santé Plublique". Between 2007 and 2011, 14 667 and 9 542 people respectively, were tested for CT and HIV infections. 1 854 of them were tested for both infections. We calculated CT and HIV rates across gender and age groups. Also analysed was the groups' contribution to the general CT and HIV epidemiology. STIs-related risk behaviours were assessed in 224 men and 795 women (between July 2011 and March 2013 who agreed and answered a questionnaire including questions on their marital status, number of sex partners, sexual practices, history of STIs, sex frequency and condom use. RESULTS: Data showed a 24% dropped in the CT infection rate between 2007 and 2010, followed by a 14% increase in 2011. The HIV infection rates for the same period were between 15% and 16%. The risk of a CT-positive subject getting HIV is about 0.71 times the risk of a CT-negative subject. Young adult aged between 18 and 35 years old represented 65.2% of people who had STIs. 80% of women and 66% of men confessed to an inconsistent use of condoms. 11.6% of women and 48% of men declared having multiple sex partners. 61% of questioned women and 67% of men declared knowing their HIV status. CONCLUSIONS: In this Gabonese setting, the population-aged from 18 to 35 years is the most affected by STIs. Other matters of concern are the inconsistent use of protection and sex with non-spousal or non-life partners.

  1. Africanization of a feral honey bee (Apis mellifera) population in South Texas: does a decade make a difference?

    Science.gov (United States)

    Rangel, Juliana; Giresi, Melissa; Pinto, Maria Alice; Baum, Kristen A; Rubink, William L; Coulson, Robert N; Johnston, John Spencer

    2016-04-01

    The arrival to the United States of the Africanized honey bee, a hybrid between European subspecies and the African subspecies Apis mellifera scutellata, is a remarkable model for the study of biological invasions. This immigration has created an opportunity to study the dynamics of secondary contact of honey bee subspecies from African and European lineages in a feral population in South Texas. An 11-year survey of this population (1991-2001) showed that mitochondrial haplotype frequencies changed drastically over time from a resident population of eastern and western European maternal ancestry, to a population dominated by the African haplotype. A subsequent study of the nuclear genome showed that the Africanization process included bidirectional gene flow between European and Africanized honey bees, giving rise to a new panmictic mixture of A. m. scutellata- and European-derived genes. In this study, we examined gene flow patterns in the same population 23 years after the first hybridization event occurred. We found 28 active colonies inhabiting 92 tree cavities surveyed in a 5.14 km(2) area, resulting in a colony density of 5.4 colonies/km(2). Of these 28 colonies, 25 were of A. m. scutellata maternal ancestry, and three were of western European maternal ancestry. No colonies of eastern European maternal ancestry were detected, although they were present in the earlier samples. Nuclear DNA revealed little change in the introgression of A. m. scutellata-derived genes into the population compared to previous surveys. Our results suggest this feral population remains an admixed swarm with continued low levels of European ancestry and a greater presence of African-derived mitochondrial genetic composition. PMID:27069571

  2. Female genital mutilation in African and African American women's literature

    Directory of Open Access Journals (Sweden)

    Darja Marinšek

    2007-12-01

    Full Text Available The article builds on the existing dispute between African and African American women writers on the competence of writing about female genital mutilation (FGM, and tries to determine the existence and nature of the differences between the writings of these two groups. The author uses comparative analysis of two popular African and African American novels, comparing their ways of describing FGM, its causes and consequences, the level ob objectivity and the style of the narrations.This is followed by a discussion on the reasons for such differences, incorporating a larger circle of both African and African American women authors, at the same time analysing the deviance within the two groups. While the differences between African American writers are not that great, as they mostly fail to present the issue from different points of view, which is often the result of their lack of direct knowledge of the topic, African authors' writing is in itself discovered to be ambivalent and not at all invariable. The reasons for such ambivalence are then discussed in greater context, focusing on the effect of the authors' personal contact with circumcision as well as their knowledge and acceptance of Western values. The author concludes by establishing the African ambivalent attitude towards FGM, which includes different aspects of the issue, as the most significant difference between their and African American writers' description of this practice.

  3. New Evidence on the Common Ancestry of Tetrapods and Lungfish

    Institute of Scientific and Technical Information of China (English)

    Zhao Baohua

    2002-01-01

    @@ As reported in a recent issue of Nature (Aug. 15, 2002),two Chinese scientists pinpoint their newly discovered fossil fish as the most direct piece of evi dence on the common ancestry shared by tetrapods (all land verte brates including human beings) and lungfish. This latest advance in studying the origin and evolution of early fishes was jointly made by Professor Zhu Min from the CAS Institute of Vertebrate Paleontology & Paleoanthropology and his colleague Yu Xiaobo, now a Professor at the Biology Department of Kean University (New Jersey, USA).

  4. The Hmong Diaspora: preserved South-East Asian genetic ancestry in French Guianese Asians.

    Science.gov (United States)

    Brucato, Nicolas; Mazières, Stéphane; Guitard, Evelyne; Giscard, Pierre-Henri; Bois, Etienne; Larrouy, Georges; Dugoujon, Jean-Michel

    2012-01-01

    The Hmong Diaspora is one of the widest modern human migrations. Mainly localised in South-East Asia, the United States of America, and metropolitan France, a small community has also settled the Amazonian forest of French Guiana. We have biologically analysed 62 individuals of this unique Guianese population through three complementary genetic markers: mitochondrial DNA (HVS-I/II and coding region SNPs), Y-chromosome (SNPs and STRs), and the Gm allotypic system. All genetic systems showed a high conservation of the Asian gene pool (Asian ancestry: mtDNA=100.0%; NRY=99.1%; Gm=96.6%), without a trace of founder effect. When compared across various Asian populations, the highest correlations were observed with Hmong-Mien groups still living in South-East Asia (Fst<0.05; P-value<0.05). Despite a long history punctuated by exodus, the French Guianese Hmong have maintained their original genetic diversity. PMID:23199638

  5. Exercise capacity and selected physiological factors by ancestry and residential altitude

    DEFF Research Database (Denmark)

    Bianba; Berntsen, Sveinung; Andersen, Lars Bo;

    2014-01-01

    (maximal power output) and selected physiological factors (arterial oxygen saturation and heart rate at rest and during maximal exercise, resting hemoglobin concentration, and forced vital capacity) in groups of native Tibetan children living at different residential altitudes (3700 vs. 4300 m above sea...... m) participated in two cross-sectional studies. The maximal power output (W max) was assessed using an ergometer cycle. RESULTS: Lhasa Tibetan children had a 20% higher maximal power output (watts/kg) than Tingri Tibetan and 4% higher than Lhasa Han Chinese. Maximal heart rate, arterial oxygen...... level) and across ancestry (native Tibetan vs. Han Chinese children living at the same altitude of 3700 m). METHODS: A total of 430 9-10-year-old native Tibetan children from Tingri (4300 m) and 406 native Tibetan- and 406 Han Chinese immigrants (77% lowland-born and 33% highland-born) from Lhasa (3700...

  6. North African populations carry the signature of admixture with Neandertals.

    Directory of Open Access Journals (Sweden)

    Federico Sánchez-Quinto

    Full Text Available One of the main findings derived from the analysis of the Neandertal genome was the evidence for admixture between Neandertals and non-African modern humans. An alternative scenario is that the ancestral population of non-Africans was closer to Neandertals than to Africans because of ancient population substructure. Thus, the study of North African populations is crucial for testing both hypotheses. We analyzed a total of 780,000 SNPs in 125 individuals representing seven different North African locations and searched for their ancestral/derived state in comparison to different human populations and Neandertals. We found that North African populations have a significant excess of derived alleles shared with Neandertals, when compared to sub-Saharan Africans. This excess is similar to that found in non-African humans, a fact that can be interpreted as a sign of Neandertal admixture. Furthermore, the Neandertal's genetic signal is higher in populations with a local, pre-Neolithic North African ancestry. Therefore, the detected ancient admixture is not due to recent Near Eastern or European migrations. Sub-Saharan populations are the only ones not affected by the admixture event with Neandertals.

  7. Zār Spirit Possession in Iran and African Countries: Group Distress, Culture-Bound Syndrome or Cultural Concept of Distress?

    Directory of Open Access Journals (Sweden)

    Fahimeh Mianji

    2015-12-01

    Full Text Available Zār is the term used to describe a form of spirit possession common in northern African, eastern African, and some Middle-Eastern societies. Although these regions share some cultural similarities arising from their history of slavery, in these places, zār varies in prevalence, clinical characteristics, and social context. Based on a selective review of the literature, this paper looks at the place of zār spirit possession in both DSM-IV and DSM-V; it also examines how zār is manifested in Iran and in African countries including Sudan, Ethiopia, and Egypt; and it aims to provide practical information to mental health clinicians so that they can better understand how this cultural concept is practiced by Iranians and Middle Eastern and African immigrants living near the Persian Gulf coast.

  8. Assessing the reliability of eBURST using simulated populations with known ancestry

    Directory of Open Access Journals (Sweden)

    Connor Thomas R

    2007-04-01

    Full Text Available Abstract Background The program eBURST uses multilocus sequence typing data to divide bacterial populations into groups of closely related strains (clonal complexes, predicts the founding genotype of each group, and displays the patterns of recent evolutionary descent of all other strains in the group from the founder. The reliability of eBURST was evaluated using populations simulated with different levels of recombination in which the ancestry of all strains was known. Results For strictly clonal simulations, where all allelic change is due to point mutation, the groups of related strains identified by eBURST were very similar to those expected from the true ancestry and most of the true ancestor-descendant relationships (90–98% were identified by eBURST. Populations simulated with low or moderate levels of recombination showed similarly high performance but the reliability of eBURST declined with increasing recombination to mutation ratio. Populations simulated under a high recombination to mutation ratio were dominated by a single large straggly eBURST group, which resulted from the incorrect linking of unrelated groups of strains into the same eBURST group. The reliability of the ancestor-descendant links in eBURST diagrams was related to the proportion of strains in the largest eBURST group, which provides a useful guide to when eBURST is likely to be unreliable. Conclusion Examination of eBURST groups within populations of a range of bacterial species showed that most were within the range in which eBURST is reliable, and only a small number (e.g. Burkholderia pseudomallei and Enterococcus faecium appeared to have such high rates of recombination that eBURST is likely to be unreliable. The study also demonstrates how three simple tests in eBURST v3 can be used to detect unreliable eBURST performance and recognise populations in which there appears to be a high rate of recombination relative to mutation.

  9. Measurement Uncertainty in Racial and Ethnic Identification among Adolescents of Mixed Ancestry: A Latent Variable Approach

    Science.gov (United States)

    Tracy, Allison J.; Erkut, Sumru; Porche, Michelle V.; Kim, Jo; Charmaraman, Linda; Grossman, Jennifer M.; Ceder, Ineke; Garcia, Heidie Vazquez

    2010-01-01

    In this article, we operationalize identification of mixed racial and ethnic ancestry among adolescents as a latent variable to (a) account for measurement uncertainty, and (b) compare alternative wording formats for racial and ethnic self-categorization in surveys. Two latent variable models were fit to multiple mixed-ancestry indicator data from…

  10. North African influences and potential bias in case-control association studies in the Spanish population.

    Directory of Open Access Journals (Sweden)

    María Pino-Yanes

    Full Text Available BACKGROUND: Despite the limited genetic heterogeneity of Spanish populations, substantial evidences support that historical African influences have not affected them uniformly. Accounting for such population differences might be essential to reduce spurious results in association studies of genetic factors with disease. Using ancestry informative markers (AIMs, we aimed to measure the African influences in Spanish populations and to explore whether these might introduce statistical bias in population-based association studies. METHODOLOGY/PRINCIPAL FINDINGS: We genotyped 93 AIMs in Spanish (from the Canary Islands and the Iberian Peninsula and Northwest Africans, and conducted population and individual-based clustering analyses along with reference data from the HapMap, HGDP-CEPH, and other sources. We found significant differences for the Northwest African influence among Spanish populations from as low as ≈ 5% in Spanish from the Iberian Peninsula to as much as ≈ 17% in Canary Islanders, whereas the sub-Saharan African influence was negligible. Strikingly, the Northwest African ancestry showed a wide inter-individual variation in Canary Islanders ranging from 0% to 96%, reflecting the violent way the Islands were conquered and colonized by the Spanish in the XV century. As a consequence, a comparison of allele frequencies between Spanish samples from the Iberian Peninsula and the Canary Islands evidenced an excess of markers with significant differences. However, the inflation of p-values for the differences was adequately controlled by correcting for genetic ancestry estimates derived from a reduced number of AIMs. CONCLUSIONS/SIGNIFICANCE: Although the African influences estimated might be biased due to marker ascertainment, these results confirm that Northwest African genetic footprints are recognizable nowadays in the Spanish populations, particularly in Canary Islanders, and that the uneven African influences existing in these

  11. Consequences of Abdominal Adiposity within the Metabolic Syndrome Paradigm in Black People of African Ancestry

    OpenAIRE

    Trudy Gaillard

    2014-01-01

    The metabolic syndrome (MetS) is a constellation of risk factors that are associated with increased risks for coronary heart disease and type 2 diabetes. Although the cause is unknown, abdominal adiposity is considered the underpinning of these metabolic alterations. Hence, increased abdominal adiposity contributes to dyslipidemia, hyperglycemia, beta cell dysfunction, insulin resistance, hypertension and inflammation. The role of abdominal adiposity in the causation of metabolic alterations...

  12. Atlas of prostate cancer heritability in European and African-American men pinpoints tissue-specific regulation

    DEFF Research Database (Denmark)

    Gusev, Alexander; Shi, Huwenbo; Kichaev, Gleb;

    2016-01-01

    Although genome-wide association studies have identified over 100 risk loci that explain ∼33% of familial risk for prostate cancer (PrCa), their functional effects on risk remain largely unknown. Here we use genotype data from 59,089 men of European and African American ancestries combined with c...

  13. I Would Rather Just Go Through With It Than Be Called a Wussy: An Exploration of How a Group of Young South African Men Think and Talk About Suicide.

    Science.gov (United States)

    Meissner, Birte; Bantjes, Jason; Kagee, Ashraf

    2016-07-01

    Worldwide suicide is a deeply gendered phenomenon. In South Africa, approximately 80% of suicide completers are male. This study aimed to investigate how a group of young South African men understand and think about suicidal behavior. In-depth semistructured interviews and thematic analysis using a grounded theory approach revealed that this group of young South African men had permissive attitudes to suicide and viewed suicide as a morally defensible alternative in specific situations. They spoke of suicide as a goal-directed behavior that provides a means of regaining control, asserting power, communicating, and rendering oneself visible. From this perspective, suicide was understood as a brave act requiring strength and determination. These data have congruence with the Theory of Gender and Health, which proposes that constructions of masculinity may be implicated in the attitudes and beliefs young men in South Africa hold toward suicide. PMID:25631278

  14. I Would Rather Just Go Through With It Than Be Called a Wussy: An Exploration of How a Group of Young South African Men Think and Talk About Suicide.

    Science.gov (United States)

    Meissner, Birte; Bantjes, Jason; Kagee, Ashraf

    2016-07-01

    Worldwide suicide is a deeply gendered phenomenon. In South Africa, approximately 80% of suicide completers are male. This study aimed to investigate how a group of young South African men understand and think about suicidal behavior. In-depth semistructured interviews and thematic analysis using a grounded theory approach revealed that this group of young South African men had permissive attitudes to suicide and viewed suicide as a morally defensible alternative in specific situations. They spoke of suicide as a goal-directed behavior that provides a means of regaining control, asserting power, communicating, and rendering oneself visible. From this perspective, suicide was understood as a brave act requiring strength and determination. These data have congruence with the Theory of Gender and Health, which proposes that constructions of masculinity may be implicated in the attitudes and beliefs young men in South Africa hold toward suicide.

  15. Evolutionary ancestry and novel functions of the mammalian glucose transporter (GLUT family

    Directory of Open Access Journals (Sweden)

    Patron Nicola

    2010-05-01

    Full Text Available Abstract Background In general, sugar porters function by proton-coupled symport or facilitative transport modes. Symporters, coupled to electrochemical energy, transport nutrients against a substrate gradient. Facilitative carriers transport sugars along a concentration gradient, thus transport is dependent upon extracellular nutrient levels. Across bacteria, fungi, unicellular non-vertebrates and plants, proton-coupled hexose symport is a crucial process supplying energy under conditions of nutrient flux. In mammals it has been assumed that evolution of whole body regulatory mechanisms would eliminate this need. To determine whether any isoforms bearing this function might be conserved in mammals, we investigated the relationship between the transporters of animals and the proton-coupled hexose symporters found in other species. Results We took a comparative genomic approach and have performed the first comprehensive and statistically supported phylogenetic analysis of all mammalian glucose transporter (GLUT isoforms. Our data reveals the mammalian GLUT proteins segregate into five distinct classes. This evolutionary ancestry gives insight to structure, function and transport mechanisms within the groups. Combined with biological assays, we present novel evidence that, in response to changing nutrient availability and environmental pH, proton-coupled, active glucose symport function is maintained in mammalian cells. Conclusions The analyses show the ancestry, evolutionary conservation and biological importance of the GLUT classes. These findings significantly extend our understanding of the evolution of mammalian glucose transport systems. They also reveal that mammals may have conserved an adaptive response to nutrient demand that would have important physiological implications to cell survival and growth.

  16. Molecular evolution of Azagny virus, a newfound hantavirus harbored by the West African pygmy shrew (Crocidura obscurior in Côte d'Ivoire

    Directory of Open Access Journals (Sweden)

    Kang Hae Ji

    2011-07-01

    Full Text Available Abstract Background Tanganya virus (TGNV, the only shrew-associated hantavirus reported to date from sub-Saharan Africa, is harbored by the Therese's shrew (Crocidura theresae, and is phylogenetically distinct from Thottapalayam virus (TPMV in the Asian house shrew (Suncus murinus and Imjin virus (MJNV in the Ussuri white-toothed shrew (Crocidura lasiura. The existence of myriad soricid-borne hantaviruses in Eurasia and North America would predict the presence of additional hantaviruses in sub-Saharan Africa, where multiple shrew lineages have evolved and diversified. Methods Lung tissues, collected in RNAlater®, from 39 Buettikofer's shrews (Crocidura buettikoferi, 5 Jouvenet's shrews (Crocidura jouvenetae, 9 West African pygmy shrews (Crocidura obscurior and 21 African giant shrews (Crocidura olivieri captured in Côte d'Ivoire during 2009, were systematically examined for hantavirus RNA by RT-PCR. Results A genetically distinct hantavirus, designated Azagny virus (AZGV, was detected in the West African pygmy shrew. Phylogenetic analysis of the S, M and L segments, using maximum-likelihood and Bayesian methods, under the GTR+I+Γ model of evolution, showed that AZGV shared a common ancestry with TGNV and was more closely related to hantaviruses harbored by soricine shrews than to TPMV and MJNV. That is, AZGV in the West African pygmy shrew, like TGNV in the Therese's shrew, did not form a monophyletic group with TPMV and MJNV, which were deeply divergent and basal to other rodent- and soricomorph-borne hantaviruses. Ancestral distributions of each hantavirus lineage, reconstructed using Mesquite 2.74, suggested that the common ancestor of all hantaviruses was most likely of Eurasian, not African, origin. Conclusions Genome-wide analysis of many more hantaviruses from sub-Saharan Africa are required to better understand how the biogeographic origin and radiation of African shrews might have contributed to, or have resulted from, the evolution

  17. A novel genomic alteration of LSAMP associates with aggressive prostate cancer in African American men

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    Gyorgy Petrovics

    2015-12-01

    Full Text Available Evaluation of cancer genomes in global context is of great interest in light of changing ethnic distribution of the world population. We focused our study on men of African ancestry because of their disproportionately higher rate of prostate cancer (CaP incidence and mortality. We present a systematic whole genome analyses, revealing alterations that differentiate African American (AA and Caucasian American (CA CaP genomes. We discovered a recurrent deletion on chromosome 3q13.31 centering on the LSAMP locus that was prevalent in tumors from AA men (cumulative analyses of 435 patients: whole genome sequence, 14; FISH evaluations, 101; and SNP array, 320 patients. Notably, carriers of this deletion experienced more rapid disease progression. In contrast, PTEN and ERG common driver alterations in CaP were significantly lower in AA prostate tumors compared to prostate tumors from CA. Moreover, the frequency of inter-chromosomal rearrangements was significantly higher in AA than CA tumors. These findings reveal differentially distributed somatic mutations in CaP across ancestral groups, which have implications for precision medicine strategies.

  18. A simple and optimal ancestry labeling scheme for trees

    DEFF Research Database (Denmark)

    Dahlgaard, Søren; Knudsen, Mathias Bæk Tejs; Rotbart, Noy Galil

    2015-01-01

    We present a lg n + 2 lg lg n + 3 ancestry labeling scheme for trees. The problem was first presented by Kannan et al. [STOC 88’] along with a simple 2 lg n solution. Motivated by applications to XML files, the label size was improved incrementally over the course of more than 20 years by a series...... of papers. The last, due to Fraigniaud and Korman [STOC 10’], presented an asymptotically optimal lg n+4 lg lg n+ O(1) labeling scheme using non-trivial tree-decomposition techniques. By providing a framework generalizing interval based labeling schemes, we obtain a simple, yet asymptotically optimal...... solution to the problem. Furthermore, our labeling scheme is attained by a small modification of the original 2 lg n solution....

  19. Continental magnetic anomaly constraints on continental reconstruction

    Science.gov (United States)

    Vonfrese, R. R. B.; Hinze, W. J.; Olivier, R.; Bentley, C. R.

    1985-01-01

    Crustal magnetic anomalies mapped by the MAGSAT satellite for North and South America, Europe, Africa, India, Australia and Antarctica and adjacent marine areas were adjusted to a common elevation of 400 km and differentially reduced to the radial pole of intensity 60,000 nT. These radially polarized anomalies are normalized for differential inclination, declination and intensity effects of the geomagnetic field, so that in principle they directly reflected the geometric and magnetic polarization attributes of sources which include regional petrologic variations of the crust and upper mantle, and crustal thickness and thermal perturbations. Continental anomalies demonstrate remarkably detailed correlation of regional magnetic sources across rifted margins when plotted on a reconstruction of Pangea. Accordingly, they suggest further fundamental constraints on the geologic evolution of the continents and their reconstructions.

  20. Population Genomics of sub-saharan Drosophila melanogaster: African diversity and non-African admixture.

    Directory of Open Access Journals (Sweden)

    John E Pool

    Full Text Available Drosophila melanogaster has played a pivotal role in the development of modern population genetics. However, many basic questions regarding the demographic and adaptive history of this species remain unresolved. We report the genome sequencing of 139 wild-derived strains of D. melanogaster, representing 22 population samples from the sub-Saharan ancestral range of this species, along with one European population. Most genomes were sequenced above 25X depth from haploid embryos. Results indicated a pervasive influence of non-African admixture in many African populations, motivating the development and application of a novel admixture detection method. Admixture proportions varied among populations, with greater admixture in urban locations. Admixture levels also varied across the genome, with localized peaks and valleys suggestive of a non-neutral introgression process. Genomes from the same location differed starkly in ancestry, suggesting that isolation mechanisms may exist within African populations. After removing putatively admixed genomic segments, the greatest genetic diversity was observed in southern Africa (e.g. Zambia, while diversity in other populations was largely consistent with a geographic expansion from this potentially ancestral region. The European population showed different levels of diversity reduction on each chromosome arm, and some African populations displayed chromosome arm-specific diversity reductions. Inversions in the European sample were associated with strong elevations in diversity across chromosome arms. Genomic scans were conducted to identify loci that may represent targets of positive selection within an African population, between African populations, and between European and African populations. A disproportionate number of candidate selective sweep regions were located near genes with varied roles in gene regulation. Outliers for Europe-Africa F(ST were found to be enriched in genomic regions of locally

  1. Zār Spirit Possession in Iran and African Countries: Group Distress, Culture-Bound Syndrome or Cultural Concept of Distress?

    OpenAIRE

    Fahimeh Mianji; Yousef Semnani

    2015-01-01

    Zār is the term used to describe a form of spirit possession common in northern African, eastern African, and some Middle-Eastern societies. Although these regions share some cultural similarities arising from their history of slavery, in these places, zār varies in prevalence, clinical characteristics, and social context. Based on a selective review of the literature, this paper looks at the place of zār spirit possession in both DSM-IV and DSM-V; it also examines how zār is manifested in Ir...

  2. InterContinental Cuisine for Charity 2011

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Cuisine for Charity is one of the most important annual events for InterContinental Hotels Group (IHG) hotels in Beijing. It is a good opportunity not only for chefs to showcase them-selves, learn from each other and improve their cooking skills, but also to show that we take care of our social responsibilities.

  3. The Dialectics of African Education and Western Discourses: Counter-Hegemonic Perspectives. Black Studies and Critical Thinking. Volume 21

    Science.gov (United States)

    Wright, Handel Kashope, Ed.; Abdi, Ali A., Ed.

    2012-01-01

    "The Dialectics of African Education and Western Discourses" addresses how continental Africans who have worked or are currently working in the Canadian academy address their dual legacy of African and Euro-American knowledge paradigms. Reflecting a range of approaches to hegemonic Euro-American paradigms that can be summarized as "appropriation,…

  4. Strong genetic admixture in the Altai at the Middle Bronze Age revealed by uniparental and ancestry informative markers.

    Science.gov (United States)

    Hollard, Clémence; Keyser, Christine; Giscard, Pierre-Henri; Tsagaan, Turbat; Bayarkhuu, Noost; Bemmann, Jan; Crubézy, Eric; Ludes, Bertrand

    2014-09-01

    The Altai Mountains have been a long-term boundary zone between the Eurasian Steppe populations and South and East Asian populations. To disentangle some of the historical population movements in this area, 14 ancient human specimens excavated in the westernmost part of the Mongolian Altai were studied. Thirteen of them were dated from the Middle to the End of the Bronze Age and one of them to the Eneolithic period. The environmental conditions encountered in this region led to the good preservation of DNA in the human remains. Therefore, a multi-markers approach was adopted for the genetic analysis of identity, ancestry and phenotype markers. Mitochondrial DNA analyses revealed that the ancient Altaians studied carried both Western (H, U, T) and Eastern (A, C, D) Eurasian lineages. In the same way, the patrilineal gene pool revealed the presence of different haplogroups (Q1a2a1-L54, R1a1a1b2-Z93 and C), probably marking different origins for the male paternal lineages. To go further in the search of the origin of these ancient specimens, phenotypical characters (i.e. hair and eye color) were determined. For this purpose, we adapted the HIrisPlex assay recently described to MALDI-TOF mass spectrometry. In addition, some ancestry informative markers were analyzed with this assay. The results revealed mixed phenotypes among this group confirming the probable admixed ancestry of the studied Altaian population at the Middle Bronze Age. The good results obtained from ancient DNA samples suggest that this approach might be relevant for forensic casework too. PMID:25016250

  5. Another Continental Vulture Crisis

    NARCIS (Netherlands)

    Ogada, Darcy; Shaw, Phil; Beyers, Rene L.; Buij, Ralph; Murn, Campbell; Thiollay, Jean Marc; Beale, Colin M.; Holdo, Ricardo M.; Pomeroy, Derek; Baker, Neil; Krüger, Sonja C.; Botha, Andre; Virani, Munir Z.; Monadjem, Ara; Sinclair, Anthony R.E.

    2016-01-01

    Vultures provide critical ecosystem services, yet populations of many species have collapsed worldwide. We present the first estimates of a 30-year Pan-African vulture decline, confirming that declines have occurred on a scale broadly comparable with those seen in Asia, where the ecological, econ

  6. African origins and chronic kidney disease susceptibility in the human immunodeficiency virus era.

    Science.gov (United States)

    Kasembeli, Alex N; Duarte, Raquel; Ramsay, Michèle; Naicker, Saraladevi

    2015-05-01

    Chronic kidney disease (CKD) is a major public health problem worldwide with the estimated incidence growing by approximately 6% annually. There are striking ethnic differences in the prevalence of CKD such that, in the United States, African Americans have the highest prevalence of CKD, four times the incidence of end stage renal disease when compared to Americans of European ancestry suggestive of genetic predisposition. Diabetes mellitus, hypertension and human immunodeficiency virus (HIV) infection are the major causes of CKD. HIV-associated nephropathy (HIVAN) is an irreversible form of CKD with considerable morbidity and mortality and is present predominantly in people of African ancestry. The APOL1 G1 and G2 alleles were more strongly associated with the risk for CKD than the previously examined MYH9 E1 risk haplotype in individuals of African ancestry. A strong association was reported in HIVAN, suggesting that 50% of African Americans with two APOL1 risk alleles, if untreated, would develop HIVAN. However these two variants are not enough to cause disease. The prevailing belief is that modifying factors or second hits (including genetic hits) underlie the pathogenesis of kidney disease. This work reviews the history of genetic susceptibility of CKD and outlines current theories regarding the role for APOL1 in CKD in the HIV era.

  7. The African Diaspora: Mitochondrial DNA and the Atlantic Slave Trade

    Science.gov (United States)

    Salas, Antonio; Richards, Martin; Lareu, María-Victoria; Scozzari, Rosaria; Coppa, Alfredo; Torroni, Antonio; Macaulay, Vincent; Carracedo, Ángel

    2004-01-01

    Between the 15th and 19th centuries ad, the Atlantic slave trade resulted in the forced movement of ∼13 million people from Africa, mainly to the Americas. Only ∼11 million survived the passage, and many more died in the early years of captivity. We have studied 481 mitochondrial DNAs (mtDNAs) of recent African ancestry in the Americas and in Eurasia, in an attempt to trace them back to particular regions of Africa. Our results show that mtDNAs in America and Eurasia can, in many cases, be traced to broad geographical regions within Africa, largely in accordance with historical evidence, and raise the possibility that a greater resolution may be possible in the future. However, they also indicate that, at least for the moment, considerable caution is warranted when assessing claims to be able to trace the ancestry of particular lineages to a particular locality within modern-day Africa. PMID:14872407

  8. Brazilian continental cretaceous

    Science.gov (United States)

    Petri, Setembrino; Campanha, Vilma A.

    1981-04-01

    Cretaceous deposits in Brazil are very well developed, chiefly in continental facies and in thick sequences. Sedimentation occurred essentially in rift-valleys inland and along the coast. Three different sequences can be distinguished: (1) a lower clastic non-marine section, (2) a middle evaporitic section, (3) an upper marine section with non-marine regressive lithosomes. Continental deposits have been laid down chiefly between the latest Jurassic and Albian. The lower lithostratigraphic unit is represented by red shales with occasional evaporites and fresh-water limestones, dated by ostracods. A series of thick sandstone lithosomes accumulated in the inland rift-valleys. In the coastal basins these sequences are often incompletely preserved. Uplift in the beginning of the Aptian produced a widespread unconformity. In many of the inland rift-valleys sedimentation ceased at that time. A later transgression penetrated far into northeastern Brazil, but shortly after continental sedimentation continued, with the deposition of fluvial sandstones which once covered large areas of the country and which have been preserved in many places. The continental Cretaceous sediments have been laid down in fluvial and lacustrine environments, under warm climatic conditions which were dry from time to time. The fossil record is fairly rich, including besides plants and invertebrates, also reptiles and fishes. As faulting tectonism was rather strong, chiefly during the beginning of the Cretaceous, intercalations of igneous rocks are frequent in some places. Irregular uplift and erosion caused sediments belonging to the remainder of this period to be preserved only in tectonic basins scattered across the country.

  9. The frequency of an IL-18-associated haplotype in Africans.

    Science.gov (United States)

    Thompson, Simon R; Humphries, Steve E; Thomas, Mark G; Ekong, Rosemary; Tarekegn, Ayele; Bekele, Endeshaw; Creemer, Olivia; Bradman, Neil; Veeramah, Krishna R

    2013-04-01

    Variation within the gene for the proinflammatory cytokine interleukin (IL)-18 has been associated with inter-individual differences in levels of free protein and disease risk. We investigated the frequency of function-associated IL18 gene haplotypes in an extensive sample (n=2357) of African populations from across the continent. A previously identified five tagging SNP (single-nucleotide polymorphism) haplotype (here designated hGTATA), known to be associated with lower levels of IL-18, was observed at a frequency of 27% in a British population of recent European ancestry, but was found at low frequency (African populations. Potentially protective variants may, as a consequence, be found at low frequency in African individuals and may confer a difference in disease risk.

  10. Comparison of measures of marker informativeness for ancestry and admixture mapping

    Directory of Open Access Journals (Sweden)

    Ding Lili

    2011-12-01

    Full Text Available Abstract Background Admixture mapping is a powerful gene mapping approach for an admixed population formed from ancestral populations with different allele frequencies. The power of this method relies on the ability of ancestry informative markers (AIMs to infer ancestry along the chromosomes of admixed individuals. In this study, more than one million SNPs from HapMap databases and simulated data have been interrogated in admixed populations using various measures of ancestry informativeness: Fisher Information Content (FIC, Shannon Information Content (SIC, F statistics (FST, Informativeness for Assignment Measure (In, and the Absolute Allele Frequency Differences (delta, δ. The objectives are to compare these measures of informativeness to select SNP markers for ancestry inference, and to determine the accuracy of AIM panels selected by each measure in estimating the contributions of the ancestors to the admixed population. Results FST and In had the highest Spearman correlation and the best agreement as measured by Kappa statistics based on deciles. Although the different measures of marker informativeness performed comparably well, analyses based on the top 1 to 10% ranked informative markers of simulated data showed that In was better in estimating ancestry for an admixed population. Conclusions Although millions of SNPs have been identified, only a small subset needs to be genotyped in order to accurately predict ancestry with a minimal error rate in a cost-effective manner. In this article, we compared various methods for selecting ancestry informative SNPs using simulations as well as SNP genotype data from samples of admixed populations and showed that the In measure estimates ancestry proportion (in an admixed population with lower bias and mean square error.

  11. Inferring Geographic Coordinates of Origin for Europeans Using Small Panels of Ancestry Informative Markers

    OpenAIRE

    Petros Drineas; Jamey Lewis; Peristera Paschou

    2010-01-01

    Recent large-scale studies of European populations have demonstrated the existence of population genetic structure within Europe and the potential to accurately infer individual ancestry when information from hundreds of thousands of genetic markers is used. In fact, when genomewide genetic variation of European populations is projected down to a two-dimensional Principal Components Analysis plot, a surprising correlation with actual geographic coordinates of self-reported ancestry has been r...

  12. ON THE CHOICE ADDRESS FORMS: INTIMATE ADDRESS FORMS AS IN-GROUP IDENTITY MARKERS OF BLACK SOUTH AFRICANS IN 'INVICTUS' MOVIE

    OpenAIRE

    Prihantoro Prihantoro

    2012-01-01

    Invictus is a movie which is adapted from a true story of how the South African President, Nelson Mandela, tried to unite South Africa by supporting the national rugby team, Springbok, which used to be the symbol of Apartheid. His relation with other characters in this movie is reflected from the address forms and the choice is influenced by many aspects like social distance among the participants, age difference, formality scale etc. This paper focuses on the choice of address forms used amo...

  13. The use of the Revised Griffiths Development Scales in a group of 9 month–old South African babies / Jacquiline von Wielligh

    OpenAIRE

    Von Wielligh, Jacquiline

    2012-01-01

    The aim of this study was to determine the applicability of the Griffiths Development Scales ? Extended Revised (GMDS–ER) in a contemporary South Africa. This study explores the performance of South African babies aged 9 months as it relates to that of British babies (from the standardisation sample). Over the last few years, researchers have made a significant effort to address the need for more reliable and valid assessment measures for South Africa. The literature study shows r...

  14. Cancer and African Americans

    Science.gov (United States)

    ... Population Profiles > Black/African American > Cancer Cancer and African Americans African Americans have the highest mortality rate ... 65MB] At a glance – Top Cancer Sites for African Americans (2008-2012) Cancer Incidence Rates per 100, ...

  15. Resolving the ancestry of Austronesian-speaking populations.

    Science.gov (United States)

    Soares, Pedro A; Trejaut, Jean A; Rito, Teresa; Cavadas, Bruno; Hill, Catherine; Eng, Ken Khong; Mormina, Maru; Brandão, Andreia; Fraser, Ross M; Wang, Tse-Yi; Loo, Jun-Hun; Snell, Christopher; Ko, Tsang-Ming; Amorim, António; Pala, Maria; Macaulay, Vincent; Bulbeck, David; Wilson, James F; Gusmão, Leonor; Pereira, Luísa; Oppenheimer, Stephen; Lin, Marie; Richards, Martin B

    2016-03-01

    There are two very different interpretations of the prehistory of Island Southeast Asia (ISEA), with genetic evidence invoked in support of both. The "out-of-Taiwan" model proposes a major Late Holocene expansion of Neolithic Austronesian speakers from Taiwan. An alternative, proposing that Late Glacial/postglacial sea-level rises triggered largely autochthonous dispersals, accounts for some otherwise enigmatic genetic patterns, but fails to explain the Austronesian language dispersal. Combining mitochondrial DNA (mtDNA), Y-chromosome and genome-wide data, we performed the most comprehensive analysis of the region to date, obtaining highly consistent results across all three systems and allowing us to reconcile the models. We infer a primarily common ancestry for Taiwan/ISEA populations established before the Neolithic, but also detected clear signals of two minor Late Holocene migrations, probably representing Neolithic input from both Mainland Southeast Asia and South China, via Taiwan. This latter may therefore have mediated the Austronesian language dispersal, implying small-scale migration and language shift rather than large-scale expansion. PMID:26781090

  16. Another Continental Vulture Crisis

    OpenAIRE

    Ogada, Darcy; Shaw, Phil; Beyers, Rene L.; Buij, Ralph; Murn, Campbell; Thiollay, Jean Marc; Beale, Colin M.; Holdo, Ricardo M.; Pomeroy, Derek; Baker, Neil; Krüger, Sonja C.; Botha, Andre; Virani, Munir Z.; Monadjem, Ara; Sinclair, Anthony R. E.

    2016-01-01

    Vultures provide critical ecosystem services, yet populations of many species have collapsed worldwide. We present the first estimates of a 30-year Pan-African vulture decline, confirming that declines have occurred on a scale broadly comparable with those seen in Asia, where the ecological, economic, and human costs are already documented. Populations of eight species we assessed had declined by an average of 62%; seven had declined at a rate of 80% or more over three generations. Of these, ...

  17. Amerind ancestry, socioeconomic status and the genetics of type 2 diabetes in a Colombian population.

    Directory of Open Access Journals (Sweden)

    Desmond D Campbell

    Full Text Available The "thrifty genotype" hypothesis proposes that the high prevalence of type 2 diabetes (T2D in Native Americans and admixed Latin Americans has a genetic basis and reflects an evolutionary adaptation to a past low calorie/high exercise lifestyle. However, identification of the gene variants underpinning this hypothesis remains elusive. Here we assessed the role of Native American ancestry, socioeconomic status (SES and 21 candidate gene loci in susceptibility to T2D in a sample of 876 T2D cases and 399 controls from Antioquia (Colombia. Although mean Native American ancestry is significantly higher in T2D cases than in controls (32% v 29%, this difference is confounded by the correlation of ancestry with SES, which is a stronger predictor of disease status. Nominally significant association (P1 was observed for markers selected from previous T2D genome-wide association studies, consistent with a role for Old World variants in susceptibility to T2D in Latin Americans. No association was found to the only known Native American-specific gene variant previously associated with T2D in a Mexican sample (rs9282541 in ABCA1. An admixture mapping scan with 1,536 ancestry informative markers (AIMs did not identify genome regions with significant deviation of ancestry in Antioquia. Exclusion analysis indicates that this scan rules out ~95% of the genome as harboring loci with ancestry risk ratios >1.22 (at P < 0.05.

  18. Genome-wide scan of 29,141 African Americans finds no evidence of selection since admixture

    OpenAIRE

    Bhatia, Gaurav; Tandon, Arti; Aldrich, Melinda C.; Ambrosone, Christine B.; Amos, Christopher; Bandera, Elisa V.; Berndt, Sonja I.; Bernstein, Leslie; William J Blot; Bock, Cathryn H.; Caporaso, Neil; Casey, Graham; Deming, Sandra L.; Diver, W Ryan; Gapstur, Susan M

    2013-01-01

    We scanned through the genomes of 29,141 African Americans, searching for loci where the average proportion of African ancestry deviates significantly from the genome-wide average. We failed to find any genome-wide significant deviations, and conclude that any selection in African Americans since admixture is sufficiently weak that it falls below the threshold of our power to detect it using a large sample size. These results stand in contrast to the findings of a recent study of selection in...

  19. The European Union’s and Poland’s trade relations with the African, Caribbean and Pacific group of states (ACP in the agri-food products in the years 2000-2009

    Directory of Open Access Journals (Sweden)

    Katarzyna Kita

    2012-01-01

    Full Text Available The aim of the paper is to examine key trends in the European Union’s trade policy towards the African, Caribbean and Pacific group of states (ACP, as well as to identify main changes in the commodity structure of the European (and Polish agri-food trade. The results showed that for the ACP countries, the European market is perceived as a source of food industry while the EU (including Poland imports from ACP region coffee, tea and cocoa. This confirms a certain specialization of production and trade in ACP countries. Both the European Union and Poland, are net importers of agri- food products from the ACP region.

  20. Genome-wide association study of age at menarche in African-American women

    OpenAIRE

    Demerath, Ellen W; Liu, Ching-Ti; Franceschini, Nora; Chen, Gary; Palmer, Julie R.; Smith, Erin N.; Chen, Christina T. L.; Ambrosone, Christine B.; Arnold, Alice M.; Bandera, Elisa V.; Berenson, Gerald S.; Bernstein, Leslie; Britton, Angela; Cappola, Anne R.; Carlson, Christopher S.

    2013-01-01

    African-American (AA) women have earlier menarche on average than women of European ancestry (EA), and earlier menarche is a risk factor for obesity and type 2 diabetes among other chronic diseases. Identification of common genetic variants associated with age at menarche has a potential value in pointing to the genetic pathways underlying chronic disease risk, yet comprehensive genome-wide studies of age at menarche are lacking for AA women. In this study, we tested the genome-wide associati...

  1. The continental lithosphere

    DEFF Research Database (Denmark)

    Artemieva, Irina

    2009-01-01

    The goal of the present study is to extract non-thermal signal from seismic tomography models in order to distinguish compositional variations in the continental lithosphere and to examine if geochemical and petrologic constraints on global-scale compositional variations in the mantle are consist......The goal of the present study is to extract non-thermal signal from seismic tomography models in order to distinguish compositional variations in the continental lithosphere and to examine if geochemical and petrologic constraints on global-scale compositional variations in the mantle...... are consistent with modern geophysical data. In the lithospheric mantle of the continents, seismic velocity variations of a non-thermal origin (calculated from global Vs seismic tomography data [Grand S.P., 2002. Mantle shear-wave tomography and the fate of subducted slabs. Philosophical Transactions...... of the Royal Society of London. Series A, 360, 2475–2491.; Shapiro N.M., Ritzwoller M.H. 2002. Monte-Carlo inversion for a global shear velocity model of the crust and upper mantle. Geophysical Journal International 151, 1–18.] and lithospheric temperatures [Artemieva I.M., Mooney W.D., 2001. Thermal structure...

  2. Palate Shape and Depth: A Shape-Matching and Machine Learning Method for Estimating Ancestry from Human Skeletal Remains.

    Science.gov (United States)

    Maier, Christopher A; Zhang, Kang; Manhein, Mary H; Li, Xin

    2015-09-01

    In the past, assessing ancestry relied on the naked eye and observer experience; however, replicability has become an important aspect of such analysis through the application of metric techniques. This study examines palate shape and assesses ancestry quantitatively using a 3D digitizer and shape-matching and machine learning methods. Palate curves and depths were recorded, processed, and tested for 376 individuals. Palate shape was an accurate indicator of ancestry in 58% of cases. Cluster analysis revealed that the parabolic, hyperbolic, and elliptical shapes are discrete from one another. Preliminary results indicate that palate depth in Hispanic individuals is greatest. Palate shape appears to be a useful indicator of ancestry, particularly when assessed by a computer. However, these data suggest that palate shape is not useful for assessing ancestry in Hispanic individuals. Although ancestry may be determined from palate shape, the use of multiple features is recommended and more reliable.

  3. Genetic evidence for a mitochondriate ancestry in the 'amitochondriate' flagellate Trimastix pyriformis.

    Directory of Open Access Journals (Sweden)

    Vladimir Hampl

    Full Text Available Most modern eukaryotes diverged from a common ancestor that contained the alpha-proteobacterial endosymbiont that gave rise to mitochondria. The 'amitochondriate' anaerobic protist parasites that have been studied to date, such as Giardia and Trichomonas harbor mitochondrion-related organelles, such as mitosomes or hydrogenosomes. Yet there is one remaining group of mitochondrion-lacking flagellates known as the Preaxostyla that could represent a primitive 'pre-mitochondrial' lineage of eukaryotes. To test this hypothesis, we conducted an expressed sequence tag (EST survey on the preaxostylid flagellate Trimastix pyriformis, a poorly-studied free-living anaerobe. Among the ESTs we detected 19 proteins that, in other eukaryotes, typically function in mitochondria, hydrogenosomes or mitosomes, 12 of which are found exclusively within these organelles. Interestingly, one of the proteins, aconitase, functions in the tricarboxylic acid cycle typical of aerobic mitochondria, whereas others, such as pyruvate:ferredoxin oxidoreductase and [FeFe] hydrogenase, are characteristic of anaerobic hydrogenosomes. Since Trimastix retains genetic evidence of a mitochondriate ancestry, we can now say definitively that all known living eukaryote lineages descend from a common ancestor that had mitochondria.

  4. Genetic evidence for a mitochondriate ancestry in the 'amitochondriate' flagellate Trimastix pyriformis.

    Science.gov (United States)

    Hampl, Vladimir; Silberman, Jeffrey D; Stechmann, Alexandra; Diaz-Triviño, Sara; Johnson, Patricia J; Roger, Andrew J

    2008-01-01

    Most modern eukaryotes diverged from a common ancestor that contained the alpha-proteobacterial endosymbiont that gave rise to mitochondria. The 'amitochondriate' anaerobic protist parasites that have been studied to date, such as Giardia and Trichomonas harbor mitochondrion-related organelles, such as mitosomes or hydrogenosomes. Yet there is one remaining group of mitochondrion-lacking flagellates known as the Preaxostyla that could represent a primitive 'pre-mitochondrial' lineage of eukaryotes. To test this hypothesis, we conducted an expressed sequence tag (EST) survey on the preaxostylid flagellate Trimastix pyriformis, a poorly-studied free-living anaerobe. Among the ESTs we detected 19 proteins that, in other eukaryotes, typically function in mitochondria, hydrogenosomes or mitosomes, 12 of which are found exclusively within these organelles. Interestingly, one of the proteins, aconitase, functions in the tricarboxylic acid cycle typical of aerobic mitochondria, whereas others, such as pyruvate:ferredoxin oxidoreductase and [FeFe] hydrogenase, are characteristic of anaerobic hydrogenosomes. Since Trimastix retains genetic evidence of a mitochondriate ancestry, we can now say definitively that all known living eukaryote lineages descend from a common ancestor that had mitochondria. PMID:18167542

  5. Islands in a desert : breeding ecology of the African Reed Warbler Acrocephalus baeticatus in Namibia

    NARCIS (Netherlands)

    Eising, CM; Komdeur, J; Buys, J; Reemer, M; Richardson, DS; Richardson, David S.

    2001-01-01

    The continental African Reed Warbler Acrocephalus baeticatus, like its relative the Seychelles Warbler Acrocephalus sechellensis, breeds in isolated patches. We studied the mating system of the African Reed Warbler to see whether this species, like the Seychelles Warbler, shows co-operative breeding

  6. Regional, Continental, and Global Mobility to an Emerging Economy: The Case of South Africa

    Science.gov (United States)

    Lee, Jenny J.; Sehoole, Chika

    2015-01-01

    This study examined mobility within the understudied region of southern Africa and particularly, the factors that drive and shape educational migration toward South Africa as a regional, continental, and global destination. Based on a survey administered to international students across seven South African universities, the findings revealed…

  7. African dance

    OpenAIRE

    Mumberson, Stephen

    2012-01-01

    The RE Open will be shown at the Mall Gallery London and the international section was judged by major practitioners and educators, print dealers and collectors, President of RE and Keeper of the Ashmolean Museum Dr Bren Unwin, John Purcell, Deborah Roslund, Colin Harrison, Dave Ferry, and Mark Hampson. Piece selected "African Dance" print.

  8. "African Connection."

    Science.gov (United States)

    Adelman, Cathy; And Others

    This interdisciplinary unit provides students in grades kindergarten through seventh grade an opportunity to understand diversity through a study of Africa as a diverse continent. The project is designed to provide all elementary students with cultural enrichment by exposing them to African music, art, storytelling, and movement. This project can…

  9. Southeast continental shelf studies

    Energy Technology Data Exchange (ETDEWEB)

    Menzel, D.W.

    1979-02-12

    Research efforts on the southeast continental shelf currently describe the manner in which fluctuations in Gulf Stream motion influence biological and chemical processes. Current meter arrays are maintained in the Georgia Bight and in Onslow Bay to describe general circulation patterns and to identify forcing functions. biological studies describe processes affecting temporal and spatial variations on the shelf and have attempted to track the biological history of intruded Gulf Stream water masses. Chemical studies examine the influence of both physical and biological variables on the distribution and fate of trace elements. The current state of knowledge is reviewed, the hypotheses developed and are described, a rationale for testing these hypotheses is given. 1 figure, 1 table.

  10. NSF Continental Lithosphere Program

    Science.gov (United States)

    Mayhew, Michael; MacGregor, Ian

    For several months the Continental Lithosphere Program (CL) of the National Science Foundation has been subject to a major review. The process was stimulated by a series of budget setbacks over the past few years. Although Presidential budget requests have been very favorable for the Division of Earth Sciences (EAR), and there has been strong support within the National Science Foundation and Congress, actual appropriations by Congress have been disappointing.In each year the final allocation to EAR has been affected by external factors beyond the control of the Foundation. In the four fiscal years from 1986 through 1989 the factors include reductions tied to the Gramm-Rudman deficit reduction measures, congressional reaction to the October 1987 stock market crash, and two years of protection for the Ocean Sciences part of the NSF budget that was paid for from the budgets of the Atmospheric and Earth Sciences divisions.

  11. Late Pleistocene and Holocene mammal extinctions on continental Africa

    Science.gov (United States)

    Faith, J. Tyler

    2014-01-01

    Understanding the cause of late Quaternary mammal extinctions is the subject of intense debate spanning the fields of archeology and paleontology. In the global context, the losses on continental Africa have received little attention and are poorly understood. This study aims to inspire new discussion of African extinctions through a review of the extinct species and the chronology and possible causes of those extinctions. There are at least 24 large mammal (> 5 kg) species known to have disappeared from continental Africa during the late Pleistocene or Holocene, indicating a much greater taxonomic breadth than previously recognized. Among the better sampled taxa, these losses are restricted to the terminal Pleistocene and early Holocene, between 13,000 and 6000 yrs ago. The African extinctions preferentially affected species that are grazers or prefer grasslands. Where good terrestrial paleoenvironmental records are present, extinctions are associated with changes in the availability, productivity, or structure of grassland habitats, suggesting that environmental changes played a decisive role in the losses. In the broader evolutionary context, these extinctions represent recent examples of selective taxonomic winnowing characterized by the loss of grassland specialists and the establishment of large mammal communities composed of more ecologically flexible taxa over the last million years. There is little reason to believe that humans played an important role in African extinctions.

  12. Islands in a desert: breeding ecology of the African Reed Warbler Acrocephalus baeticatus in Namibia

    OpenAIRE

    Eising, CM; Komdeur, J.; Buys, J.; Reemer, M.; Richardson, DS; Richardson, David S.

    2001-01-01

    The continental African Reed Warbler Acrocephalus baeticatus, like its relative the Seychelles Warbler Acrocephalus sechellensis, breeds in isolated patches. We studied the mating system of the African Reed Warbler to see whether this species, like the Seychelles Warbler, shows co-operative breeding. The African Reed Warbler is not polygynous. The majority breed monogamously (88%, n = 65), however in 12% of the territories three adult unrelated birds (mostly males) were observed participating...

  13. Replication of 6 Obesity Genes in a Meta-Analysis of Genome-Wide Association Studies from Diverse Ancestries

    Science.gov (United States)

    Tan, Li-Jun; Zhu, Hu; He, Hao; Wu, Ke-Hao; Li, Jian; Chen, Xiang-Ding; Zhang, Ji-Gang; Shen, Hui; Tian, Qing; Krousel-Wood, Marie; Papasian, Christopher J.; Bouchard, Claude; Pérusse, Louis; Deng, Hong-Wen

    2014-01-01

    Obesity is a major public health problem with a significant genetic component. Multiple DNA polymorphisms/genes have been shown to be strongly associated with obesity, typically in populations of European descent. The aim of this study was to verify the extent to which 6 confirmed obesity genes (FTO, CTNNBL1, ADRB2, LEPR, PPARG and UCP2 genes) could be replicated in 8 different samples (n = 11,161) and to explore whether the same genes contribute to obesity-susceptibility in populations of different ancestries (five Caucasian, one Chinese, one African-American and one Hispanic population). GWAS-based data sets with 1000 G imputed variants were tested for association with obesity phenotypes individually in each population, and subsequently combined in a meta-analysis. Multiple variants at the FTO locus showed significant associations with BMI, fat mass (FM) and percentage of body fat (PBF) in meta-analysis. The strongest association was detected at rs7185735 (P-value = 1.01×10−7 for BMI, 1.80×10−6 for FM, and 5.29×10−4 for PBF). Variants at the CTNNBL1, LEPR and PPARG loci demonstrated nominal association with obesity phenotypes (meta-analysis P-values ranging from 1.15×10−3 to 4.94×10−2). There was no evidence of association with variants at ADRB2 and UCP2 genes. When stratified by sex and ethnicity, FTO variants showed sex-specific and ethnic-specific effects on obesity traits. Thus, it is likely that FTO has an important role in the sex- and ethnic-specific risk of obesity. Our data confirmed the role of FTO, CTNNBL1, LEPR and PPARG in obesity predisposition. These findings enhanced our knowledge of genetic associations between these genes and obesity-related phenotypes, and provided further justification for pursuing functional studies of these genes in the pathophysiology of obesity. Sex and ethnic differences in genetic susceptibility across populations of diverse ancestries may contribute to a more targeted prevention and customized

  14. Replication of 6 obesity genes in a meta-analysis of genome-wide association studies from diverse ancestries.

    Directory of Open Access Journals (Sweden)

    Li-Jun Tan

    Full Text Available Obesity is a major public health problem with a significant genetic component. Multiple DNA polymorphisms/genes have been shown to be strongly associated with obesity, typically in populations of European descent. The aim of this study was to verify the extent to which 6 confirmed obesity genes (FTO, CTNNBL1, ADRB2, LEPR, PPARG and UCP2 genes could be replicated in 8 different samples (n = 11,161 and to explore whether the same genes contribute to obesity-susceptibility in populations of different ancestries (five Caucasian, one Chinese, one African-American and one Hispanic population. GWAS-based data sets with 1000 G imputed variants were tested for association with obesity phenotypes individually in each population, and subsequently combined in a meta-analysis. Multiple variants at the FTO locus showed significant associations with BMI, fat mass (FM and percentage of body fat (PBF in meta-analysis. The strongest association was detected at rs7185735 (P-value = 1.01×10(-7 for BMI, 1.80×10(-6 for FM, and 5.29×10(-4 for PBF. Variants at the CTNNBL1, LEPR and PPARG loci demonstrated nominal association with obesity phenotypes (meta-analysis P-values ranging from 1.15×10(-3 to 4.94×10(-2. There was no evidence of association with variants at ADRB2 and UCP2 genes. When stratified by sex and ethnicity, FTO variants showed sex-specific and ethnic-specific effects on obesity traits. Thus, it is likely that FTO has an important role in the sex- and ethnic-specific risk of obesity. Our data confirmed the role of FTO, CTNNBL1, LEPR and PPARG in obesity predisposition. These findings enhanced our knowledge of genetic associations between these genes and obesity-related phenotypes, and provided further justification for pursuing functional studies of these genes in the pathophysiology of obesity. Sex and ethnic differences in genetic susceptibility across populations of diverse ancestries may contribute to a more targeted prevention and

  15. Replication of 6 obesity genes in a meta-analysis of genome-wide association studies from diverse ancestries.

    Science.gov (United States)

    Tan, Li-Jun; Zhu, Hu; He, Hao; Wu, Ke-Hao; Li, Jian; Chen, Xiang-Ding; Zhang, Ji-Gang; Shen, Hui; Tian, Qing; Krousel-Wood, Marie; Papasian, Christopher J; Bouchard, Claude; Pérusse, Louis; Deng, Hong-Wen

    2014-01-01

    Obesity is a major public health problem with a significant genetic component. Multiple DNA polymorphisms/genes have been shown to be strongly associated with obesity, typically in populations of European descent. The aim of this study was to verify the extent to which 6 confirmed obesity genes (FTO, CTNNBL1, ADRB2, LEPR, PPARG and UCP2 genes) could be replicated in 8 different samples (n = 11,161) and to explore whether the same genes contribute to obesity-susceptibility in populations of different ancestries (five Caucasian, one Chinese, one African-American and one Hispanic population). GWAS-based data sets with 1000 G imputed variants were tested for association with obesity phenotypes individually in each population, and subsequently combined in a meta-analysis. Multiple variants at the FTO locus showed significant associations with BMI, fat mass (FM) and percentage of body fat (PBF) in meta-analysis. The strongest association was detected at rs7185735 (P-value = 1.01×10(-7) for BMI, 1.80×10(-6) for FM, and 5.29×10(-4) for PBF). Variants at the CTNNBL1, LEPR and PPARG loci demonstrated nominal association with obesity phenotypes (meta-analysis P-values ranging from 1.15×10(-3) to 4.94×10(-2)). There was no evidence of association with variants at ADRB2 and UCP2 genes. When stratified by sex and ethnicity, FTO variants showed sex-specific and ethnic-specific effects on obesity traits. Thus, it is likely that FTO has an important role in the sex- and ethnic-specific risk of obesity. Our data confirmed the role of FTO, CTNNBL1, LEPR and PPARG in obesity predisposition. These findings enhanced our knowledge of genetic associations between these genes and obesity-related phenotypes, and provided further justification for pursuing functional studies of these genes in the pathophysiology of obesity. Sex and ethnic differences in genetic susceptibility across populations of diverse ancestries may contribute to a more targeted prevention and customized

  16. Genome-wide association of anthropometric traits in African- and African-derived populations.

    Science.gov (United States)

    Kang, Sun J; Chiang, Charleston W K; Palmer, Cameron D; Tayo, Bamidele O; Lettre, Guillaume; Butler, Johannah L; Hackett, Rachel; Adeyemo, Adebowale A; Guiducci, Candace; Berzins, Ilze; Nguyen, Thutrang T; Feng, Tao; Luke, Amy; Shriner, Daniel; Ardlie, Kristin; Rotimi, Charles; Wilks, Rainford; Forrester, Terrence; McKenzie, Colin A; Lyon, Helen N; Cooper, Richard S; Zhu, Xiaofeng; Hirschhorn, Joel N

    2010-07-01

    Genome-wide association (GWA) studies have identified common variants that are associated with a variety of traits and diseases, but most studies have been performed in European-derived populations. Here, we describe the first genome-wide analyses of imputed genotype and copy number variants (CNVs) for anthropometric measures in African-derived populations: 1188 Nigerians from Igbo-Ora and Ibadan, Nigeria, and 743 African-Americans from Maywood, IL. To improve the reach of our study, we used imputation to estimate genotypes at approximately 2.1 million single-nucleotide polymorphisms (SNPs) and also tested CNVs for association. No SNPs or common CNVs reached a genome-wide significance level for association with height or body mass index (BMI), and the best signals from a meta-analysis of the two cohorts did not replicate in approximately 3700 African-Americans and Jamaicans. However, several loci previously confirmed in European populations showed evidence of replication in our GWA panel of African-derived populations, including variants near IHH and DLEU7 for height and MC4R for BMI. Analysis of global burden of rare CNVs suggested that lean individuals possess greater total burden of CNVs, but this finding was not supported in an independent European population. Our results suggest that there are not multiple loci with strong effects on anthropometric traits in African-derived populations and that sample sizes comparable to those needed in European GWA studies will be required to identify replicable associations. Meta-analysis of this data set with additional studies in African-ancestry populations will be helpful to improve power to detect novel associations. PMID:20400458

  17. Ancestry Estimation in Forensic Anthropology: Geometric Morphometric versus Standard and Nonstandard Interlandmark Distances.

    Science.gov (United States)

    Katherine Spradley, M; Jantz, Richard L

    2016-07-01

    Standard cranial measurements are commonly used for ancestry estimation; however, 3D digitizers have made cranial landmark data collection and geometric morphometric (GM) analyses more popular within forensic anthropology. Yet there has been little focus on which data type works best. The goal of the present research is to test the discrimination ability of standard and nonstandard craniometric measurements and data derived from GM analysis. A total of 31 cranial landmarks were used to generate 465 interlandmark distances, including a subset of 20 commonly used measurements, and to generate principal component scores from procrustes coordinates. All were subjected to discriminant function analysis to ascertain which type of data performed best for ancestry estimation of American Black and White and Hispanic males and females. The nonstandard interlandmark distances generated the highest classification rates for females (90.5%) and males (88.2%). Using nonstandard interlandmark distances over more commonly used measurements leads to better ancestry estimates for our current population structure.

  18. Ancestry Estimation in Forensic Anthropology: Geometric Morphometric versus Standard and Nonstandard Interlandmark Distances.

    Science.gov (United States)

    Katherine Spradley, M; Jantz, Richard L

    2016-07-01

    Standard cranial measurements are commonly used for ancestry estimation; however, 3D digitizers have made cranial landmark data collection and geometric morphometric (GM) analyses more popular within forensic anthropology. Yet there has been little focus on which data type works best. The goal of the present research is to test the discrimination ability of standard and nonstandard craniometric measurements and data derived from GM analysis. A total of 31 cranial landmarks were used to generate 465 interlandmark distances, including a subset of 20 commonly used measurements, and to generate principal component scores from procrustes coordinates. All were subjected to discriminant function analysis to ascertain which type of data performed best for ancestry estimation of American Black and White and Hispanic males and females. The nonstandard interlandmark distances generated the highest classification rates for females (90.5%) and males (88.2%). Using nonstandard interlandmark distances over more commonly used measurements leads to better ancestry estimates for our current population structure. PMID:27364267

  19. Translating Population Difference: The Use and Re-Use of Genetic Ancestry in Brazilian Cancer Genetics.

    Science.gov (United States)

    Gibbon, Sahra

    2016-01-01

    In the past ten years, there has been an expansion of scientific interest in population genetics linked to both understanding histories of human migration and the way that population difference and diversity may account for and/or be implicated in health and disease. In this article, I examine how particular aspects of a globalizing research agenda related to population differences and genetic ancestry are taken up in locally variant ways in the nascent field of Brazilian cancer genetics. Drawing on a broad range of ethnographic data from clinical and nonclinical contexts in the south of Brazil, I examine the ambiguities that attention to genetic ancestry generates, so revealing the disjunctured and diverse ways a global research agenda increasingly orientated to questions of population difference and genetic ancestry is being used and reused.

  20. Rapid phenotypic evolution during incipient speciation in a continental avian radiation.

    Science.gov (United States)

    Campagna, Leonardo; Benites, Pilar; Lougheed, Stephen C; Lijtmaer, Darío A; Di Giacomo, Adrián S; Eaton, Muir D; Tubaro, Pablo L

    2012-05-01

    Adaptive radiations have helped shape how we view animal speciation, particularly classic examples such as Darwin's finches, Hawaiian fruitflies and African Great Lakes cichlids. These 'island' radiations are comparatively recent, making them particularly interesting because the mechanisms that caused diversification are still in motion. Here, we identify a new case of a recent bird radiation within a continentally distributed species group; the capuchino seedeaters comprise 11 Sporophila species originally described on the basis of differences in plumage colour and pattern in adult males. We use molecular data together with analyses of male plumage and vocalizations to understand species limits of the group. We find marked phenotypic variation despite lack of mitochondrial DNA monophyly and few differences in other putatively neutral nuclear markers. This finding is consistent with the group having undergone a recent radiation beginning in the Pleistocene, leaving genetic signatures of incomplete lineage sorting, introgressive hybridization and demographic expansions. We argue that this apparent uncoupling between neutral DNA homogeneity and phenotypic diversity is expected for a recent group within the framework of coalescent theory. Finally, we discuss how the ecology of open habitats in South America during the Pleistocene could have helped promote this unique and ongoing radiation.

  1. Updated checklist of marine fishes (Chordata: Craniata from Portugal and the proposed extension of the Portuguese continental shelf

    Directory of Open Access Journals (Sweden)

    Miguel Carneiro

    2014-02-01

    Full Text Available The study of the Portuguese marine ichthyofauna has a long historical tradition, rooted back in the 18th Century. Here we present an annotated checklist of the marine fishes from Portuguese waters, including the area encompassed by the proposed extension of the Portuguese continental shelf and the Economic Exclusive Zone (EEZ. The list is based on historical literature records and taxon occurrence data obtained from natural history collections, together with new revisions and occurrences. It comprises a total of 1191 species, distributed among 3 superclasses, 4 classes, 42 orders, 212 families and 617 genera. If considering only the EEZ and present territorial waters, this list represents an increase of 230 species (27.8% and of 238 species (29.0%, when compared to the information available in FishBase (2012 and in the last checklist of marine and estuarine fishes of Portugal (1993, respectively. The order Perciformes shows the highest diversity, with 54 families, 162 genera and 299 species. Stomiidae (80 species, Myctophidae (71 species and Macrouridae (37 species are the richest families. From the listed species, 734 are present off mainland Portugal, 857 off the Azores and 766 off Madeira. Within the limits of the examined area, three species are reported for the first time in mainland Portugal and twenty-nine records are identified as doubtful. A total of 133 species have been recorded from the extended Portuguese continental shelf (2 off mainland Portugal, 117 off the Azores and 14 off Madeira, two of which are common to the Azores and Madeira extensions. Biogeographically, the Atlantic group is the most important (548 species – 46.01%, followed by the Lusitanian group (256 species – 21.49%, the African group (71 species – 5.96%, the Boreal group (34 species – 2.85%, the Mediterranean group (31 species – 2.60%, the Macaronesian group (21 species – 1.76%, the Atlantic/African group (19 species – 1.60% and the Mediterranean/African

  2. Current and future nitrous oxide emissions from African agriculture

    NARCIS (Netherlands)

    Hickman, J.E.; Havlikova, M.; Kroeze, C.; Palm, C.A.

    2011-01-01

    Most emission estimates of the greenhouse gas nitrous oxide (N2O) from African agriculture at a continental scale are based on emission factors, such as those developed by the IPCC Guidelines. Here we present estimates from Africa from the EDGAR database, which is derived from the IPCC emission fact

  3. Palaeomagnetism and the continental crust

    Energy Technology Data Exchange (ETDEWEB)

    Piper, J.D.A.

    1987-01-01

    This book is an introduction to palaeomagnetism offering treatment of theory and practice. It analyzes the palaeomagnetic record over the whole of geological time, from the Archaean to the Cenozoic, and goes on to examine the impact of past geometries and movements of the continental crust at each geological stage. Topics covered include theory of rock and mineral magnetism, field and laboratory methods, growth and consolidation of the continental crust in Archaean and Proterozoic times, Palaeozoic palaeomagnetism and the formation of Pangaea, the geomagnetic fields, continental movements, configurations and mantle convection.

  4. Genome-wide meta-analyses of smoking behaviors in African Americans.

    Science.gov (United States)

    David, S P; Hamidovic, A; Chen, G K; Bergen, A W; Wessel, J; Kasberger, J L; Brown, W M; Petruzella, S; Thacker, E L; Kim, Y; Nalls, M A; Tranah, G J; Sung, Y J; Ambrosone, C B; Arnett, D; Bandera, E V; Becker, D M; Becker, L; Berndt, S I; Bernstein, L; Blot, W J; Broeckel, U; Buxbaum, S G; Caporaso, N; Casey, G; Chanock, S J; Deming, S L; Diver, W R; Eaton, C B; Evans, D S; Evans, M K; Fornage, M; Franceschini, N; Harris, T B; Henderson, B E; Hernandez, D G; Hitsman, B; Hu, J J; Hunt, S C; Ingles, S A; John, E M; Kittles, R; Kolb, S; Kolonel, L N; Le Marchand, L; Liu, Y; Lohman, K K; McKnight, B; Millikan, R C; Murphy, A; Neslund-Dudas, C; Nyante, S; Press, M; Psaty, B M; Rao, D C; Redline, S; Rodriguez-Gil, J L; Rybicki, B A; Signorello, L B; Singleton, A B; Smoller, J; Snively, B; Spring, B; Stanford, J L; Strom, S S; Swan, G E; Taylor, K D; Thun, M J; Wilson, A F; Witte, J S; Yamamura, Y; Yanek, L R; Yu, K; Zheng, W; Ziegler, R G; Zonderman, A B; Jorgenson, E; Haiman, C A; Furberg, H

    2012-05-22

    The identification and exploration of genetic loci that influence smoking behaviors have been conducted primarily in populations of the European ancestry. Here we report results of the first genome-wide association study meta-analysis of smoking behavior in African Americans in the Study of Tobacco in Minority Populations Genetics Consortium (n = 32,389). We identified one non-coding single-nucleotide polymorphism (SNP; rs2036527[A]) on chromosome 15q25.1 associated with smoking quantity (cigarettes per day), which exceeded genome-wide significance (β = 0.040, s.e. = 0.007, P = 1.84 × 10(-8)). This variant is present in the 5'-distal enhancer region of the CHRNA5 gene and defines the primary index signal reported in studies of the European ancestry. No other SNP reached genome-wide significance for smoking initiation (SI, ever vs never smoking), age of SI, or smoking cessation (SC, former vs current smoking). Informative associations that approached genome-wide significance included three modestly correlated variants, at 15q25.1 within PSMA4, CHRNA5 and CHRNA3 for smoking quantity, which are associated with a second signal previously reported in studies in European ancestry populations, and a signal represented by three SNPs in the SPOCK2 gene on chr10q22.1. The association at 15q25.1 confirms this region as an important susceptibility locus for smoking quantity in men and women of African ancestry. Larger studies will be needed to validate the suggestive loci that did not reach genome-wide significance and further elucidate the contribution of genetic variation to disparities in cigarette consumption, SC and smoking-attributable disease between African Americans and European Americans.

  5. Dynamics of continental accretion.

    Science.gov (United States)

    Moresi, L; Betts, P G; Miller, M S; Cayley, R A

    2014-04-10

    Subduction zones become congested when they try to consume buoyant, exotic crust. The accretionary mountain belts (orogens) that form at these convergent plate margins have been the principal sites of lateral continental growth through Earth's history. Modern examples of accretionary margins are the North American Cordilleras and southwest Pacific subduction zones. The geologic record contains abundant accretionary orogens, such as the Tasmanides, along the eastern margin of the supercontinent Gondwana, and the Altaïdes, which formed on the southern margin of Laurasia. In modern and ancient examples of long-lived accretionary orogens, the overriding plate is subjected to episodes of crustal extension and back-arc basin development, often related to subduction rollback and transient episodes of orogenesis and crustal shortening, coincident with accretion of exotic crust. Here we present three-dimensional dynamic models that show how accretionary margins evolve from the initial collision, through a period of plate margin instability, to re-establishment of a stable convergent margin. The models illustrate how significant curvature of the orogenic system develops, as well as the mechanism for tectonic escape of the back-arc region. The complexity of the morphology and the evolution of the system are caused by lateral rollback of a tightly arcuate trench migrating parallel to the plate boundary and orthogonally to the convergence direction. We find geological and geophysical evidence for this process in the Tasmanides of eastern Australia, and infer that this is a recurrent and global phenomenon. PMID:24670638

  6. Diversity among African pygmies.

    Science.gov (United States)

    Ramírez Rozzi, Fernando V; Sardi, Marina L

    2010-01-01

    Although dissimilarities in cranial and post-cranial morphology among African pygmies groups have been recognized, comparative studies on skull morphology usually pull all pygmies together assuming that morphological characters are similar among them and different with respect to other populations. The main aim of this study is to compare cranial morphology between African pygmies and non-pygmies populations from Equatorial Africa derived from both the Eastern and the Western regions in order to test if the greatest morphological difference is obtained in the comparison between pygmies and non-pygmies. Thirty three-dimensional (3D) landmarks registered with Microscribe in four cranial samples (Western and Eastern pygmies and non-pygmies) were obtained. Multivariate analysis (generalized Procrustes analysis, Mahalanobis distances, multivariate regression) and complementary dimensions of size were evaluated with ANOVA and post hoc LSD. Results suggest that important cranial shape differentiation does occur between pygmies and non-pygmies but also between Eastern and Western populations and that size changes and allometries do not affect similarly Eastern and Western pygmies. Therefore, our findings raise serious doubt about the fact to consider African pygmies as a homogenous group in studies on skull morphology. Differences in cranial morphology among pygmies would suggest differentiation after divergence. Although not directly related to skull differentiation, the diversity among pygmies would probably suggest that the process responsible for reduced stature occurred after the split of the ancestors of modern Eastern and Western pygmies.

  7. Diversity among African pygmies.

    Directory of Open Access Journals (Sweden)

    Fernando V Ramírez Rozzi

    Full Text Available Although dissimilarities in cranial and post-cranial morphology among African pygmies groups have been recognized, comparative studies on skull morphology usually pull all pygmies together assuming that morphological characters are similar among them and different with respect to other populations. The main aim of this study is to compare cranial morphology between African pygmies and non-pygmies populations from Equatorial Africa derived from both the Eastern and the Western regions in order to test if the greatest morphological difference is obtained in the comparison between pygmies and non-pygmies. Thirty three-dimensional (3D landmarks registered with Microscribe in four cranial samples (Western and Eastern pygmies and non-pygmies were obtained. Multivariate analysis (generalized Procrustes analysis, Mahalanobis distances, multivariate regression and complementary dimensions of size were evaluated with ANOVA and post hoc LSD. Results suggest that important cranial shape differentiation does occur between pygmies and non-pygmies but also between Eastern and Western populations and that size changes and allometries do not affect similarly Eastern and Western pygmies. Therefore, our findings raise serious doubt about the fact to consider African pygmies as a homogenous group in studies on skull morphology. Differences in cranial morphology among pygmies would suggest differentiation after divergence. Although not directly related to skull differentiation, the diversity among pygmies would probably suggest that the process responsible for reduced stature occurred after the split of the ancestors of modern Eastern and Western pygmies.

  8. Obesity and African Americans

    Science.gov (United States)

    ... Data > Minority Population Profiles > Black/African American > Obesity Obesity and African Americans African American women have the ... ss6304.pdf [PDF | 3.38MB] HEALTH IMPACT OF OBESITY More than 80 percent of people with type ...

  9. Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence.

    Science.gov (United States)

    Morton, Elise R; Lynch, Joshua; Froment, Alain; Lafosse, Sophie; Heyer, Evelyne; Przeworski, Molly; Blekhman, Ran; Ségurel, Laure

    2015-11-01

    The human gut microbiota is impacted by host nutrition and health status and therefore represents a potentially adaptive phenotype influenced by metabolic and immune constraints. Previous studies contrasting rural populations in developing countries to urban industrialized ones have shown that industrialization is strongly correlated with patterns in human gut microbiota; however, we know little about the relative contribution of factors such as climate, diet, medicine, hygiene practices, host genetics, and parasitism. Here, we focus on fine-scale comparisons of African rural populations in order to (i) contrast the gut microbiota of populations inhabiting similar environments but having different traditional subsistence modes and either shared or distinct genetic ancestry, and (ii) examine the relationship between gut parasites and bacterial communities. Characterizing the fecal microbiota of Pygmy hunter-gatherers as well as Bantu individuals from both farming and fishing populations in Southwest Cameroon, we found that the gut parasite Entamoeba is significantly correlated with microbiome composition and diversity. We show that across populations, colonization by this protozoa can be predicted with 79% accuracy based on the composition of an individual's gut microbiota, and that several of the taxa most important for distinguishing Entamoeba absence or presence are signature taxa for autoimmune disorders. We also found gut communities to vary significantly with subsistence mode, notably with some taxa previously shown to be enriched in other hunter-gatherers groups (in Tanzania and Peru) also discriminating hunter-gatherers from neighboring farming or fishing populations in Cameroon. PMID:26619199

  10. Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence.

    Directory of Open Access Journals (Sweden)

    Elise R Morton

    2015-11-01

    Full Text Available The human gut microbiota is impacted by host nutrition and health status and therefore represents a potentially adaptive phenotype influenced by metabolic and immune constraints. Previous studies contrasting rural populations in developing countries to urban industrialized ones have shown that industrialization is strongly correlated with patterns in human gut microbiota; however, we know little about the relative contribution of factors such as climate, diet, medicine, hygiene practices, host genetics, and parasitism. Here, we focus on fine-scale comparisons of African rural populations in order to (i contrast the gut microbiota of populations inhabiting similar environments but having different traditional subsistence modes and either shared or distinct genetic ancestry, and (ii examine the relationship between gut parasites and bacterial communities. Characterizing the fecal microbiota of Pygmy hunter-gatherers as well as Bantu individuals from both farming and fishing populations in Southwest Cameroon, we found that the gut parasite Entamoeba is significantly correlated with microbiome composition and diversity. We show that across populations, colonization by this protozoa can be predicted with 79% accuracy based on the composition of an individual's gut microbiota, and that several of the taxa most important for distinguishing Entamoeba absence or presence are signature taxa for autoimmune disorders. We also found gut communities to vary significantly with subsistence mode, notably with some taxa previously shown to be enriched in other hunter-gatherers groups (in Tanzania and Peru also discriminating hunter-gatherers from neighboring farming or fishing populations in Cameroon.

  11. Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence.

    Science.gov (United States)

    Morton, Elise R; Lynch, Joshua; Froment, Alain; Lafosse, Sophie; Heyer, Evelyne; Przeworski, Molly; Blekhman, Ran; Ségurel, Laure

    2015-11-01

    The human gut microbiota is impacted by host nutrition and health status and therefore represents a potentially adaptive phenotype influenced by metabolic and immune constraints. Previous studies contrasting rural populations in developing countries to urban industrialized ones have shown that industrialization is strongly correlated with patterns in human gut microbiota; however, we know little about the relative contribution of factors such as climate, diet, medicine, hygiene practices, host genetics, and parasitism. Here, we focus on fine-scale comparisons of African rural populations in order to (i) contrast the gut microbiota of populations inhabiting similar environments but having different traditional subsistence modes and either shared or distinct genetic ancestry, and (ii) examine the relationship between gut parasites and bacterial communities. Characterizing the fecal microbiota of Pygmy hunter-gatherers as well as Bantu individuals from both farming and fishing populations in Southwest Cameroon, we found that the gut parasite Entamoeba is significantly correlated with microbiome composition and diversity. We show that across populations, colonization by this protozoa can be predicted with 79% accuracy based on the composition of an individual's gut microbiota, and that several of the taxa most important for distinguishing Entamoeba absence or presence are signature taxa for autoimmune disorders. We also found gut communities to vary significantly with subsistence mode, notably with some taxa previously shown to be enriched in other hunter-gatherers groups (in Tanzania and Peru) also discriminating hunter-gatherers from neighboring farming or fishing populations in Cameroon.

  12. Continental United States Hurricane Strikes

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The Continental U.S. Hurricane Strikes Poster is our most popular poster which is updated annually. The poster includes all hurricanes that affected the U.S. since...

  13. Deciphering and dating the red panda's ancestry and early adaptive radiation of Musteloidea.

    Science.gov (United States)

    Sato, Jun J; Wolsan, Mieczyslaw; Minami, Shinji; Hosoda, Tetsuji; Sinaga, Martua H; Hiyama, Kozue; Yamaguchi, Yasunori; Suzuki, Hitoshi

    2009-12-01

    Few species have been of more disputed affinities than the red or lesser panda (Ailurus fulgens), an endangered endemic Southeast Asian vegetarian member of the placental mammalian order Carnivora. This peculiar carnivoran has mostly been classified with raccoons (Procyonidae) or bears (Ursidae), grouped with the giant panda (Ailuropoda melanoleuca) in their own family, or considered a separate lineage of equivocal ancestry. Recent molecular studies have indicated a close affinity of the red panda to a clade of procyonids and mustelids (weasels, otters, martens, badgers, and allies), but have failed to unambiguously resolve the position of this species relative to mephitids (skunks and stink badgers). We examined the relationship of the red panda to other extant species of the carnivoran suborder Caniformia using a set of concatenated approximately 5.5-kb sequences from protein-coding exons of five nuclear genes. Bayesian, maximum likelihood, and parsimony phylogenetic analyses strongly supported the red panda as the closest living relative of a clade containing Procyonidae and Mustelidae to the exclusion of Mephitidae. These three families together with the red panda (which is classified here as a single extant species of a distinct family, Ailuridae) compose the superfamily Musteloidea, a clade strongly supported by all our phylogenetic analyses as sister to the monophyletic Pinnipedia (seals, sea lions, walruses). The approximately unbiased, Kishino-Hasegawa, and Templeton topology tests rejected (Pfossil evidence that extends the early adaptive radiation of the total clade of musteloids to the Eocene-Oligocene transition and also suggests Asia as a center of this radiation. PMID:19699810

  14. Empirical Selection of Informative Microsatellite Markers within Co-ancestry Pig Populations Is Required for Improving the Individual Assignment Efficiency.

    Science.gov (United States)

    Li, Y H; Chu, H P; Jiang, Y N; Lin, C Y; Li, S H; Li, K T; Weng, G J; Cheng, C C; Lu, D J; Ju, Y T

    2014-05-01

    discernible levels of co-ancestry exist. In the reference group, optimum assignment accuracy was achievable achieved through a combination of different markers by ranking the heterozygosity, FST and allelic number of close lineage populations.

  15. -induced continental warming

    Science.gov (United States)

    Kamae, Youichi; Watanabe, Masahiro; Kimoto, Masahide; Shiogama, Hideo

    2014-11-01

    In this the second of a two-part study, we examine the physical mechanisms responsible for the increasing contrast of the land-sea surface air temperature (SAT) in summertime over the Far East, as observed in recent decades and revealed in future climate projections obtained from a series of transient warming and sensitivity experiments conducted under the umbrella of the Coupled Model Intercomparison Project phase 5. On a global perspective, a strengthening of land-sea SAT contrast in the transient warming simulations of coupled atmosphere-ocean general circulation models is attributed to an increase in sea surface temperature (SST). However, in boreal summer, the strengthened contrast over the Far East is reproduced only by increasing atmospheric CO2 concentration. In response to SST increase alone, the tropospheric warming over the interior of the mid- to high-latitude continents including Eurasia are weaker than those over the surrounding oceans, leading to a weakening of the land-sea SAT contrast over the Far East. Thus, the increasing contrast and associated change in atmospheric circulation over East Asia is explained by CO2-induced continental warming. The degree of strengthening of the land-sea SAT contrast varies in different transient warming scenarios, but is reproduced through a combination of the CO2-induced positive and SST-induced negative contributions to the land-sea contrast. These results imply that changes of climate patterns over the land-ocean boundary regions are sensitive to future scenarios of CO2 concentration pathways including extreme cases.

  16. Oral Cancer in African Americans: Addressing Health Disparities

    Science.gov (United States)

    Dodd, Virginia J.; Watson, Jennifer M.; Choi, Youjin; Tomar, Scott L.; Logan, Henrietta L.

    2008-01-01

    Objectives: To explore factors underlying African Americans' perceptions of oral cancer and the oral cancer exam. Study findings were used to guide development of oral cancer messages designed to increase oral cancer exams among African Americans. Methods: Focus groups were conducted to understand African Americans' attitudes and expectations…

  17. Two ancient human genomes reveal Polynesian ancestry among the indigenous Botocudos of Brazil

    DEFF Research Database (Denmark)

    Malaspinas, Anna-Sapfo; Lao, Oscar; Schroeder, Hannes;

    2014-01-01

    find that their genomic ancestry is Polynesian, with no detectable Native American component. Radiocarbon analysis of the skulls shows that the individuals had died prior to the beginning of the 19th century. Our findings could either represent genomic evidence of Polynesians reaching South America...

  18. Prospective associations of coronary heart disease loci in African Americans using the MetaboChip: the PAGE study.

    Directory of Open Access Journals (Sweden)

    Nora Franceschini

    Full Text Available Coronary heart disease (CHD is a leading cause of morbidity and mortality in African Americans. However, there is a paucity of studies assessing genetic determinants of CHD in African Americans. We examined the association of published variants in CHD loci with incident CHD, attempted to fine map these loci, and characterize novel variants influencing CHD risk in African Americans.Up to 8,201 African Americans (including 546 first CHD events were genotyped using the MetaboChip array in the Atherosclerosis Risk in Communities (ARIC study and Women's Health Initiative (WHI. We tested associations using Cox proportional hazard models in sex- and study-stratified analyses and combined results using meta-analysis. Among 44 validated CHD loci available in the array, we replicated and fine-mapped the SORT1 locus, and showed same direction of effects as reported in studies of individuals of European ancestry for SNPs in 22 additional published loci. We also identified a SNP achieving array wide significance (MYC: rs2070583, allele frequency 0.02, P = 8.1 × 10(-8, but the association did not replicate in an additional 8,059 African Americans (577 events from the WHI, HealthABC and GeneSTAR studies, and in a meta-analysis of 5 cohort studies of European ancestry (24,024 individuals including 1,570 cases of MI and 2,406 cases of CHD from the CHARGE Consortium.Our findings suggest that some CHD loci previously identified in individuals of European ancestry may be relevant to incident CHD in African Americans.

  19. Genome-wide association studies of the PR interval in African Americans.

    Directory of Open Access Journals (Sweden)

    J Gustav Smith

    Full Text Available The PR interval on the electrocardiogram reflects atrial and atrioventricular nodal conduction time. The PR interval is heritable, provides important information about arrhythmia risk, and has been suggested to differ among human races. Genome-wide association (GWA studies have identified common genetic determinants of the PR interval in individuals of European and Asian ancestry, but there is a general paucity of GWA studies in individuals of African ancestry. We performed GWA studies in African American individuals from four cohorts (n = 6,247 to identify genetic variants associated with PR interval duration. Genotyping was performed using the Affymetrix 6.0 microarray. Imputation was performed for 2.8 million single nucleotide polymorphisms (SNPs using combined YRI and CEU HapMap phase II panels. We observed a strong signal (rs3922844 within the gene encoding the cardiac sodium channel (SCN5A with genome-wide significant association (p<2.5 x 10⁻⁸ in two of the four cohorts and in the meta-analysis. The signal explained 2% of PR interval variability in African Americans (beta  = 5.1 msec per minor allele, 95% CI  = 4.1-6.1, p = 3 x 10⁻²³. This SNP was also associated with PR interval (beta = 2.4 msec per minor allele, 95% CI = 1.8-3.0, p = 3 x 10⁻¹⁶ in individuals of European ancestry (n = 14,042, but with a smaller effect size (p for heterogeneity <0.001 and variability explained (0.5%. Further meta-analysis of the four cohorts identified genome-wide significant associations with SNPs in SCN10A (rs6798015, MEIS1 (rs10865355, and TBX5 (rs7312625 that were highly correlated with SNPs identified in European and Asian GWA studies. African ancestry was associated with increased PR duration (13.3 msec, p = 0.009 in one but not the other three cohorts. Our findings demonstrate the relevance of common variants to African Americans at four loci previously associated with PR interval in European and

  20. Grupo operativo como estratégia pedagógica em um curso graduação em enfermagem: um continente para as vivências dos alunos quartanistas Grupo operativo como estrategia pedagógica en un curso de graduación en enfermería: un continente para las vivencias de los alumnos del cuarto ano Operative group as a pedagogical strategy in a nursing graduation course: a continent for the fourth-year students' experiences

    Directory of Open Access Journals (Sweden)

    Roselma Lucchese

    2002-03-01

    Full Text Available Este estudo teve como objetivo oferecer um espaço para a expressão vivencial do aluno de quarto ano de graduação em enfermagem. Espaço operacionalizado por meio da técnica de grupo operativo, no qual os sujeitos do estudo, centrados na tarefa trocaram experiências e avaliaram sua participação nos grupos. Para compreender o vivencial dos alunos optou-se pela pesquisa qualitativa, utilizando-se como método a pesquisa-ação. A problemática do estudo envolveu o conceito de que a aprendizagem é um processo de socialização que requer mudanças, sendo mobilizadora de sentimentos do aprendiz. O grupo operativo funcionou como espaço continente das vivências dos alunos que explicitaram sentimentos mobilizados em seu processo de formação, impossíveis de serem ignorados pelo educador em enfermagem.Eate estudio tuvo como obetivo ofrecer un espacio para la expresión vivencial del alumno de cuarto año de la graduación en enfermería. Espacio operacionalizado por medio de la técnica de grupo operativo, en el cual los sujetos el estudio, centrados en la tares, intercambiaron experiencias y evaluaron su participación en los grupos. Para comprender el vivencial de los alumnos fue elegida la pesquisa cualitativa, utilizándose como método la pesquisa-acción. La problemática del estudio implicó el concepto de que el aprendizaje es un proceso de socialización que requiere cambios, siendo capaz de mobilizar los sentimientos del aprendiz. El grupo operativo funcionó como um continente de las vivencias de los alumnos que explicitaron sentimientos estos conocidos por el educador en enfermería.The objetive of this study is to offer a space for the fourth-year students of the nursing school to express their experiences. A space was put in operation by the use of an operative group technique, and the subjects of the study,. centered in the task, exchange experiences and evaluate their participation in the groups. To understand the students

  1. Bioenergetics of Continental Serpentinites

    Science.gov (United States)

    Cardace, D.; Meyer-Dombard, D. R.

    2011-12-01

    Serpentinization is the aqueous alteration of ultramafic (Fe- and Mg-rich) rocks, resulting in secondary mineral assemblages of serpentine, brucite, iron oxyhydroxides and magnetite, talc, and possibly carbonate and silica-rich veins and other minor phases-all depending on the evolving pressure-temperature-composition of the system. The abiotic evolution of hydrogen and possibly organic compounds via serpentinization (McCollom and Bach, 2009) highlights the relevance of this geologic process to carbon and energy sources for the deep biosphere. Serpentinization may fuel life over long stretches of geologic time, throughout the global seabed and in exposed, faulted peridotite blocks (as at Lost City Hydrothermal Field, Kelley et al., 2005), and in obducted oceanic mantle units in ophiolites (e.g., Tiago et al., 2004). Relatively little work has been published on life in continental serpentinite settings, though they likely host a unique resident microbiota. In this work, we systematically model the serpentinizing fluid as an environmental niche. Reported field data for high and moderate pH serpentinizing fluids were modeled from Cyprus, the Philippines, Oman, Northern California, New Caledonia, Yugoslavia, Portugal, Italy, Newfoundland Canada, New Zealand, and Turkey. Values for Gibbs Energy of reaction (ΔGr), kJ per mole of electrons transferred for a given metabolism, are calculated for each field site. Cases are considered both for (1) modest assumptions of 1 nanomolar hydrogen and 1 micromolar methane, based on unpublished data for a similar northern California field site (Cardace and Hoehler, in prep.) and (2) an upper estimate of 10 nanomolar hydrogen and 500 micromolar methane. We survey the feasibility of microbial metabolisms for key steps in the nitrogen cycle, oxidation of sulfur in pyrite, iron oxidation or reduction reactions, sulfate reduction coupled to hydrogen or methane oxidation, methane oxidation coupled to the reduction of oxygen, and

  2. African diatom palaeoecology and biostratigraphy

    Science.gov (United States)

    Gasse, F.; Fourtanier, E.

    This paper illustrates the different types of information which can be deduced from African diatoms studies. The first section is devoted to the reconstruction of palaeoenvironments. The accuracy of ecological data (estimates of ecological variables e.g. types of habitats, water chemistry…) depends on the times scale and on the spatial scale considered: short-term environments in a given waterbody, environmental evolution during individual humid episodes considered locally or regionally, long-term changes in diatom flora induced by major climatic tendencies at a regional or continental scale. One then summarizes our present state of knowledge in diatom biostratigraphy in Africa. Several centric taxa, belonging to the genera Aulacoseira, Mesodictyon, Cyclotella, Stephanodiscus and Cyclostephanos appear to have limited stratigraphical ranges and to be good chronological markers.

  3. Highly discrepant proportions of female and male Scandinavian and British Isles ancestry within the isolated population of the Faroe Islands

    DEFF Research Database (Denmark)

    Als, Thomas D; Jorgensen, Tove H; Børglum, Anders D;

    2006-01-01

    a frequency-based admixture approach taking private haplotypes into account by the use of phylogenetic information. While previous studies have suggested an excess of Scandinavian ancestry among the male settlers of the Faroe Islands, the current study indicates an excess of British Isles ancestry among...... the female settlers of the Faroe Islands. Compared to other admixed populations of the North Atlantic region, the population of the Faroe Islands appears to have the highest level of asymmetry in Scandinavian vs British Isles ancestry proportions among female and male settlers of the archipelago....

  4. Developing Programmes to Promote Participation in Sport among Adolescents with Disabilities: Perceptions Expressed by a Group of South African Adolescents with Cerebral Palsy

    Science.gov (United States)

    Bantjes, Jason; Swartz, Leslie; Conchar, Lauren; Derman, Wayne

    2015-01-01

    Adolescents with disabilities in developing countries frequently have limited access to sporting opportunities and comparatively little is known of their lived experiences and preferences. We set out to understand what a group of adolescents with cerebral palsy (CP) living in South Africa perceive to be important components of programmes developed…

  5. Association and ancestry analysis of sequence variants in ADH and ALDH using alcohol-related phenotypes in a Native American community sample.

    Science.gov (United States)

    Peng, Qian; Gizer, Ian R; Libiger, Ondrej; Bizon, Chris; Wilhelmsen, Kirk C; Schork, Nicholas J; Ehlers, Cindy L

    2014-12-01

    Higher rates of alcohol use and other drug-dependence have been observed in some Native American (NA) populations relative to other ethnic groups in the US. Previous studies have shown that alcohol dehydrogenase (ADH) genes and aldehyde dehydrogenase (ALDH) genes may affect the risk of development of alcohol dependence, and that polymorphisms within these genes may differentially affect risk for the disorder depending on the ethnic group evaluated. We evaluated variations in the ADH and ALDH genes in a large study investigating risk factors for substance use in a NA population. We assessed ancestry admixture and tested for associations between alcohol-related phenotypes in the genomic regions around the ADH1-7 and ALDH2 and ALDH1A1 genes. Seventy-two ADH variants showed significant evidence of association with a severity level of alcohol drinking-related dependence symptoms phenotype. These significant variants spanned across the entire 7 ADH gene cluster regions. Two significant associations, one in ADH and one in ALDH2, were observed with alcohol dependence diagnosis. Seventeen variants showed significant association with the largest number of alcohol drinks ingested during any 24-hour period. Variants in or near ADH7 were significantly negatively associated with alcohol-related phenotypes, suggesting a potential protective effect of this gene. In addition, our results suggested that a higher degree of NA ancestry is associated with higher frequencies of potential risk variants and lower frequencies of potential protective variants for alcohol dependence phenotypes.

  6. Human cranial vault thickness in a contemporary sample of 1097 autopsy cases: relation to body weight, stature, age, sex and ancestry.

    Science.gov (United States)

    De Boer, H H Hans; Van der Merwe, A E Lida; Soerdjbalie-Maikoe, V Vidija

    2016-09-01

    The relation between human cranial vault thickness (CVT) and various elements of the physical anthropological biological profile is subject of ongoing discussion. Some results seem to indicate no correlation between CVT and the biological profile of the individual, whereas other results suggest that CVT measurements might be useful for identification purposes. This study assesses the correlation between CVT and body weight, stature, age, sex, and ancestry by reviewing data of 1097 forensic autopsies performed at the Netherlands Forensic Institute (NFI). In subadults (younger than 19 years of age at the time of death), all frontal, temporal, and occipital CVT measurements correlated moderately to strongly with indicators of growth (body weight, stature, and age). Neither sex nor ancestry correlated significantly with cranial thickness. In adults, body weight correlated with all CVT measurements. No meaningful correlation was found between CVT and stature or age. Females showed to have thicker frontal bones, and the occipital region was thicker in the Negroid subsample. All correlation in the adult group was weak, with the distribution of cranial thickness overlapping for a great deal between the groups. Based on these results, it was concluded that CVT generally cannot be used as an indicator for any part of the biological profile.

  7. Human cranial vault thickness in a contemporary sample of 1097 autopsy cases: relation to body weight, stature, age, sex and ancestry.

    Science.gov (United States)

    De Boer, H H Hans; Van der Merwe, A E Lida; Soerdjbalie-Maikoe, V Vidija

    2016-09-01

    The relation between human cranial vault thickness (CVT) and various elements of the physical anthropological biological profile is subject of ongoing discussion. Some results seem to indicate no correlation between CVT and the biological profile of the individual, whereas other results suggest that CVT measurements might be useful for identification purposes. This study assesses the correlation between CVT and body weight, stature, age, sex, and ancestry by reviewing data of 1097 forensic autopsies performed at the Netherlands Forensic Institute (NFI). In subadults (younger than 19 years of age at the time of death), all frontal, temporal, and occipital CVT measurements correlated moderately to strongly with indicators of growth (body weight, stature, and age). Neither sex nor ancestry correlated significantly with cranial thickness. In adults, body weight correlated with all CVT measurements. No meaningful correlation was found between CVT and stature or age. Females showed to have thicker frontal bones, and the occipital region was thicker in the Negroid subsample. All correlation in the adult group was weak, with the distribution of cranial thickness overlapping for a great deal between the groups. Based on these results, it was concluded that CVT generally cannot be used as an indicator for any part of the biological profile. PMID:26914798

  8. Crossing Cultures in Marriage: Implications for Counseling African American/African Couples

    Science.gov (United States)

    Durodoye, Beth A.; Coker, Angela D.

    2008-01-01

    A wealth of literature exists regarding intermarriage between White and ethnic minority couples. Noticeably lacking, however, is information considering within-group diversity amongst Black couples. This paper will focus on cultural dynamics that may operate with African American and African couples residing in the United States. Through an…

  9. Ancestry and diversity of the HMG box superfamily

    OpenAIRE

    Laudet, V; Stehelin, D.; Clevers, J.C.

    1993-01-01

    The HMG box is a novel type of DNA-binding domain found in a diverse group of proteins. The HMG box superfamily comprises a.o. the High Mobility Group proteins HMG1 and HMG2, the nucleolar transcription factor UBF, the lymphoid transcription factors TCF-1 and LEF-1, the fungal mating-type genes mat-Mc and MATA1, and the mammalian sex-determining gene SRY. The superfamily dates back to at least 1,000 million years ago, as its members appear in animals, plants and yeast. Alignment of all known ...

  10. 77 FR 64826 - Notice on Outer Continental Shelf Oil and Gas Lease Sales

    Science.gov (United States)

    2012-10-23

    ... From the Federal Register Online via the Government Publishing Office ] DEPARTMENT OF THE INTERIOR Bureau of Ocean Energy Management (BOEM) Notice on Outer Continental Shelf Oil and Gas Lease Sales AGENCY... with any entity in any of the other following groups at Outer Continental Shelf oil and gas lease...

  11. 75 FR 24966 - Notice on Outer Continental Shelf Oil and Gas Lease Sales

    Science.gov (United States)

    2010-05-06

    ... From the Federal Register Online via the Government Publishing Office DEPARTMENT OF THE INTERIOR Minerals Management Service Notice on Outer Continental Shelf Oil and Gas Lease Sales AGENCY: Minerals... in any other of the following groups at Outer Continental Shelf oil and gas lease sales to be...

  12. Admixture mapping of 15,280 African Americans identifies obesity susceptibility loci on chromosomes 5 and X.

    Directory of Open Access Journals (Sweden)

    Ching-Yu Cheng

    2009-05-01

    Full Text Available The prevalence of obesity (body mass index (BMI > or =30 kg/m(2 is higher in African Americans than in European Americans, even after adjustment for socioeconomic factors, suggesting that genetic factors may explain some of the difference. To identify genetic loci influencing BMI, we carried out a pooled analysis of genome-wide admixture mapping scans in 15,280 African Americans from 14 epidemiologic studies. Samples were genotyped at a median of 1,411 ancestry-informative markers. After adjusting for age, sex, and study, BMI was analyzed both as a dichotomized (top 20% versus bottom 20% and a continuous trait. We found that a higher percentage of European ancestry was significantly correlated with lower BMI (rho = -0.042, P = 1.6x10(-7. In the dichotomized analysis, we detected two loci on chromosome X as associated with increased African ancestry: the first at Xq25 (locus-specific LOD = 5.94; genome-wide score = 3.22; case-control Z = -3.94; and the second at Xq13.1 (locus-specific LOD = 2.22; case-control Z = -4.62. Quantitative analysis identified a third locus at 5q13.3 where higher BMI was highly significantly associated with greater European ancestry (locus-specific LOD = 6.27; genome-wide score = 3.46. Further mapping studies with dense sets of markers will be necessary to identify the alleles in these regions of chromosomes X and 5 that may be associated with variation in BMI.

  13. Admixture mapping of 15,280 African Americans identifies obesity susceptibility loci on chromosomes 5 and X.

    Science.gov (United States)

    Cheng, Ching-Yu; Kao, W H Linda; Patterson, Nick; Tandon, Arti; Haiman, Christopher A; Harris, Tamara B; Xing, Chao; John, Esther M; Ambrosone, Christine B; Brancati, Frederick L; Coresh, Josef; Press, Michael F; Parekh, Rulan S; Klag, Michael J; Meoni, Lucy A; Hsueh, Wen-Chi; Fejerman, Laura; Pawlikowska, Ludmila; Freedman, Matthew L; Jandorf, Lina H; Bandera, Elisa V; Ciupak, Gregory L; Nalls, Michael A; Akylbekova, Ermeg L; Orwoll, Eric S; Leak, Tennille S; Miljkovic, Iva; Li, Rongling; Ursin, Giske; Bernstein, Leslie; Ardlie, Kristin; Taylor, Herman A; Boerwinckle, Eric; Zmuda, Joseph M; Henderson, Brian E; Wilson, James G; Reich, David

    2009-05-01

    The prevalence of obesity (body mass index (BMI) > or =30 kg/m(2)) is higher in African Americans than in European Americans, even after adjustment for socioeconomic factors, suggesting that genetic factors may explain some of the difference. To identify genetic loci influencing BMI, we carried out a pooled analysis of genome-wide admixture mapping scans in 15,280 African Americans from 14 epidemiologic studies. Samples were genotyped at a median of 1,411 ancestry-informative markers. After adjusting for age, sex, and study, BMI was analyzed both as a dichotomized (top 20% versus bottom 20%) and a continuous trait. We found that a higher percentage of European ancestry was significantly correlated with lower BMI (rho = -0.042, P = 1.6x10(-7)). In the dichotomized analysis, we detected two loci on chromosome X as associated with increased African ancestry: the first at Xq25 (locus-specific LOD = 5.94; genome-wide score = 3.22; case-control Z = -3.94); and the second at Xq13.1 (locus-specific LOD = 2.22; case-control Z = -4.62). Quantitative analysis identified a third locus at 5q13.3 where higher BMI was highly significantly associated with greater European ancestry (locus-specific LOD = 6.27; genome-wide score = 3.46). Further mapping studies with dense sets of markers will be necessary to identify the alleles in these regions of chromosomes X and 5 that may be associated with variation in BMI.

  14. Enhanced statistical tests for GWAS in admixed populations: assessment using African Americans from CARe and a Breast Cancer Consortium.

    Directory of Open Access Journals (Sweden)

    Bogdan Pasaniuc

    2011-04-01

    Full Text Available While genome-wide association studies (GWAS have primarily examined populations of European ancestry, more recent studies often involve additional populations, including admixed populations such as African Americans and Latinos. In admixed populations, linkage disequilibrium (LD exists both at a fine scale in ancestral populations and at a coarse scale (admixture-LD due to chromosomal segments of distinct ancestry. Disease association statistics in admixed populations have previously considered SNP association (LD mapping or admixture association (mapping by admixture-LD, but not both. Here, we introduce a new statistical framework for combining SNP and admixture association in case-control studies, as well as methods for local ancestry-aware imputation. We illustrate the gain in statistical power achieved by these methods by analyzing data of 6,209 unrelated African Americans from the CARe project genotyped on the Affymetrix 6.0 chip, in conjunction with both simulated and real phenotypes, as well as by analyzing the FGFR2 locus using breast cancer GWAS data from 5,761 African-American women. We show that, at typed SNPs, our method yields an 8% increase in statistical power for finding disease risk loci compared to the power achieved by standard methods in case-control studies. At imputed SNPs, we observe an 11% increase in statistical power for mapping disease loci when our local ancestry-aware imputation framework and the new scoring statistic are jointly employed. Finally, we show that our method increases statistical power in regions harboring the causal SNP in the case when the causal SNP is untyped and cannot be imputed. Our methods and our publicly available software are broadly applicable to GWAS in admixed populations.

  15. The continental free trade area

    DEFF Research Database (Denmark)

    Sandrey, Ron; Jensen, Hans Grinsted

    The Trade Law Centre (tralac) has recently capitalised upon the prerelease Version 9.2 of the Global Trade Analysis Project (GTAP) database and the recent excellent data sets from the World Bank and other publishing quality data on trade barriers across the African continent. It undertook a series...... of simulations examining regional integration and intra-African trade barrier reductions. The results for tariff elimination on intra-African trade are promising. But the real news is in confirming that these barriers are not as significant as the various trade-related barriers except for tariffs. Especially...... outcome from all three are likely to be cumulative and generate very large gains to Africa. The overall results from especially time-in-transit costs support the current emphasis on projects such as the World Trade Organisation (WTO) infrastructural supports to Africa. In addition, the World Bank...

  16. Heart Disease and African Americans

    Science.gov (United States)

    ... Minority Population Profiles > Black/African American > Heart Disease Heart Disease and African Americans Although African American adults are ... were 30 percent more likely to die from heart disease than non-Hispanic whites. African American women are ...

  17. Clines of nuclear DNA markers suggest a largely Neolithic ancestry of the European gene pool

    OpenAIRE

    Chikhi, Lounès; Destro-Bisol, Giovanni; Bertorelle, Giorgio; Pascali, Vincenzo; Barbujani, Guido

    1998-01-01

    Comparisons between archaeological findings and allele frequencies at protein loci suggest that most genes of current Europeans descend from populations that have been expanding in Europe in the last 10,000 years, in the Neolithic period. Recent mitochondrial data have been interpreted as indicating a much older, Paleolithic ancestry. In a spatial autocorrelation study at seven hypervariable loci in Europe (four microsatellites, two larger, tandem-repeat loci, and a sequence polymorphism) bro...

  18. Common Ancestry of Borrelia burgdorferi Sensu Lato Strains from North America and Europe

    OpenAIRE

    Postic, D; Ras, N. Marti; Lane, R S; Humair, P.-F.; Wittenbrink, M. M.; Baranton, G

    1999-01-01

    Ten atypical European Borrelia burgdorferi sensu lato (Borrelia spp.) strains were genetically characterized, and the diversity was compared to that encountered among related Borrelia spp. from North America. Phylogenetic analyses of a limited region of the genome and of the whole genome extend existing knowledge about borrelial diversity reported earlier in Europe and the United States. Our results accord with the evidence that North American and European strains may have a common ancestry.

  19. Inferring geographic coordinates of origin for Europeans using small panels of ancestry informative markers.

    Directory of Open Access Journals (Sweden)

    Petros Drineas

    Full Text Available Recent large-scale studies of European populations have demonstrated the existence of population genetic structure within Europe and the potential to accurately infer individual ancestry when information from hundreds of thousands of genetic markers is used. In fact, when genomewide genetic variation of European populations is projected down to a two-dimensional Principal Components Analysis plot, a surprising correlation with actual geographic coordinates of self-reported ancestry has been reported. This substructure can hamper the search of susceptibility genes for common complex disorders leading to spurious correlations. The identification of genetic markers that can correct for population stratification becomes therefore of paramount importance. Analyzing 1,200 individuals from 11 populations genotyped for more than 500,000 SNPs (Population Reference Sample, we present a systematic exploration of the extent to which geographic coordinates of origin within Europe can be predicted, with small panels of SNPs. Markers are selected to correlate with the top principal components of the dataset, as we have previously demonstrated. Performing thorough cross-validation experiments we show that it is indeed possible to predict individual ancestry within Europe down to a few hundred kilometers from actual individual origin, using information from carefully selected panels of 500 or 1,000 SNPs. Furthermore, we show that these panels can be used to correctly assign the HapMap Phase 3 European populations to their geographic origin. The SNPs that we propose can prove extremely useful in a variety of different settings, such as stratification correction or genetic ancestry testing, and the study of the history of European populations.

  20. African N Assessment

    Science.gov (United States)

    Bekunda, M.; Galford, G. L.; Hickman, J. E.; Palm, C.

    2011-12-01

    Africa's smallholder agricultural systems face unique challenges in planning for reducing poverty, concurrent with adaptation and mitigation to climate change. At continental level, policy seeks to promote a uniquely African Green Revolution to increase crop yields and food production, and improve local livelihoods. However, the consequences on the environment and climate are not clear; these pro-economic development measures should be linked to climate change adaptation and mitigation measures, and research is required to help achieve these policy proposals by identifying options, and testing impacts. In particular, increased nitrogen (N) inputs are essential for increasing food production in Africa, but are accompanied by inevitable increases in losses to the environment. These losses appear to be low at input levels promoted in agricultural development programs, while the increased N inputs both increase current food production and appear to reduce the vulnerability of food production to changes in climate. We present field and remote sensing evidence from Malawi that subsidizing improved seed and fertilizers increases resilience to drought without adding excess N to the environment. In Kenya, field research identified thresholds in N2O losses, where emissions are very low at fertilization rates of less than 200 kg ha-1. Village-scale models have identified potential inefficiencies in the food production process where the largest losses of reactive N occur, and which could be targeted to reduce the amount of N released to the environment. We further review some on-going research activities and progress in Africa that compare different methods of managing resources that target resilience in food production and adaptation to climate change, using nutrient N as an indicator, while evaluating the effects of these resource management practices on ecosystems and the environment.

  1. Seismicity of the Earth 1900-2013 East African Rift

    Science.gov (United States)

    Hayes, Gavin P.; Jones, Eric S.; Stadler, Timothy J.; Barnhart, William D.; McNamara, Daniel E.; Benz, Harley M.; Furlong, Kevin P.; Villaseñor, Antonio

    2014-01-01

    The East African Rift system (EARS) is a 3,000-km-long Cenozoic age continental rift extending from the Afar triple junction, between the horn of Africa and the Middle East, to western Mozambique. Sectors of active extension occur from the Indian Ocean, west to Botswana and the Democratic Republic of the Congo (DRC). It is the only rift system in the world that is active on a continent-wide scale, providing geologists with a view of how continental rifts develop over time into oceanic spreading centers like the Mid-Atlantic Ridge.

  2. Identification, Replication, and Fine-Mapping of Loci Associated with Adult Height in Individuals of African Ancestry

    NARCIS (Netherlands)

    N'Diaye, Amidou; Chen, Gary K.; Palmer, Cameron D.; Ge, Bing; Tayo, Bamidele; Mathias, Rasika A.; Ding, Jingzhong; Nalls, Michael A.; Adeyemo, Adebowale; Adoue, Veronique; Ambrosone, Christine B.; Atwood, Larry; Bandera, Elisa V.; Becker, Lewis C.; Berndt, Sonja I.; Bernstein, Leslie; Blot, William J.; Boerwinkle, Eric; Britton, Angela; Casey, Graham; Chanock, Stephen J.; Demerath, Ellen; Deming, Sandra L.; Diver, W. Ryan; Fox, Caroline; Harris, Tamara B.; Hernandez, Dena G.; Hu, Jennifer J.; Ingles, Sue A.; John, Esther M.; Johnson, Craig; Keating, Brendan; Kittles, Rick A.; Kolonel, Laurence N.; Kritchevsky, Stephen B.; Le Marchand, Loic; Lohman, Kurt; Liu, Jiankang; Millikan, Robert C.; Murphy, Adam; Musani, Solomon; Neslund-Dudas, Christine; North, Kari E.; Nyante, Sarah; Ogunniyi, Adesola; Ostrander, Elaine A.; Papanicolaou, George; Patel, Sanjay; Pettaway, Curtis A.; Press, Michael F.; Redline, Susan; Rodriguez-Gil, Jorge L.; Rotimi, Charles; Rybicki, Benjamin A.; Salako, Babatunde; Schreiner, Pamela J.; Signorello, Lisa B.; Singleton, Andrew B.; Stanford, Janet L.; Stram, Alex H.; Stram, Daniel O.; Strom, Sara S.; Suktitipat, Bhoom; Thun, Michael J.; Witte, John S.; Yanek, Lisa R.; Ziegler, Regina G.; Zheng, Wei; Zhu, Xiaofeng; Zmuda, Joseph M.; Zonderman, Alan B.; Evans, Michele K.; Liu, Yongmei; Becker, Diane M.; Cooper, Richard S.; Pastinen, Tomi; Henderson, Brian E.; Hirschhorn, Joel N.; Lettre, Guillaume; Haiman, Christopher A.

    2011-01-01

    Adult height is a classic polygenic trait of high heritability (h(2) similar to 0.8). More than 180 single nucleotide polymorphisms (SNPs), identified mostly in populations of European descent, are associated with height. These variants convey modest effects and explain similar to 10% of the varianc

  3. Consumer ethnocentrism and conspicuousness of South African imports in Mozambique

    OpenAIRE

    John, Anna

    2011-01-01

    Focus of the study The study examines the nature and effects of consumer ethnocentrism and conspicuousness of imports on consumer reactions toward South African products in Mozambique. Purpose The purpose of the study is threefold: (1) to indicate those groups of Mozambican consumers who are more ethnocentric and who see greater conspicuousness in South African imports; (2) to indicate those groups of consumers whose consumer ethnocentric responses to South African versus Moza...

  4. Comparative Study of Statistical Skin Detection Algorithms for Sub-Continental Human Images

    CERN Document Server

    Tabassum, Mirza Rehenuma; Kamal, Md Mostafa; Muctadir, Hossain Muhammad; Ibrahim, Muhammad; Shakir, Asif Khan; Imran, Asif; Islamm, Saiful; Rabbani, Md Golam; Khaled, Shah Mostafa; Islam, Md Saiful; Begum, Zerina; 10.3923/itj.2010.811.817

    2010-01-01

    Object detection has been a focus of research in human-computer interaction. Skin area detection has been a key to different recognitions like face recognition, human motion detection, pornographic and nude image prediction, etc. Most of the research done in the fields of skin detection has been trained and tested on human images of African, Mongolian and Anglo-Saxon ethnic origins. Although there are several intensity invariant approaches to skin detection, the skin color of Indian sub-continentals have not been focused separately. The approach of this research is to make a comparative study between three image segmentation approaches using Indian sub-continental human images, to optimize the detection criteria, and to find some efficient parameters to detect the skin area from these images. The experiments observed that HSV color model based approach to Indian sub-continental skin detection is more suitable with considerable success rate of 91.1% true positives and 88.1% true negatives.

  5. African Americans and Glaucoma

    Science.gov (United States)

    ... Involved News About Us Donate In This Section African Americans and Glaucoma email Send this article to ... glaucoma is the leading cause of blindness in African Americans. Half of those with glaucoma don't ...

  6. Sediment-hosted stratabound copper assessment of the Neoproterozoic Roan Group, central African copperbelt, Katanga Basin, Democratic Republic of the Congo and Zambia: Chapter T in Global mineral resource assessment

    Science.gov (United States)

    Zientek, Michael L.; Bliss, James D.; Broughton, David W.; Christie, Michael; Denning, Paul D.; Hayes, Timothy S.; Hitzman, Murray W.; Horton, John D.; Frost-Killian, Susan; Jack, Douglas J.; Master, Sharad; Parks, Heather L.; Taylor, Cliff D.; Wilson, Anna B.; Wintzer, Niki E.; Woodhead, Jon

    2014-01-01

    This study estimates the location, quality, and quantity of undiscovered copper in stratabound deposits within the Neoproterozoic Roan Group of the Katanga Basin in the Democratic Republic of the Congo and Zambia. The study area encompasses the Central African Copperbelt, the greatest sediment-hosted copper-cobalt province in the world, containing 152 million metric tons of copper in greater than 80 deposits. This study (1) delineates permissive areas (tracts) where undiscovered sediment-hosted stratabound copper deposits may occur within 2 kilometers of the surface, (2) provides a database of known sediment-hosted stratabound copper deposits and prospects, (3) estimates numbers of undiscovered deposits within these permissive tracts at several levels of confidence, and (4) provides probabilistic estimates of amounts of copper and mineralized rock that could be contained in undiscovered deposits within each tract. The assessment, conducted in January 2010 using a three-part form of mineral resource assessment, indicates that a substantial amount of undiscovered copper resources might occur in sediment-hosted stratabound copper deposits within the Roan Group in the Katanga Basin. Monte Carlo simulation results that combine grade and tonnage models with estimates of undiscovered deposits indicate that the mean estimate of undiscovered copper in the study area is 168 million metric tons, which is slightly greater than the known resources at 152 million metric tons. Furthermore, significant value can be expected from associated metals, particularly cobalt. Tracts in the Democratic Republic of the Congo (DRC) have potential to contain near-surface, undiscovered deposits. Monte Carlo simulation results indicate a mean value of 37 million metric tons of undiscovered copper may be present in significant prospects.

  7. African American Suicide

    Science.gov (United States)

    African American Suicide Fact Sheet Based on 2012 Data (2014) Overview • In 2012, 2,357 African Americans completed suicide in the U.S. Of these, ... 46 per 100,000. • The suicide rate for African Americans ages 10-19 was 2.98 per ...

  8. Linguistic Imperialism: African Perspectives.

    Science.gov (United States)

    Phillipson, Robert

    1996-01-01

    Responds to an article on aspects of African language policy and discusses the following issues: multilingualism and monolingualism, proposed changes in language policy from the Organization for African Unity and South African initiatives, the language of literature, bilingual education, and whose interests English-language teaching is serving.…

  9. MISCONCEPTIONS OF DEPRESSION IN AFRICAN AMERICANS

    Directory of Open Access Journals (Sweden)

    Zohaib eSohail

    2014-06-01

    Full Text Available Major depression is a very common disabling disorder. Although the relationship between race and depression is complex, depression affects all races, all ethnic and geographic locations as well as all age groups. The prevalence of depression in African Americans is controversial, due to the paucity of research. The deficit in the knowledge and skills in treating depression in African Americans have not been adequately addressed so far. Inadequate and insufficient data on African Americans contributes to the problems of under diagnoses, misdiagnosis and under treatment of depression. This article will highlight the existing problem of depression in Afro American with a focus on diagnostic and treatment issues.

  10. Discussion of Continental Rifts and Their Structure

    Science.gov (United States)

    Gilbert, M. C.

    2011-12-01

    When continental crust rifts, two chief modifications of that crust occur: 1)stretching of older, existing crust; 2)addition of new rift mass--sediments and mantle mafic units. However, paleorifts, such as the Cambrian Southern Oklahoma Aulacogen differ from neorifts, such as the East African. Much of this difference may be reflected in the nature of the lower rift crust. Stretching of the upper crust is accomplished primarily through faulting while the lower crust flows. Concurrently addition of sediments occurs in downdropped faulted blocks in the upper crust, and of mafic magmas risen and emplaced as intrusive layered complexes through the rift and as extrusive flows. All this happens in a regime of higher temperatures and higher heat flow. Consequences of this can include either melting of the stretched existing crust, or direct fractionation of rising mafic magma or melting of already crystallized mafic complexes, forming new silicic magmas. Geochemistry of these different magmatic bodies elucidates which of these possible processes seems dominant. Most geophysical studies of rifts have two results: 1)higher gravity anomalies indicating addition of new mafic masses, usually interpreted to be concentrated in the upper rift crust; and 2)seismic characteristics indicating crustal mottling and layering of the upper rift crust. What is not clearly indicated is nature of the lower crust, and of the mantle-crust contact (M discontinuity). Comparison of paleorifts and neorifts, and later geological history of paleorifts, suggests interesting interpretations of lower rift crust,especially in paleorifts, and some of the difficulties in sorting out answers.

  11. Genotype and ancestry modulate brain's DAT availability in healthy humans.

    Directory of Open Access Journals (Sweden)

    Elena Shumay

    Full Text Available The dopamine transporter (DAT is a principal regulator of dopaminergic neurotransmission and its gene (the SLC6A3 is a strong biological candidate gene for various behavioral- and neurological disorders. Intense investigation of the link between the SLC6A3 polymorphisms and behavioral phenotypes yielded inconsistent and even contradictory results. Reliance on objective brain phenotype measures, for example, those afforded by brain imaging, might critically improve detection of DAT genotype-phenotype association. Here, we tested the relationship between the DAT brain availability and the SLC6A3 genotypes using an aggregate sample of 95 healthy participants of several imaging studies. These studies employed positron emission tomography (PET with [¹¹C]cocaine wherein the DAT availability was estimated as Bmax/Kd; while the genotype values were obtained on two repeat polymorphisms--3-UTR- and intron 8--VNTRs. The main findings are the following: 1 both polymorphisms analyzed as single genetic markers and in combination (haplotype modulate DAT density in midbrain; 2 ethnic background and age influence the strength of these associations; and 3 age-related changes in DAT availability differ in the 3-UTR and intron 8--genotype groups.

  12. Polymorphisms in the non-muscle myosin heavy chain gene (MYH9 are associated with lower glomerular filtration rate in mixed ancestry diabetic subjects from South Africa.

    Directory of Open Access Journals (Sweden)

    Tandi Edith Matsha

    Full Text Available OBJECTIVE: Though single nucleotide polymorphisms (SNPs in the non-muscle myosin gene (MYH9 have been reported to explain most of the excess risk of nondiabetic chronic kidney disease (CKD, in African-Americans, some studies have also shown associations with diabetic end-stage renal disease. We investigated the association of MYH9 SNPs with renal traits in a mixed-ancestry South African population prone to diabetes. RESEARCH DESIGN AND METHODS: Three SNPs known to be associated with CKD (rs4821480, rs5756152 and rs12107 were genotyped using Taqman assay in 716 adults (198 with diabetes from the Bellville-South community, Cape Town. Glomerular filtration rate was estimated (eGFR and urinary albumin/creatinine ratio (ACR assessed. Multivariable regressions were used to relate the SNPs with renal traits. RESULTS: Mean age was 53.6 years, with the expected differences observed in characteristics by diabetic status. Significant associations were found between rs575152 and serum creatinine, and eGFR in the total population, and in diabetic participants (all p≤0.003, but not in non-diabetics (all p≥0.16, with significant interactions by diabetes status (interaction-p≤0.009. The association with ACR was borderline in diabetic participants (p = 0.05 and non-significant in non-diabetics (p = 0.85, with significant interaction (interaction p = 0.02. rs12107 was associated with fasting-, 2-hour glucose and HbA1c in diabetic participants only (interaction-p≤0.003, but not with renal traits. CONCLUSION: MYH9 SNPs were associated with renal traits only in diabetic participants in this population. Our findings and other studies suggest that MYH9 may have a broader genetic risk effect on kidney diseases.

  13. NERO’S ANCESTRY AND THE CONSTRUCTION OF IMPERIAL IDEOLOGY IN THE EARLY EMPIRE. A METHODOLOGICAL CASE STUDY

    Directory of Open Access Journals (Sweden)

    Olivier Hekster

    2015-01-01

    Full Text Available Within the discipline of ancient history, diverse types of sources, such as coins, inscriptions, portraits and texts, are often combined to create a coherent image of a particular ruler. A good example of how such a process works is the way in which reconstructions by modern scholars of the emperor Nero tend to look for a clearly defined ‘Neronian image’, by bringing together various types of primary evidence without paying sufficient attention to these sources’ medial contexts. This article argues that such a reconstruction does not do justice to the complex and multi-layered image of the last Julio-Claudian. By focusing on one particular aspect of Neronian imagery, the propagation of this emperor’s ancestry, we will argue that different types of sources, stemming from varying contexts and addressing different groups, cannot unproblematically be combined. Through an investigation of the ancestral messages spread by imperial and provincial coins, epigraphic evidence and portraiture, it becomes clear that systematic analysis of ancient media, their various contexts and inconsistencies is needed before combining them. Such an analysis reveals patterns within the different sources and shows that, in creating imperial images, rulers were constrained by both medial and local traditions. Modern studies of ancient images should therefore consider this medial and geographical variety in order to do justice to the multi-faceted phenomenon of imperial representation.

  14. East Eurasian ancestry in the middle of Europe: genetic footprints of Steppe nomads in the genomes of Belarusian Lipka Tatars

    Science.gov (United States)

    Pankratov, Vasili; Litvinov, Sergei; Kassian, Alexei; Shulhin, Dzmitry; Tchebotarev, Lieve; Yunusbayev, Bayazit; Möls, Märt; Sahakyan, Hovhannes; Yepiskoposyan, Levon; Rootsi, Siiri; Metspalu, Ene; Golubenko, Maria; Ekomasova, Natalia; Akhatova, Farida; Khusnutdinova, Elza; Heyer, Evelyne; Endicott, Phillip; Derenko, Miroslava; Malyarchuk, Boris; Metspalu, Mait; Davydenko, Oleg; Villems, Richard; Kushniarevich, Alena

    2016-01-01

    Medieval era encounters of nomadic groups of the Eurasian Steppe and largely sedentary East Europeans had a variety of demographic and cultural consequences. Amongst these outcomes was the emergence of the Lipka Tatars—a Slavic-speaking Sunni-Muslim minority residing in modern Belarus, Lithuania and Poland, whose ancestors arrived in these territories via several migration waves, mainly from the Golden Horde. Our results show that Belarusian Lipka Tatars share a substantial part of their gene pool with Europeans as indicated by their Y-chromosomal, mitochondrial and autosomal DNA variation. Nevertheless, Belarusian Lipkas still retain a strong genetic signal of their nomadic ancestry, witnessed by the presence of common Y-chromosomal and mitochondrial DNA variants as well as autosomal segments identical by descent between Lipkas and East Eurasians from temperate and northern regions. Hence, we document Lipka Tatars as a unique example of former Medieval migrants into Central Europe, who became sedentary, changed language to Slavic, yet preserved their faith and retained, both uni- and bi-parentally, a clear genetic echo of a complex population interplay throughout the Eurasian Steppe Belt, extending from Central Europe to northern China. PMID:27453128

  15. African American Culture and Hypertension Prevention

    OpenAIRE

    Peters, Rosalind M.; Aroian, Karen J.; Flack, John M.

    2006-01-01

    A qualitative study was done to explore attitudes and beliefs of African Americans regarding hypertension-preventive self-care behaviors. Five focus groups, with 34 participants, were held using interview questions loosely based on the Theory of Planned Behavior (TPB). Analysis revealed themes broadly consistent with the TPB, and also identified an overarching theme labeled “circle of culture.” The circle is a metaphor for ties that bind individuals within the larger African American communit...

  16. 76 FR 28449 - Notice on Outer Continental Shelf Oil and Gas Lease Sales

    Science.gov (United States)

    2011-05-17

    ... Oil and Gas Lease Sales AGENCY: Bureau of Ocean Energy Management, Regulation and Enforcement... with any entity in any other of the following groups at Outer Continental Shelf oil and gas lease...

  17. 76 FR 4129 - Notice on Outer Continental Shelf Oil and Gas Lease Sales

    Science.gov (United States)

    2011-01-24

    ... Gas Lease Sales AGENCY: Bureau of Ocean Energy Management, Regulation and Enforcement, Interior... any entity in any other of the following groups at Outer Continental Shelf oil and gas lease sales...

  18. Meta-analysis of genome-wide association studies in African Americans provides insights into the genetic architecture of type 2 diabetes.

    Science.gov (United States)

    Ng, Maggie C Y; Shriner, Daniel; Chen, Brian H; Li, Jiang; Chen, Wei-Min; Guo, Xiuqing; Liu, Jiankang; Bielinski, Suzette J; Yanek, Lisa R; Nalls, Michael A; Comeau, Mary E; Rasmussen-Torvik, Laura J; Jensen, Richard A; Evans, Daniel S; Sun, Yan V; An, Ping; Patel, Sanjay R; Lu, Yingchang; Long, Jirong; Armstrong, Loren L; Wagenknecht, Lynne; Yang, Lingyao; Snively, Beverly M; Palmer, Nicholette D; Mudgal, Poorva; Langefeld, Carl D; Keene, Keith L; Freedman, Barry I; Mychaleckyj, Josyf C; Nayak, Uma; Raffel, Leslie J; Goodarzi, Mark O; Chen, Y-D Ida; Taylor, Herman A; Correa, Adolfo; Sims, Mario; Couper, David; Pankow, James S; Boerwinkle, Eric; Adeyemo, Adebowale; Doumatey, Ayo; Chen, Guanjie; Mathias, Rasika A; Vaidya, Dhananjay; Singleton, Andrew B; Zonderman, Alan B; Igo, Robert P; Sedor, John R; Kabagambe, Edmond K; Siscovick, David S; McKnight, Barbara; Rice, Kenneth; Liu, Yongmei; Hsueh, Wen-Chi; Zhao, Wei; Bielak, Lawrence F; Kraja, Aldi; Province, Michael A; Bottinger, Erwin P; Gottesman, Omri; Cai, Qiuyin; Zheng, Wei; Blot, William J; Lowe, William L; Pacheco, Jennifer A; Crawford, Dana C; Grundberg, Elin; Rich, Stephen S; Hayes, M Geoffrey; Shu, Xiao-Ou; Loos, Ruth J F; Borecki, Ingrid B; Peyser, Patricia A; Cummings, Steven R; Psaty, Bruce M; Fornage, Myriam; Iyengar, Sudha K; Evans, Michele K; Becker, Diane M; Kao, W H Linda; Wilson, James G; Rotter, Jerome I; Sale, Michèle M; Liu, Simin; Rotimi, Charles N; Bowden, Donald W

    2014-08-01

    Type 2 diabetes (T2D) is more prevalent in African Americans than in Europeans. However, little is known about the genetic risk in African Americans despite the recent identification of more than 70 T2D loci primarily by genome-wide association studies (GWAS) in individuals of European ancestry. In order to investigate the genetic architecture of T2D in African Americans, the MEta-analysis of type 2 DIabetes in African Americans (MEDIA) Consortium examined 17 GWAS on T2D comprising 8,284 cases and 15,543 controls in African Americans in stage 1 analysis. Single nucleotide polymorphisms (SNPs) association analysis was conducted in each study under the additive model after adjustment for age, sex, study site, and principal components. Meta-analysis of approximately 2.6 million genotyped and imputed SNPs in all studies was conducted using an inverse variance-weighted fixed effect model. Replications were performed to follow up 21 loci in up to 6,061 cases and 5,483 controls in African Americans, and 8,130 cases and 38,987 controls of European ancestry. We identified three known loci (TCF7L2, HMGA2 and KCNQ1) and two novel loci (HLA-B and INS-IGF2) at genome-wide significance (4.15 × 10(-94)liability scale in African Americans. Overall, this study identified two novel susceptibility loci for T2D in African Americans. A substantial number of previously reported loci are transferable to African Americans after accounting for linkage disequilibrium, enabling fine mapping of causal variants in trans-ethnic meta-analysis studies. PMID:25102180

  19. Genetic architecture of skin and eye color in an African-European admixed population.

    Directory of Open Access Journals (Sweden)

    Sandra Beleza

    2013-03-01

    Full Text Available Variation in human skin and eye color is substantial and especially apparent in admixed populations, yet the underlying genetic architecture is poorly understood because most genome-wide studies are based on individuals of European ancestry. We study pigmentary variation in 699 individuals from Cape Verde, where extensive West African/European admixture has given rise to a broad range in trait values and genomic ancestry proportions. We develop and apply a new approach for measuring eye color, and identify two major loci (HERC2[OCA2] P = 2.3 × 10(-62, SLC24A5 P = 9.6 × 10(-9 that account for both blue versus brown eye color and varying intensities of brown eye color. We identify four major loci (SLC24A5 P = 5.4 × 10(-27, TYR P = 1.1 × 10(-9, APBA2[OCA2] P = 1.5 × 10(-8, SLC45A2 P = 6 × 10(-9 for skin color that together account for 35% of the total variance, but the genetic component with the largest effect (~44% is average genomic ancestry. Our results suggest that adjacent cis-acting regulatory loci for OCA2 explain the relationship between skin and eye color, and point to an underlying genetic architecture in which several genes of moderate effect act together with many genes of small effect to explain ~70% of the estimated heritability.

  20. The contribution of ancestry, chance, and past and ongoing selection to adaptive evolution

    Indian Academy of Sciences (India)

    Amitabh Joshi; Robinson B. Castillo; Laurence D. Mueller

    2003-12-01

    The relative contributions of ancestry, chance, and past and ongoing selection to variation in one adaptive (larval feeding rate) and one seemingly nonadaptive (pupation height) trait were determined in populations of Drosophila melanogaster adapting to either low or high larval densities in the laboratory. Larval feeding rates increased rapidly in response to high density, and the effects of ancestry, past selection and chance were ameliorated by ongoing selection within 15–20 generations. Similarly, in populations previously kept at high larval density, and then switched to low larval density, the decline of larval feeding rate to ancestral levels was rapid (15–20 generations) and complete, providing support for a previously stated hypothesis regarding the costs of faster feeding in Drosophila larvae. Variation among individuals was the major contributor to variation in pupation height, a trait that would superficially appear to be nonadaptive in the environmental context of the populations used in this study because it did not diverge between sets of populations kept at low versus high larval density for many generations. However, the degree of divergence among populations ($F_{\\text{ST}}$) for pupation height was significantly less than expected for a selectively neutral trait, and we integrate results from previous studies to suggest that the variation for pupation height among populations is constrained by stabilizing selection, with a flat, plateau-like fitness function that, consequently, allows for substantial phenotypic variation within populations. Our results support the view that the genetic imprints of history (ancestry and past selection) in outbreeding sexual populations are typically likely to be transient in the face of ongoing selection and recombination. The results also illustrate the heuristic point that different forms of selection—for example directional versus stabilizing selection—acting on a trait in different populations may

  1. A genome-wide admixture scan identifies MYH9 as a candidate locus associated with non-diabetic end stage renal disease in African Americans

    Science.gov (United States)

    Linda Kao, WH; Klag, Michael J; Meoni, Lucy A; Reich, David; Berthier-Schaad, Yvette; Li, Man; Coresh, Josef; Patterson, Nick; Tandon, Arti; Powe, Neil R; Fink, Nancy E; Sadler, John H; Weir, Matthew R; Abboud, Hanna E; Adler, Sharon; Divers, Jasmin; Iyengar, Sudha K; Freedman, Barry I; Kimmel, Paul L; Knowler, William C; Kohn, Orly F; Kramp, Kristopher; Leehey, David J; Nicholas, Susanne; Pahl, Madeleine; Schelling, Jeffrey R; Sedor, John R; Thornley-Brown, Denyse; Winkler, Cheryl A; Smith, Michael W.; Parekh, Rulan S.

    2008-01-01

    End stage renal disease (ESRD) has a four times higher incidence in African Americans compared to European Americans. This led to the hypothesis that susceptibility alleles for ESRD have a higher frequency in West African than European gene pool. We performed a genome-wide admixture scan in 1,372 ESRD cases and 806 controls and demonstrated a highly significant association between excess African ancestry and non-diabetic ESRD (LOD 5.70) but not diabetic ESRD (LOD 0.47) on chromosome 22q12. Each copy of the European ancestral allele conferred a relative risk of 0.50 (95% credible interval 0.39 – 0.63) compared to African ancestry. Multiple common SNPs (allele frequency ranging from 0.2 to 0.6) in the gene that encodes non-muscle myosin heavy chain type II isoform A (MYH9) were associated with 2-4 times greater risk of non-diabetic ESRD and accounted for a large proportion of the excess risk of ESRD observed in African compared to European Americans. PMID:18794854

  2. Evaluation of the metabochip genotyping array in African Americans and implications for fine mapping of GWAS-identified loci: the PAGE study.

    Directory of Open Access Journals (Sweden)

    Steven Buyske

    Full Text Available The Metabochip is a custom genotyping array designed for replication and fine mapping of metabolic, cardiovascular, and anthropometric trait loci and includes low frequency variation content identified from the 1000 Genomes Project. It has 196,725 SNPs concentrated in 257 genomic regions. We evaluated the Metabochip in 5,863 African Americans; 89% of all SNPs passed rigorous quality control with a call rate of 99.9%. Two examples illustrate the value of fine mapping with the Metabochip in African-ancestry populations. At CELSR2/PSRC1/SORT1, we found the strongest associated SNP for LDL-C to be rs12740374 (p = 3.5 × 10(-11, a SNP indistinguishable from multiple SNPs in European ancestry samples due to high correlation. Its distinct signal supports functional studies elsewhere suggesting a causal role in LDL-C. At CETP we found rs17231520, with risk allele frequency 0.07 in African Americans, to be associated with HDL-C (p = 7.2 × 10(-36. This variant is very rare in Europeans and not tagged in common GWAS arrays, but was identified as associated with HDL-C in African Americans in a single-gene study. Our results, one narrowing the risk interval and the other revealing an associated variant not found in Europeans, demonstrate the advantages of high-density genotyping of common and rare variation for fine mapping of trait loci in African American samples.

  3. Older African American Women’s Lived Experiences with Depression

    OpenAIRE

    Ward, Earlise C.; Mengesha, Maigenete; Issa, Fathiya

    2013-01-01

    Little is known about older African American women’s lived experiences with depression. What does depression mean to this group? What are they doing about their depression? Unfortunately, these questions are unanswered. This study examined older African American women’s lived experiences with depression and coping behaviours. The common sense model provided the theoretical framework for present study. Thirteen community-dwelling African American women aged 60 and older (M =71 years) participa...

  4. Cost study - Norwegian continental shelf

    Energy Technology Data Exchange (ETDEWEB)

    Rolstadas, A.

    1983-01-01

    Offshore development projects completed on the Norwegian continental shelf by the end of 1979 reported cost increases of 178% above initial estimates. To clarify the reasons for these huge escalations, Norway evaluated the cost development, technical solution, and project execution for the Ekofisk, Frigg, Statfjord, Valhall, and Murchison projects. Comparative data were also obtained for the British Brent, Beryl, Forties, and Ninian field developments, which showed cost increases of 179%. Only 48% of the escalation proved to be caused by inflation. The rest was due to cost overruns in manpower and resources because of poor management, incomplete planning, weather conditions, logistical problems in obtaining goods, and enforcement of new safety regulations.

  5. African Attraction

    Institute of Scientific and Technical Information of China (English)

    JANKOT

    2004-01-01

    Edward Xu is excited. The 55-year-old Shanghai businessman is talking about his latest project in Gabon,one of Africa's richest countries. “We build these pre-fabricated houses in China, equip them with furniture and electronics and then send the whole thing in cargos.” Once the shipment arrives in Gabon, Xu and his company, Shanghai New Years International Group, will unwrap them, put them up in a two square kilometer piece of land granted by the local government and finally sell the estates at a cost of over US$120,000 each.

  6. Properties of middle-late Proterozoic volcanic rocks in South Qinling and the Precambrian continental break-up

    Institute of Scientific and Technical Information of China (English)

    夏林圻; 夏祖春; 徐学义

    1996-01-01

    In South Qinling, the volcanic series of the middle-late Proterozoic Yunxi Group, Yaolinghe Group, Xi.xiang Group and Bikou Group have characteristics of the continental rift volcanic rocks or continental flood basalts and are formed in continental intraplate tensional setting. The enrichment of incompatible elements, high εNd values and low-medium 87Sr/86Sr initial ratios of these volcanic rocks indicate that they were derived from asthenospheric plume. Under the action of the intense pull-apart in lithosphere, the mantle plume upwelled, quickly decompressed and melted, and finally produced magma. This tensional process made the continental crust break and eventually led to an oceanic basin in late Proterozoic. The middle-late Proterozoic volcanism is a precursor of Precarabrian continental break-up in the South Qinling.

  7. Seasonal Changes in Sleep Duration in African American and African College Students Living In Washington, D.C.

    Directory of Open Access Journals (Sweden)

    Janna Volkov

    2007-01-01

    Full Text Available Duration of nocturnal melatonin secretion, a marker of “biological night” that relates to sleep duration, is longer in winter than in summer in patients with seasonal affective disorder (SAD, but not in healthy controls. In this study of African and African American college students, we hypothesized that students who met criteria for winter SAD or subsyndromal SAD (S-SAD would report sleeping longer in winter than in summer. In addition, based on our previous observation that Africans report more “problems” with change in seasons than African Americans, we expected that the seasonal changes in sleep duration would be greater in African students than in African American students. Based on Seasonal Pattern Assessment Questionnaire (SPAQ responses, African American and African college students in Washington, D.C. (N = 575 were grouped into a winter SAD/S-SAD group or a no winter diagnosis group, and winter and summer sleep length were determined. We conducted a 2 (season × 2 (sex × 2 (ethnicity × 2 (winter diagnosis group ANCOVA on reported sleep duration, controlling for age. Contrary to our hypothesis, we found that African and African American students with winter SAD/S-SAD report sleeping longer in the summer than in the winter. No differences in seasonality of sleep were found between African and African American students. Students with winter SAD or S-SAD may need to sacrifice sleep duration in the winter, when their academic functioning/efficiency may be impaired by syndromal or subsyndromal depression, in order to meet seasonally increased academic demands.

  8. Orthodontic probability tables for black patients of African descent: mixed dentition analysis.

    Science.gov (United States)

    Schirmer, U R; Wiltshire, W A

    1997-11-01

    Mixed dentition space analyses form an essential part of orthodontic diagnostic procedures to determine the amount of space available for the accommodation of permanent teeth. The Moyers' probability tables for computing the sizes of unerupted canines and premolars were formulated at the University of Michigan from a sample consisting of northern European white subjects and are currently used worldwide. Because tooth sizes vary significantly between different population groups, it was the purpose of this study to construct relevant probability tables that would be more applicable to black subjects. Data were collected from a series of 100 randomly selected study models of black patients. The sample was equally subdivided by gender and all subjects had Angle Class I molar relationships with only minor malocclusions such as minor crowding, rotations, or diastemas. Two investigators independently measured the teeth on the study casts with a Vernier gauge that had sharpened calliper tips. Intraexaminer and interexaminer reliability was determined at 0.2 mm. All teeth to and including the first molars were measured. These data were then utilized in regression equations for both maxillary and mandibular arches, to enable the prediction of the mesiodistal widths of the canines and two premolars. The equations and predicted values were compared with those of the Moyers' probability tables, and significant differences (p <0.05) were found (except for the prediction of maxillary canines and premolars in females at the 85 and 95 percentile probability level). New probability tables for black subjects were formulated. It is envisaged that the proposed probability tables would be more accurate for black patients of African ancestry. PMID:9387842

  9. Cooperative Policies and African International Students: Do Policy Spirits Match Experiences?

    Science.gov (United States)

    McLellan, Carlton E.

    2009-01-01

    This paper explores the policy implications of experiences of African international students (AIS) studying at post-apartheid South Africa universities. It argues that given the spirit and tone of continental, regional, and domestic policies to which South Africa has committed that at the very least there is an implicit expectation of…

  10. Genetic differences between the determinants of lipid profile phenotypes in African and European Americans: the Jackson Heart Study.

    Directory of Open Access Journals (Sweden)

    Rahul C Deo

    2009-01-01

    Full Text Available Genome-wide association analysis in populations of European descent has recently found more than a hundred genetic variants affecting risk for common disease. An open question, however, is how relevant the variants discovered in Europeans are to other populations. To address this problem for cardiovascular phenotypes, we studied a cohort of 4,464 African Americans from the Jackson Heart Study (JHS, in whom we genotyped both a panel of 12 recently discovered genetic variants known to predict lipid profile levels in Europeans and a panel of up to 1,447 ancestry informative markers allowing us to determine the African ancestry proportion of each individual at each position in the genome. Focusing on lipid profiles -- HDL-cholesterol (HDL-C, LDL-cholesterol (LDL-C, and triglycerides (TG -- we identified the lipoprotein lipase (LPL locus as harboring variants that account for interethnic variation in HDL-C and TG. In particular, we identified a novel common variant within LPL that is strongly associated with TG (p = 2.7 x 10(-6 and explains nearly 1% of the variability in this phenotype, the most of any variant in African Americans to date. Strikingly, the extensively studied "gain-of-function" S447X mutation at LPL, which has been hypothesized to be the major determinant of the LPL-TG genetic association and is in trials for human gene therapy, has a significantly diminished strength of biological effect when it is found on a background of African rather than European ancestry. These results suggest that there are other, yet undiscovered variants at the locus that are truly causal (and are in linkage disequilibrium with S447X or that work synergistically with S447X to modulate TG levels. Finally, we find systematically lower effect sizes for the 12 risk variants discovered in European populations on the African local ancestry background in JHS, highlighting the need for caution in the use of genetic variants for risk assessment across different

  11. The influence of climate on age at menarche: Augmented with the influence of ancestry.

    Science.gov (United States)

    Sohn, Kitae

    2016-08-01

    Samples representative of South Korea, Indonesia, and Peninsular Malaysia were analyzed and the influence of climate on age at menarche was investigated. The sample size was 24,651 for Korea (birth years 1941-1992), for Indonesia 8331 (birth years 1944-1988) plus 20,519 (birth years 1978-1997), and 2842 for Peninsular Malaysia (birth years 1927-1968). Respondents recalled their age at menarche. The mean age at menarche was calculated for each birth year by country, and for Malaysia, additionally by ancestry. It has been found that mean ages at menarche for the early birth years were much younger in Indonesia than in Korea despite similar levels of socioeconomic conditions (proxied by GDP per capita). For example, for the birth year 1944, the mean age at menarche was 14.45 years for Indonesia and 16.19 years for Korea-a difference of 1.74 years. It was necessary to double the Korean GDP per capita to make the Korean mean age at menarche the same as the Indonesian one. Chinese and Malay women in Peninsular Malaysia were further analyzed, and the results provided indirect evidence that the difference between Korea and Indonesia was not due to ancestry differences. Results in multivariate settings provided consistent results. It has been concluded that climate exerts a significant influence on age at menarche because the relatively easy availability of food in the tropics increases energy intake while the absence of cold weather decreases energy expenditure on maintenance and activity.

  12. Ancestry of the Iban is predominantly Southeast Asian: genetic evidence from autosomal, mitochondrial, and Y chromosomes.

    Directory of Open Access Journals (Sweden)

    Tatum S Simonson

    Full Text Available Humans reached present-day Island Southeast Asia (ISEA in one of the first major human migrations out of Africa. Population movements in the millennia following this initial settlement are thought to have greatly influenced the genetic makeup of current inhabitants, yet the extent attributed to different events is not clear. Recent studies suggest that south-to-north gene flow largely influenced present-day patterns of genetic variation in Southeast Asian populations and that late Pleistocene and early Holocene migrations from Southeast Asia are responsible for a substantial proportion of ISEA ancestry. Archaeological and linguistic evidence suggests that the ancestors of present-day inhabitants came mainly from north-to-south migrations from Taiwan and throughout ISEA approximately 4,000 years ago. We report a large-scale genetic analysis of human variation in the Iban population from the Malaysian state of Sarawak in northwestern Borneo, located in the center of ISEA. Genome-wide single-nucleotide polymorphism (SNP markers analyzed here suggest that the Iban exhibit greatest genetic similarity to Indonesian and mainland Southeast Asian populations. The most common non-recombining Y (NRY and mitochondrial (mt DNA haplogroups present in the Iban are associated with populations of Southeast Asia. We conclude that migrations from Southeast Asia made a large contribution to Iban ancestry, although evidence of potential gene flow from Taiwan is also seen in uniparentally inherited marker data.

  13. Ancestry of the Iban is predominantly Southeast Asian: genetic evidence from autosomal, mitochondrial, and Y chromosomes.

    Science.gov (United States)

    Simonson, Tatum S; Xing, Jinchuan; Barrett, Robert; Jerah, Edward; Loa, Peter; Zhang, Yuhua; Watkins, W Scott; Witherspoon, David J; Huff, Chad D; Woodward, Scott; Mowry, Bryan; Jorde, Lynn B

    2011-01-01

    Humans reached present-day Island Southeast Asia (ISEA) in one of the first major human migrations out of Africa. Population movements in the millennia following this initial settlement are thought to have greatly influenced the genetic makeup of current inhabitants, yet the extent attributed to different events is not clear. Recent studies suggest that south-to-north gene flow largely influenced present-day patterns of genetic variation in Southeast Asian populations and that late Pleistocene and early Holocene migrations from Southeast Asia are responsible for a substantial proportion of ISEA ancestry. Archaeological and linguistic evidence suggests that the ancestors of present-day inhabitants came mainly from north-to-south migrations from Taiwan and throughout ISEA approximately 4,000 years ago. We report a large-scale genetic analysis of human variation in the Iban population from the Malaysian state of Sarawak in northwestern Borneo, located in the center of ISEA. Genome-wide single-nucleotide polymorphism (SNP) markers analyzed here suggest that the Iban exhibit greatest genetic similarity to Indonesian and mainland Southeast Asian populations. The most common non-recombining Y (NRY) and mitochondrial (mt) DNA haplogroups present in the Iban are associated with populations of Southeast Asia. We conclude that migrations from Southeast Asia made a large contribution to Iban ancestry, although evidence of potential gene flow from Taiwan is also seen in uniparentally inherited marker data. PMID:21305013

  14. Highly discrepant proportions of female and male Scandinavian and British Isles ancestry within the isolated population of the Faroe Islands

    DEFF Research Database (Denmark)

    Als, Thomas D; Jorgensen, Tove H; Børglum, Anders D;

    2006-01-01

    that the Faroese mtDNA pool has been affected by genetic drift, and is among the most homogenous and isolated in the North Atlantic region. This will have implications for attempts to locate genes for complex disorders. To obtain estimates of Scandinavian vs British Isles ancestry proportions, we applied...... Isles ancestry. In the present study we used 122 new and 19 previously published hypervariable region I sequences of the mitochondrial control region to analyse the genetic diversity of the Faroese population and compare it with other populations in the North Atlantic region. The analyses suggested...

  15. Rethinking "relevance": South African psychology in context.

    Science.gov (United States)

    Long, Wahbie

    2013-02-01

    This article examines the phenomenon known as the "relevance debate" in South African psychology. It begins with a historical overview of the contours of the discipline in that country before describing the controversy's international dimensions, namely, the revolutionary politics of 1960s higher education and the subsequent emergence of cognate versions of the debate in American, European, and "Third World" psychology. The article then details how South Africa's "relevance" project enjoyed a special affinity with an assortment of ethnic-cultural, national, and continental myths and metaphors, all of which served the interests of the political formations of the day. It discusses how, in present-day South Africa, the intelligentsia has become an important catalyst for the so-called African Renaissance, which seeks to provide "relevant" solutions for the regeneration of African society. However, the global hegemony of what began in the 1970s as a "second academic revolution," aided by the lifting of the academic boycott of South Africa, has blunted the once critical edge of "relevance" discourse. A new mode of knowledge production now holds sway, the outcome of a dramatic reformulation of the capitalist manifesto in which the values of the "May 68" generation have been hijacked by a managerialist rationality. In light of the capitalization of the knowledge-production enterprise, it is concluded that the idiom of "relevance" has outlived its usefulness. PMID:23421936

  16. 76 FR 2919 - Outer Continental Shelf Official Protraction Diagram and Supplemental Official Outer Continental...

    Science.gov (United States)

    2011-01-18

    ... Protraction Diagram and Supplemental Official Outer Continental Shelf Block Diagrams AGENCY: Bureau of Ocean... American Datum of 1983 (NAD 83) Outer Continental Shelf Official Protraction Diagram and Supplemental Official Outer Continental Shelf Block Diagrams. SUMMARY: Notice is hereby given that effective with...

  17. Trans-ancestry genome-wide association study identifies 12 genetic loci influencing blood pressure and implicates a role for DNA methylation

    NARCIS (Netherlands)

    Kato, Norihiro; Loh, Marie; Takeuchi, Fumihiko; Verweij, Niek; Wang, Xu; Zhang, Weihua; Kelly, Tanika N.; Saleheen, Danish; Lehne, Benjamin; Leach, Irene Mateo; Drong, Alexander W.; Abbott, James; Wahl, Simone; Tan, Sian-Tsung; Scott, William R.; Campanella, Gianluca; Chadeau-Hyam, Marc; Afzal, Uzma; Ahluwalia, Tarunveer S.; Bonder, Marc Jan; Chen, Peng; Dehghan, Abbas; Edwards, Todd L.; Esko, Tonu; Go, Min Jin; Harris, Sarah E.; Hartiala, Jaana; Kasela, Silva; Kasturiratne, Anuradhani; Khor, Chiea-Chuen; Kleber, Marcus E.; Li, Huaixing; Mok, Zuan Yu; Nakatochi, Masahiro; Sapari, Nur Sabrina; Saxena, Richa; Stewart, Alexandre F. R.; Stolk, Lisette; Tabara, Yasuharu; Teh, Ai Ling; Wu, Ying; Wu, Jer-Yuarn; Zhang, Yi; Aits, Imke; Alves, Alexessander Da Silva Couto; Das, Shikta; Dorajoo, Rajkumar; Hopewell, Jemma C.; Kim, Yun Kyoung; Koivula, Robert W.; Luan, Jian'an; Lyytikainen, Leo-Pekka; Nguyen, Quang N.; Pereira, Mark A.; Postmus, Iris; Raitakari, Olli T.; Bryan, Molly Scannell; Scott, Robert A.; Sorice, Rossella; Tragante, Vinicius; Traglia, Michela; White, Jon; Yamamoto, Ken; Zhang, Yonghong; Adair, Linda S.; Ahmed, Alauddin; Akiyama, Koichi; Asif, Rasheed; Aung, Tin; Barroso, Ines; Bjonnes, Andrew; Braun, Timothy R.; Cai, Hui; Chang, Li-Ching; Chen, Chien-Hsiun; Cheng, Ching-Yu; Chong, Yap-Seng; Collins, Rory; Courtney, Regina; Davies, Gail; Delgado, Graciela; Do, Loi D.; Doevendans, Pieter A.; Gansevoort, Ron T.; Gao, Yu-Tang; Grammer, Tanja B.; Grarup, Niels; Grewal, Jagvir; Gu, Dongfeng; Wander, Gurpreet S.; Hartikainen, Anna-Liisa; Hazen, Stanley L.; He, Jing; Heng, Chew-Kiat; Hixson, James E.; Hofman, Albert; Hsu, Chris; Huang, Wei; Husemoen, Lise L. N.; Hwang, Joo-Yeon; Ichihara, Sahoko; Igase, Michiya; Isono, Masato; Justesen, Johanne M.; Katsuy, Tomohiro; Kibriya, Muhammad G.; Kim, Young Jin; Kishimoto, Miyako; Koh, Woon-Puay; Kohara, Katsuhiko; Kumari, Meena; Kwek, Kenneth; Lee, Nanette R.; Lee, Jeannette; Liao, Jiemin; Lieb, Wolfgang; Liewald, David C. M.; Matsubara, Tatsuaki; Matsushita, Yumi; Meitinger, Thomas; Mihailov, Evelin; Milani, Lili; Mills, Rebecca; Mononen, Nina; Mueller-Nurasyid, Martina; Nabika, Toru; Nakashima, Eitaro; Ng, Hong Kiat; Nikus, Kjell; Nutile, Teresa; Ohkubo, Takayoshi; Ohnaka, Keizo; Parish, Sarah; Paternoster, Lavinia; Peng, Hao; Peters, Annette; Pham, Son T.; Pinidiyapathirage, Mohitha J.; Rahman, Mahfuzar; Rakugi, Hiromi; Rolandsson, Olov; Rozario, Michelle Ann; Ruggiero, Daniela; Sala, Cinzia F.; Sarju, Ralhan; Shimokawa, Kazuro; Snieder, Harold; Sparso, Thomas; Spiering, Wilko; Starr, John M.; Stott, David J.; Stram, Daniel O.; Sugiyama, Takao; Szymczak, Silke; Tang, W. H. Wilson; Tong, Lin; Trompet, Stella; Turjanmaa, Vaino; Ueshima, Hirotsugu; Uitterlinden, Andre G.; Umemura, Satoshi; Vaarasmaki, Marja; van Dam, Rob M.; van Gilst, Wiek H.; van Veldhuisen, Dirk J.; Viikari, Jorma S.; Waldenberger, Melanie; Wang, Yiqin; Wang, Aili; Wilson, Rory; Wong, Tien-Yin; Xiang, Yong-Bing; Yamaguchi, Shuhei; Ye, Xingwang; Young, Robin D.; Young, Terri L.; Yuan, Jian-Min; Zhou, Xueya; Asselbergs, Folkert W.; Ciullo, Marina; Clarke, Robert; Deloukas, Panos; Franke, Andre; Franks, Paul W.; Franks, Steve; Friedlander, Yechiel; Gross, Myron D.; Guo, Zhirong; Hansen, Torben; Jarvelin, Marjo-Riitta; Jorgensen, Torben; Jukema, J. Wouter; Kahonen, Mika; Kajio, Hiroshi; Kivimaki, Mika; Lee, Jong-Young; Lehtimaki, Terho; Linneberg, Allan; Miki, Tetsuro; Pedersen, Oluf; Samani, Nilesh J.; Sorensen, Thorkild I. A.; Takayanagi, Ryoichi; Toniolo, Daniela; Ahsan, Habibul; Allayee, Hooman; Chen, Yuan-Tsong; Danesh, John; Deary, Ian J.; Franco, Oscar H.; Franke, Lude; Heijman, Bastiaan T.; Holbrook, Joanna D.; Isaacs, Aaron; Kim, Bong-Jo; Lin, Xu; Liu, Jianjun; Maerz, Winfried; Metspalu, Andres; Mohlke, Karen L.; Sanghera, Dharambir K.; Shu, Xiao-Ou; van Meurs, Joyce B. J.; Vithana, Eranga; Wickremasinghe, Ananda R.; Wijmenga, Cisca; Wolffenbuttel, Bruce H. W.; Yokota, Mitsuhiro; Zheng, Wei; Zhu, Dingliang; Vineis, Paolo; Kyrtopoulos, Soterios A.; Kleinjans, Jos C. S.; McCarthy, Mark I.; Soong, Richie; Gieger, Christian; Scott, James; Teo, Yik-Ying; He, Jiang; Elliott, Paul; Tai, E. Shyong; van der Harst, Pim; Kooner, Jaspal S.; Chambers, John C.; Doevendans, PAFM

    2015-01-01

    We carried out a trans-ancestry genome-wide association and replication study of blood pressure phenotypes among up to 320,251 individuals of East Asian, European and South Asian ancestry. We find genetic variants at 12 new loci to be associated with blood pressure (P = 3.9 x 10(-11) to 5.0 x 10(-21

  18. Trans-ancestry genome-wide association study identifies 12 genetic loci influencing blood pressure and implicates a role for DNA methylation

    NARCIS (Netherlands)

    N. Kato (Norihiro); M. Loh (Marie); F. Takeuchi (Fumihiko); N. Verweij (Niek); X. Wang (Xu); W. Zhang (Weihua); T. NKelly (Tanika); D. Saleheen; B. Lehne (Benjamin); I.M. Leach (Irene Mateo); A. Drong (Alexander); J. Abbott (James); S. Wahl (Simone); S.-T. Tan (Sian-Tsung); W.R. Scott (William R.); G. Campanella (Gianluca); M. Chadeau-Hyam (Marc); U. Afzal (Uzma); T.S. Ahluwalia (Tarunveer Singh); M.J. Bonder (Marc Jan); P. Chen (Ping); A. Dehghan (Abbas); T.L. Edwards (Todd L.); T. Esko (Tõnu); M.J. Go (Min Jin); S.E. Harris (Sarah); J. Hartiala (Jaana); S. Kasela (Silva); A. Kasturiratne (Anuradhani); C.C. Khor; M.E. Kleber (Marcus); H. Li (Huaixing); Z.Y. Mok (Zuan Yu); M. Nakatochi (Masahiro); N.S. Sapari (Nur Sabrina); R. Saxena (Richa); A.F. Stewart (Alexandre F.); L. Stolk (Lisette); Y. Tabara (Yasuharu); A.L. Teh (Ai Ling); Y. Wu (Ying); J.-Y. Wu (Jer-Yuarn); Y. Zhang (Yi); I. Aits (Imke); A. Da Silva Couto Alves (Alexessander); S. Das; R. Dorajoo (Rajkumar); J. CHopewell (Jemma); Y.K. Kim (Yun Kyoung); R. WKoivula (Robert); J. Luan (Jian'An); L.-P. Lyytikäinen (Leo-Pekka); Q. NNguyen (Quang); M.A. Pereira (Mark A); D. Postmus (Douwe); O. TRaitakari (Olli); M. Scannell Bryan (Molly); R.A. Scott (Robert); R. Sorice; V. Tragante (Vinicius); M. Traglia (Michela); J. White (Jon); K. Yamamoto (Ken); Y. Zhang (Yonghong); L.S. Adair (Linda); A. Ahmed (Alauddin); K. Akiyama (Koichi); R. Asif (Rasheed); T. Aung (Tin); I. Barroso (Inês); A. Bjonnes (Andrew); T.R. Braun (Timothy R.); H. Cai (Hui); L.-C. Chang (Li-Ching); C.-H. Chen; C-Y. Cheng (Ching-Yu); Y.-S. Chong (Yap-Seng); F.S. Collins (Francis); R. Courtney (Regina); G. Davies (Gail); G. Delgado; L.D. Do (Loi D.); P.A. Doevendans (Pieter); R.T. Gansevoort (Ron); Y. Gao; T.B. Grammer (Tanja B); N. Grarup (Niels); J. Grewal (Jagvir); D. Gu (D.); G. SWander (Gurpreet); A.L. Hartikainen; S.L. Hazen (Stanley); J. He (Jing); C.K. Heng (Chew-Kiat); E.J.A. Hixso (E. James Ames); A. Hofman (Albert); C. Hsu (Chris); W. Huang (Wei); L.L.N. Husemoen (Lise Lotte); J.-Y. Hwang (Joo-Yeon); S. Ichihara (Sahoko); M. Igase (Michiya); M. Isono (Masato); J.M. Justesen (Johanne M.); T. Katsuya (Tomohiro); M. GKibriya (Muhammad); Y.J. Kim; M. Kishimoto (Miyako); W.-P. Koh (Woon-Puay); K. Kohara (Katsuhiko); M. Kumari (Meena); K. Kwek (Kenneth); N.R. Lee (Nanette); J. Lee (Jeannette); J. Liao (Jie); W. Lieb (Wolfgang); D.C. Liewald (David C.); T. Matsubara (Tatsuaki); Y. Matsushita (Yumi); T. Meitinger (Thomas); E. Mihailov (Evelin); L. Milani (Lili); R. Mills (Rebecca); K. Mononen (Kari); M. Müller-Nurasyid (Martina); T. Nabika (Toru); E. Nakashima (Eitaro); H.K. Ng (Hong Kiat); K. Nikus (Kjell); T. Nutile; T. Ohkubo (Takayoshi); K. Ohnaka (Keizo); S. Parish (Sarah); L. Paternoster (Lavinia); H. Peng (Hao); A. Peters (Annette); S. TPham (Son); M.J. Pinidiyapathirage (Mohitha J.); M. Rahman (Mahfuzar); H. Rakugi (Hiromi); O. Rolandsson (Olov); M.A. Rozario (Michelle Ann); D. Ruggiero; C. Sala (Cinzia); R. Sarju (Ralhan); K. Shimokawa (Kazuro); H. Snieder (Harold); T. Sparsø (Thomas); W. Spiering (Wilko); J.M. Starr (John); D.J. Stott (David J.); D. OStram (Daniel); T. Sugiyama (Takao); S. Szymczak (Silke); W.H.W. Tang (W.H. Wilson); L. Tong (Lin); S. Trompet (Stella); V. Turjanmaa (Väinö); H. Ueshima (Hirotsugu); A.G. Uitterlinden (André); S. Umemura (Satoshi); M. Vaarasmaki (Marja); R.M. Dam (Rob Mvan); W.H. van Gilst (Wiek); D.J. van Veldhuisen (Dirk); J. Viikari (Jorma); M. Waldenberger (Melanie); Y. Wang (Yiqin); A. Wang (Aili); R. Wilson (Rory); T.-Y. Wong (Tien-Yin); Y.-B. Xiang (Yong-Bing); S. Yamaguchi (Shuhei); X. Ye (Xingwang); R. Young (Robin); T.L. Young (Terri); J.-M. Yuan (Jian-Min); X. Zhou (Xueya); F.W. Asselbergs (Folkert); M. Ciullo; R. Clarke (Robert); P. Deloukas (Panagiotis); A. Franke (Andre); W.F. Paul (W. Frank); S. Franks (Steve); Y. Friedlander (Yechiel); M.D. Gross (Myron D.); Z. Guo (Zhirong); T. Hansen (T.); M.-R. Jarvelin (Marjo-Riitta); T. Jørgensen (Torben); J.W. Jukema (Jan Wouter); M. Kähönen (Mika); H. Kajio (Hiroshi); M. Kivimaki (Mika); J.-Y. Lee (Jong-Young); T. Lehtimäki (Terho); A. Linneberg (Allan); T. Miki (Tetsuro); O. Pedersen (Oluf); N.J. Samani (Nilesh); T.I.A. Sørensen (Thorkild); R. Takayanagi (Ryoichi); D. Toniolo (Daniela); H. Ahsan (Habibul); H. Allayee (Hooman); Y.-T. Chen (Yuan-Tsong); J. Danesh (John); I.J. Deary (Ian J.); O.H. Franco (Oscar); L. Franke (Lude); B. THeijman (Bastiaan); J.D. Holbrook (Joanna D.); A.J. Isaacs (Aaron); B.-J. Kim (Bong-Jo); X. Lin (Xu); J. Liu (Jianjun); W. März (Winfried); A. Metspalu (Andres); K.L. Mohlke (Karen); K. Sangher; D. Harambir (Dharambir); X.-O. Shu (Xiao-Ou); J.B.J. van Meurs (Joyce); E.N. Vithana (Eranga); A.R. Wickremasinghe (Ananda); C. Wijmenga (Cisca); B.H.W. Wolffenbuttel (Bruce H.W.); M. Yokota (Mitsuhiro); W. Zheng (Wei); D. Zhu (Dingliang); P. Vineis (Paolo); S.A. Kyrtopoulos (Soterios A.); J.C.S. Kleinjans (Jos C.S.); M.I. McCarthy (Mark); R. Soong (Richie); C. Gieger (Christian); J. Scott (James); Y.Y. Teo (Yik Ying); J. He (Jiang); P. Elliott (Paul); E.S. Tai (Shyong); P. van der Harst (Pim); J.S. Kooner (Jaspal S.); J.C. Chambers (John)

    2015-01-01

    textabstractWe carried out a trans-ancestry genome-wide association and replication study of blood pressure phenotypes among up to 320,251 individuals of East Asian, European and South Asian ancestry. We find genetic variants at 12 new loci to be associated with blood pressure (P = 3.9 × 10 -11 to 5

  19. Trans-ancestry genome-wide association study identifies 12 genetic loci influencing blood pressure and implicates a role for DNA methylation

    DEFF Research Database (Denmark)

    Kato, Norihiro; Loh, Marie; Takeuchi, Fumihiko;

    2015-01-01

    We carried out a trans-ancestry genome-wide association and replication study of blood pressure phenotypes among up to 320,251 individuals of East Asian, European and South Asian ancestry. We find genetic variants at 12 new loci to be associated with blood pressure (P = 3.9 × 10(-11) to 5.0 × 10(...

  20. Towards a holistic review of Pan-Africanism: linking the idea and the movement.

    Science.gov (United States)

    Young, Kurt B

    2010-01-01

    This article explores two general approaches to defining Pan-Africanism. Traditional Pan-Africanism reflects definitions of Pan-Africanism that begin with the assumption that distinctions must be made between early "ideas" of group identification with Africa versus modern organizational activities. However, holistic approaches emphasize the interconnectivity of Pan-African ideas and concrete activities. This discussion explores these approaches and their implications for contemporary analyses of Pan-Africanism. The essay concludes that the holistic line is best suited for developing a new model in Pan-Africanism. PMID:20648996

  1. Adapting health promotion interventions for ethnic minority groups: a qualitative study.

    Science.gov (United States)

    Liu, Jing Jing; Davidson, Emma; Bhopal, Raj; White, Martin; Johnson, Mark; Netto, Gina; Sheikh, Aziz

    2016-06-01

    Adaptation of health interventions has garnered international support across academic disciplines and among various health organizations. Through semi-structured interviews, we sought to explore and understand the perspectives of 26 health researchers and promoters located in the USA, UK, Australia, New Zealand and Norway, working with ethnic minority populations, specifically African-, South Asian- and Chinese-origin populations in the areas of smoking cessation, increasing physical activity and healthy eating, to better understand how adaptation works in practice. We drew on the concepts of intersectionality, representation and context from feminist, sociology and human geography literature, respectively, to help us understand how adaptations for ethnic groups approach the variable of ethnicity. Findings include (i) the intersections of ethnicity and demographic variables such as age and gender highlight the different ways in which people interact, interpret and participate in adapted interventions; (ii) the representational elements of ethnicity such as ancestry or religion are more complexly lived than they are defined in adapted interventions and (iii) the contextual experiences surrounding ethnicity considerations shape the receptivity, durability and continuity of adapted interventions. In conclusion, leveraging the experience and expertise of health researchers and promoters in light of three social science concepts has deepened our understanding of how adaptation works in principle and in practice for ethnic minority populations. PMID:25561680

  2. Worldwide cutaneous malignant melanoma incidences analyzed by sex, age, and skin type over time (1955–2007): Is HPV infection of androgenic hair follicular melanocytes a risk factor for developing melanoma exclusively in people of European-ancestry?

    Science.gov (United States)

    Merrill, Stephen J.; Subramanian, Madhan; Godar, Dianne E.

    2016-01-01

    ABSTRACT The cutaneous malignant melanoma (CMM) incidence has been increasing in an exponential manner in certain populations around the world for over 7 decades. To help illuminate the etiology, we performed worldwide temporal (1955–2007) CMM incidence analysis by sex, age (0–14, 15–29, 30–49, 50–69, 70–85+), and skin type on 6 continents using data from the International Agency for Research on Cancer. We observe an exponential increase in the CMM incidence over time and an increase of about 2 orders of magnitude between age groups 0–14 and 15–29 exclusively in European-ancestry populations around the world independent of skin type (I–III or III–IV). Other populations like the Chinese (III-IV) had much lower CMM incidences that either remained stable or temporally decreased but did not display a dramatic increase between the youngest age groups. The dramatic increase in the incidence between the youngest age groups found only in European-ancestry populations suggests one of the most important risk factors for CMM may be developing androgenic hair, the occurrence of which appears to correlate with the distribution of CMM over male and female body sites. Besides that potential new risk factor, the increasing CMM incidence with increasing age, known not to be from cumulative UV doses, may be associated with age-related changes to skin, i.e., thinning epidermis causing lower vitamin D3 levels, and hair, i.e., whitening from higher reactive oxygen species. The temporal exponential increasing CMM incidence in European-ancestry populations may be due to Human Papilloma Virus infection of follicular hair melanocytes, found in CMM biopsies. PMID:27588159

  3. Worldwide cutaneous malignant melanoma incidences analyzed by sex, age, and skin type over time (1955-2007): Is HPV infection of androgenic hair follicular melanocytes a risk factor for developing melanoma exclusively in people of European-ancestry?

    Science.gov (United States)

    Merrill, Stephen J; Subramanian, Madhan; Godar, Dianne E

    2016-01-01

    The cutaneous malignant melanoma (CMM) incidence has been increasing in an exponential manner in certain populations around the world for over 7 decades. To help illuminate the etiology, we performed worldwide temporal (1955-2007) CMM incidence analysis by sex, age (0-14, 15-29, 30-49, 50-69, 70-85+), and skin type on 6 continents using data from the International Agency for Research on Cancer. We observe an exponential increase in the CMM incidence over time and an increase of about 2 orders of magnitude between age groups 0-14 and 15-29 exclusively in European-ancestry populations around the world independent of skin type (I-III or III-IV). Other populations like the Chinese (III-IV) had much lower CMM incidences that either remained stable or temporally decreased but did not display a dramatic increase between the youngest age groups. The dramatic increase in the incidence between the youngest age groups found only in European-ancestry populations suggests one of the most important risk factors for CMM may be developing androgenic hair, the occurrence of which appears to correlate with the distribution of CMM over male and female body sites. Besides that potential new risk factor, the increasing CMM incidence with increasing age, known not to be from cumulative UV doses, may be associated with age-related changes to skin, i.e., thinning epidermis causing lower vitamin D3 levels, and hair, i.e., whitening from higher reactive oxygen species. The temporal exponential increasing CMM incidence in European-ancestry populations may be due to Human Papilloma Virus infection of follicular hair melanocytes, found in CMM biopsies. PMID:27588159

  4. Support Needs of Overweight African American Women for Weight Loss

    Science.gov (United States)

    Thomas, Janet L.; Stewart, Diana W.; Lynam, Ian M.; Daley, Christine M.; Befort, Christie; Scherber, Robyn M.; Mercurio, Andrea E.; Okuyemi, Kolawole S.; Ahluwalia, Jasjit S.

    2009-01-01

    Objectives: To examine social support needs of obese and overweight African American women for weight loss. Methods: Focus groups were conducted with overweight and obese African American women. Data were analyzed using standard grounded theory text analysis. Results: Our middle-aged (45.7 years; SD = 12.6) women (N = 66) were interested in…

  5. Educational Needs and Barriers for African Refugee Students in Manitoba

    Science.gov (United States)

    Kanu, Yatta

    2008-01-01

    This study investigated the educational needs and barriers for diverse African refugee students in two inner-city high schools in Manitoba. Forty African refugee students, two principals, eight teachers, four parents, and four community leaders participated in the study. Five focus groups, individual interviews, and school and classroom…

  6. Spacing and crowding among African and Caucasian children.

    NARCIS (Netherlands)

    Mugonzibwa, E.A.; Eskeli, R.; Laine-Alava, M.T.; Kuijpers-Jagtman, A.M.; Katsaros, C.

    2008-01-01

    OBJECTIVE: To determine spacing and crowding according to ethnic group, gender and dental emergence stage among Tanzanian African and Caucasian children. DESIGN: Cross-sectional epidemiological clinical study. SETTING: A total of 869 African (428 boys, 441 girls) and 706 Caucasian (319 boys, 387 gir

  7. [Blood proteins in African trypanosomiasis: variations and statistical interpretations].

    Science.gov (United States)

    Cailliez, M; Poupin, F; Pages, J P; Savel, J

    1982-01-01

    The estimation of blood orosomucoid, haptoglobin, C-reactive protein and immunoglobulins levels, has enable us to prove a specific proteic profile in the human african trypanosomiasis, as compared with other that of parasitic diseases, and with an healthy african reference group. Data processing informatique by principal components analysis, provide a valuable pool for epidemiological surveys.

  8. How Continental Bank outsourced its "crown jewels.".

    Science.gov (United States)

    Huber, R L

    1993-01-01

    No industry relies more on information than banking does, yet Continental, one of America's largest banks, outsources its information technology. Why? Because that's the best way to service the customers that form the core of the bank's business, says vice chairman Dick Huber. In the late 1970s and early 1980s, Continental participated heavily with Penn Square Bank in energy investments. When falling energy prices burst Penn Square's bubble in 1982, Continental was stuck with more than $1 billion in bad loans. Eight years later when Dick Huber came on board, Continental was working hard to restore its once solid reputation. Executives had made many tough decisions already, altering the bank's focus from retail to business banking and laying off thousands of employees. Yet management still needed to cut costs and improve services to stay afloat. Regulators, investors, and analysts were watching every step. Continental executives, eager to focus on the bank's core mission of serving business customers, decided to outsource one after another in-house service--from cafeteria services to information technology. While conventional wisdom holds that banks must retain complete internal control of IT, Continental bucked this argument when it entered into a ten-year, multimillion-dollar contract with Integrated Systems Solutions Corporation. Continental is already reaping benefits from outsourcing IT. Most important, Continental staffers today focus on their true core competencies: intimate knowledge of customers' needs and relationships with customers.

  9. Evolution of Oxidative Continental Weathering

    Science.gov (United States)

    Konhauser, Kurt; Lalonde, Stefan

    2014-05-01

    The Great Oxidation Event (GOE) is currently viewed as a protracted process during which atmospheric oxygen levels increased above 10-5 times the present atmospheric level. This value is based on the loss of sulphur isotope mass independent fractionation (S-MIF) from the rock record, beginning at 2.45 Ga and disappearing by 2.32 Ga. However, a number of recent papers have pushed back the timing for oxidative continental weathering, and by extension, the onset of atmospheric oxygenation several hundreds of million years earlier despite the presence of S-MIF (e.g., Crowe et al., 2013). This apparent discrepancy can, in part, be resolved by the suggestion that recycling of older sedimentary sulphur bearing S-MIF might have led to this signal's persistence in the rock record for some time after atmospheric oxygenation (Reinhard et al., 2013). Here we suggest another possibility, that the earliest oxidative weathering reactions occurred in environments at profound redox disequilibrium with the atmosphere, such as biological soil crusts, riverbed and estuarine sediments, and lacustrine microbial mats. We calculate that the rate of O2 production via oxygenic photosynthesis in these terrestrial microbial ecosystems provides largely sufficient oxidizing potential to mobilise sulphate and a number of redox-sensitive trace metals from land to the oceans while the atmosphere itself remained anoxic with its attendant S-MIF signature. These findings reconcile geochemical signatures in the rock record for the earliest oxidative continental weathering with the history of atmospheric sulphur chemistry, and demonstrate the plausible antiquity of a terrestrial biosphere populated by cyanobacteria. Crowe, S.A., Dossing, L.N., Beukes, N.J., Bau, M., Kruger, S.J., Frei, R. & Canfield, D.E. Atmospheric oxygenation three billion years ago. Nature 501, 535-539 (2013). Reinhard, C.T., Planavsky, N.J. & Lyons, T.W. Long-term sedimentary recycling of rare sulphur isotope anomalies. Nature 497

  10. Henipavirus RNA in African bats.

    Directory of Open Access Journals (Sweden)

    Jan Felix Drexler

    Full Text Available BACKGROUND: Henipaviruses (Hendra and Nipah virus are highly pathogenic members of the family Paramyxoviridae. Fruit-eating bats of the Pteropus genus have been suggested as their natural reservoir. Human Henipavirus infections have been reported in a region extending from Australia via Malaysia into Bangladesh, compatible with the geographic range of Pteropus. These bats do not occur in continental Africa, but a whole range of other fruit bats is encountered. One of the most abundant is Eidolon helvum, the African Straw-coloured fruit bat. METHODOLOGY/PRINCIPAL FINDINGS: Feces from E. helvum roosting in an urban setting in Kumasi/Ghana were tested for Henipavirus RNA. Sequences of three novel viruses in phylogenetic relationship to known Henipaviruses were detected. Virus RNA concentrations in feces were low. CONCLUSIONS/SIGNIFICANCE: The finding of novel putative Henipaviruses outside Australia and Asia contributes a significant extension of the region of potential endemicity of one of the most pathogenic virus genera known in humans.

  11. Social and Cultural Factors Influence African American Men's Medical Help Seeking

    Science.gov (United States)

    Griffith, Derek M.; Allen, Julie Ober; Gunter, Katie

    2011-01-01

    Objective: To examine the factors that influenced African American men's medical help seeking. Method: Thematic analysis of 14 focus groups with 105 older, urban African American men. Results: African American men described normative expectations that they did not go to the doctor and that they were afraid to go, with little explanation. When they…

  12. Fractal Simulations of African Design in Pre-College Computing Education

    Science.gov (United States)

    Eglash, Ron; Krishnamoorthy, Mukkai; Sanchez, Jason; Woodbridge, Andrew

    2011-01-01

    This article describes the use of fractal simulations of African design in a high school computing class. Fractal patterns--repetitions of shape at multiple scales--are a common feature in many aspects of African design. In African architecture we often see circular houses grouped in circular complexes, or rectangular houses in rectangular…

  13. African American Faculty Expressing Concerns: Breaking the Silence at Predominantly White Research Oriented Universities

    Science.gov (United States)

    Ross, Henry H.; Edwards, Willie J.

    2016-01-01

    A Delphi method was used with a panel of 24 African American faculty employed at 43 predominantly white doctoral extensive universities to arrive at a group consensus on a list of concerns that African American faculty in general experienced or held. Using the Delphi method a panel of African American faculty initially worked from a list of eight…

  14. Optimal waist-to-height ratio values for cardiometabolic risk screening in an ethnically diverse sample of South African urban and rural school boys and girls.

    Directory of Open Access Journals (Sweden)

    Tandi E Matsha

    Full Text Available BACKGROUND: The proposed waist-to-height ratio (WHtR cut-off of 0.5 is less optimal for cardiometabolic risk screening in children in many settings. The purpose of this study was to determine the optimal WHtR for children from South Africa, and investigate variations by gender, ethnicity and residence in the achieved value. METHODS: Metabolic syndrome (MetS components were measured in 1272 randomly selected learners, aged 10-16 years, comprising of 446 black Africans, 696 mixed-ancestry and 130 Caucasians. The Youden's index and the closest-top-left (CTL point approaches were used to derive WHtR cut-offs for diagnosing any two MetS components, excluding the waist circumference. RESULTS: The two approaches yielded similar cut-off in girls, 0.465 (sensitivity 50.0, specificity 69.5, but two different values in boys, 0.455 (42.9, 88.4 and 0.425 (60.3, 67.7 based on the Youden's index and the CTL point, respectively. Furthermore, WHtR cut-off values derived differed substantially amongst the regions and ethnic groups investigated, whereby the highest cut-off was observed in semi-rural and white children, respectively, Youden's index0.505 (31.6, 87.1 and CTL point 0.475 (44.4, 75.9. CONCLUSION: The WHtR cut-off of 0.5 is less accurate for screening cardiovascular risk in South African children. The optimal value in this setting is likely gender and ethnicity-specific and sensitive to urbanization.

  15. Keeping African Masks Real

    Science.gov (United States)

    Waddington, Susan

    2012-01-01

    Art is a good place to learn about our multicultural planet, and African masks are prized throughout the world as powerfully expressive artistic images. Unfortunately, multicultural education, especially for young children, can perpetuate stereotypes. Masks taken out of context lose their meaning and the term "African masks" suggests that there is…

  16. African agricultural trade

    DEFF Research Database (Denmark)

    Jensen, Hans Grinsted; Sandrey, Ron

    2015-01-01

    This article starts with a profile of African agricultural trade. Using the pre-release version 9.2 of the GTAP database, we then show that the results for tariff elimination on intra-African trade are promising, but these tariff barriers are not as significant as the various trade-related barriers...

  17. African Literature as Celebration.

    Science.gov (United States)

    Achebe, Chinua

    1989-01-01

    Describes the Igbo tradition of "Mbari," a communal creative enterprise that celebrates the world and the life lived in it through art. Contrasts the cooperative, social dimension of pre-colonial African culture with the exclusion and denial of European colonialism, and sees new African literature again celebrating human presence and dignity. (AF)

  18. Empowering African States

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    China helps bring lasting peace and stability to Africa African think tanks expressed a high opinion of China’s role in helping build African peace and security at the first meeting of the China-Africa Think Tanks Forum. The

  19. Continental Growth and the Sedimentary Record

    Science.gov (United States)

    Dhuime, B.; Hawkesworth, C. J.; Robinson, R. A. J.; Cawood, P. A.

    2014-12-01

    Detrital sedimentary rocks provide average samples of the continental crust formed at different times and in different places. Some materials are more susceptible to erosion and/or to preservation bias than others, and one issue is to understand how the compositions of a range of source rocks are then recorded in the sediments. Here we considered two different approaches to model the growth of the continental crust: (i) The variation of Nd isotopes in continental shales with different deposition ages, which requires a correction of the bias induced by preferential erosion of younger rocks through an erosion parameter usually referred to as 'K'. The determination of K, and the extent to which it varies in different erosion systems, thus have fundamental implications for the models of continental growth based on radiogenic isotopes in continental sediments. (ii) The variations in U-Pb, Hf and O isotopes in detrital zircons, from 'modern' sediments sampled worldwide. In this approach, O isotopes are used to screen 'hybrid' Hf model ages (i.e. ages resulting from mixing processes of crustal material from different ages) from Hf model ages that represent actual crust formation ages. These two approaches independently suggest that the continental crust has been generated continuously, but with a marked decrease in the continental growth rate at ~3 Ga. The >4 Ga to ~3 Ga period is characterised by relatively high net rates of continental growth (~3.0 km3.a-1), which are similar to the rates at which new crust is generated, and destroyed, at the present time. Net growth rates are much lower since 3 Ga (~0.8 km3.a-1), which may be attributed to higher rates of destruction of continental crust. The inflexion in the continental growth curve at ~3 Ga indicates a change in the way the crust was generated and preserved. This change may be linked to onset of subduction-driven plate tectonics and discrete subduction zones.

  20. Proportioning whole-genome single-nucleotide-polymorphism diversity for the identification of geographic population structure and genetic ancestry

    NARCIS (Netherlands)

    O. Lao Grueso (Oscar); K. van Duijn (Kate); P. Kersbergen (Paula); P. de Knijff (Peter); M.H. Kayser (Manfred)

    2006-01-01

    textabstractThe identification of geographic population structure and genetic ancestry on the basis of a minimal set of genetic markers is desirable for a wide range of applications in medical and forensic sciences. However, the absence of sharp discontinuities in the neutral genetic diversity among

  1. Proportioning whole-genome single-nucleotide-polymorphism diversity for the identification of geographic population structure and genetic ancestry

    NARCIS (Netherlands)

    O. Lao Grueso (Oscar); K. van Duijn (Kate); P. Kersbergen; P. de Knijff (Peter); M.H. Kayser (Manfred)

    2006-01-01

    textabstractThe identification of geographic population structure and genetic ancestry on the basis of a minimal set of genetic markers is desirable for a wide range of applications in medical and forensic sciences. However, the absence of sharp discontinuities in the neutral genet

  2. Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility

    DEFF Research Database (Denmark)

    Mahajan, Anubha; Go, Min Jin; Zhang, Weihua;

    2014-01-01

    To further understanding of the genetic basis of type 2 diabetes (T2D) susceptibility, we aggregated published meta-analyses of genome-wide association studies (GWAS), including 26,488 cases and 83,964 controls of European, east Asian, south Asian and Mexican and Mexican American ancestry. We obs...

  3. Ancestry inference in complex admixtures via variable-length Markov chain linkage models.

    Science.gov (United States)

    Rodriguez, Jesse M; Bercovici, Sivan; Elmore, Megan; Batzoglou, Serafim

    2013-03-01

    Inferring the ancestral origin of chromosomal segments in admixed individuals is key for genetic applications, ranging from analyzing population demographics and history, to mapping disease genes. Previous methods addressed ancestry inference by using either weak models of linkage disequilibrium, or large models that make explicit use of ancestral haplotypes. In this paper we introduce ALLOY, an efficient method that incorporates generalized, but highly expressive, linkage disequilibrium models. ALLOY applies a factorial hidden Markov model to capture the parallel process producing the maternal and paternal admixed haplotypes, and models the background linkage disequilibrium in the ancestral populations via an inhomogeneous variable-length Markov chain. We test ALLOY in a broad range of scenarios ranging from recent to ancient admixtures with up to four ancestral populations. We show that ALLOY outperforms the previous state of the art, and is robust to uncertainties in model parameters. PMID:23421795

  4. A few laced genes: women's standpoint in the feminist ancestry of Dorothy E. Smith.

    Science.gov (United States)

    Smythe, Deirdre

    2009-04-01

    This article looks at the feminist activism of particular women in the ancestry of the eminent Canadian sociologist, Dorothy E. Smith, and at the archival data that confirm the traces of their influence found in her theory-building. Using the method of interpretative historical sociology and a conceptual framework drawn from Marx called the "productive forces," the article examines the feminist theology of her Quaker ancestor, Margaret Fell, and the militant suffrage activism of her mother and her grandmother, Dorothy Foster Place and Lucy Ellison Abraham, respectively. The article argues that the household labour of the remarkable women in her family line became a "productive force" that facilitated her imagining of the feminist theory, "the standpoint of women". PMID:19999830

  5. Novel European SLC1A4 variant: infantile spasms and population ancestry analysis.

    Science.gov (United States)

    Conroy, Judith; Allen, Nicholas M; Gorman, Kathleen; O'Halloran, Eoghan; Shahwan, Amre; Lynch, Bryan; Lynch, Sally A; Ennis, Sean; King, Mary D

    2016-08-01

    SLC1A4 deficiency is a recently described neurodevelopmental disorder associated with microcephaly, global developmental delay, abnormal myelination, thin corpus callosum and seizures. It has been mainly reported in the Ashkenazi-Jewish population with affected individuals homozygous for the p.Glu256Lys variant. Exome sequencing performed in an Irish proband identified a novel homozygous nonsense SLC1A4 variant [p.Trp453*], confirming a second case of SLC1A4-associated infantile spasms. As this is the first European identified, population ancestry analysis of the Exome Aggregation Consortium database was performed to determine the wider ethnic background of SLC1A4 deficiency carriers. p.Glu256Lys was found in Hispanic and South Asian populations. Other potential disease-causing variants were also identified. Investigation for SLC1A4 deficiency should be performed regardless of ethnicity and extend to include unexplained early-onset epileptic encephalopathy.

  6. The dynamics of mergers and acquisitions: ancestry as the seminal determinant

    Science.gov (United States)

    Viegas, Eduardo; Cockburn, Stuart P.; Jensen, Henrik J.; West, Geoffrey B.

    2014-01-01

    Understanding the fundamental mechanisms behind the complex landscape of corporate mergers and acquisitions is of crucial importance to economies across the world. Adapting ideas from the fields of complexity and evolutionary dynamics to analyse business ecosystems, we show here that ancestry, i.e. the cumulative sum of historical mergers across all ancestors, is the key characteristic to company mergers and acquisitions. We verify this by comparing an agent-based model to an extensive range of business data, covering the period from the 1830s to the present day and a range of industries and geographies. This seemingly universal mechanism leads to imbalanced business ecosystems, with the emergence of a few very large, but sluggish ‘too big to fail’ entities, and very small, niche entities, thereby creating a paradigm where a configuration akin to effective oligopoly or monopoly is a likely outcome for free market systems. PMID:25383025

  7. Intra-familial and ethnic effects on attitudinal and perceptual body image: a cohort of South African mother-daughter dyads

    Directory of Open Access Journals (Sweden)

    Goedecke Julia H

    2011-06-01

    Full Text Available Abstract Background International studies suggest ethnic differences in obesity prevalence may be due, in part, to differences in body image and body size dissatisfaction between groups. Further, there is evidence to suggest that there is a familial resemblance in body image between mothers and their younger (preadolescent daughters. This research was therefore conducted to specifically identify the extent to which family status (presented as mother-daughter resemblance and ethnicity impact on body image attitudes and perceptions of South African mothers and their pre-adolescent daughters. Methods Mother-daughter dyads (n = 201, 31% black, 37% mixed ancestry and 32% white answered questions regarding their body image perception (the way they saw their body size status, their body image ideals, and body image attitudes (body size dissatisfaction in particular, presented as the Feel-Ideal Difference [FID] index score. Mothers' and daughters' body image results were compared within dyads and across ethnic groups using repeated measures of ANOVA. Results Overall, body image resemblances exist between South African mothers and their pre-adolescent daughters. Mothers and daughters chose similarly weighted silhouettes to represent their body size ideals (p = 0.308, regardless of their ethnicity or body mass index (BMI. The FID index scores were similar between mothers and their daughters only after the confounding effects of maternal BMI were removed (p = 0.685. The silhouettes chosen to represent thinness were also similar between mothers and their daughters (p = 0.960 regardless of ethnicity and maternal BMI. On the other hand, the silhouettes chosen to represent fatness were similar (p = 0.342 between mothers and their daughters, only after the confounding effects of maternal BMI were removed. Lastly, mothers and their daughters chose similarly weighted silhouettes as engendering feelings of beauty, respect and happiness (p = 0.813; p = 0.615 and p

  8. The influence of climate on age at menarche: Augmented with the influence of ancestry.

    Science.gov (United States)

    Sohn, Kitae

    2016-08-01

    Samples representative of South Korea, Indonesia, and Peninsular Malaysia were analyzed and the influence of climate on age at menarche was investigated. The sample size was 24,651 for Korea (birth years 1941-1992), for Indonesia 8331 (birth years 1944-1988) plus 20,519 (birth years 1978-1997), and 2842 for Peninsular Malaysia (birth years 1927-1968). Respondents recalled their age at menarche. The mean age at menarche was calculated for each birth year by country, and for Malaysia, additionally by ancestry. It has been found that mean ages at menarche for the early birth years were much younger in Indonesia than in Korea despite similar levels of socioeconomic conditions (proxied by GDP per capita). For example, for the birth year 1944, the mean age at menarche was 14.45 years for Indonesia and 16.19 years for Korea-a difference of 1.74 years. It was necessary to double the Korean GDP per capita to make the Korean mean age at menarche the same as the Indonesian one. Chinese and Malay women in Peninsular Malaysia were further analyzed, and the results provided indirect evidence that the difference between Korea and Indonesia was not due to ancestry differences. Results in multivariate settings provided consistent results. It has been concluded that climate exerts a significant influence on age at menarche because the relatively easy availability of food in the tropics increases energy intake while the absence of cold weather decreases energy expenditure on maintenance and activity. PMID:27369814

  9. Phylogenomic analyses reveal convergent patterns of adaptive evolution in elephant and human ancestries.

    Science.gov (United States)

    Goodman, Morris; Sterner, Kirstin N; Islam, Munirul; Uddin, Monica; Sherwood, Chet C; Hof, Patrick R; Hou, Zhuo-Cheng; Lipovich, Leonard; Jia, Hui; Grossman, Lawrence I; Wildman, Derek E

    2009-12-01

    Specific sets of brain-expressed genes, such as aerobic energy metabolism genes, evolved adaptively in the ancestry of humans and may have evolved adaptively in the ancestry of other large-brained mammals. The recent addition of genomes from two afrotherians (elephant and tenrec) to the expanding set of publically available sequenced mammalian genomes provided an opportunity to test this hypothesis. Elephants resemble humans by having large brains and long life spans; tenrecs, in contrast, have small brains and short life spans. Thus, we investigated whether the phylogenomic patterns of adaptive evolution are more similar between elephant and human than between either elephant and tenrec lineages or human and mouse lineages, and whether aerobic energy metabolism genes are especially well represented in the elephant and human patterns. Our analyses encompassed approximately 6,000 genes in each of these lineages with each gene yielding extensive coding sequence matches in interordinal comparisons. Each gene's nonsynonymous and synonymous nucleotide substitution rates and dN/dS ratios were determined. Then, from gene ontology information on genes with the higher dN/dS ratios, we identified the more prevalent sets of genes that belong to specific functional categories and that evolved adaptively. Elephant and human lineages showed much slower nucleotide substitution rates than tenrec and mouse lineages but more adaptively evolved genes. In correlation with absolute brain size and brain oxygen consumption being largest in elephants and next largest in humans, adaptively evolved aerobic energy metabolism genes were most evident in the elephant lineage and next most evident in the human lineage.

  10. ObStruct: a method to objectively analyse factors driving population structure using Bayesian ancestry profiles.

    Directory of Open Access Journals (Sweden)

    Velimir Gayevskiy

    Full Text Available Bayesian inference methods are extensively used to detect the presence of population structure given genetic data. The primary output of software implementing these methods are ancestry profiles of sampled individuals. While these profiles robustly partition the data into subgroups, currently there is no objective method to determine whether the fixed factor of interest (e.g. geographic origin correlates with inferred subgroups or not, and if so, which populations are driving this correlation. We present ObStruct, a novel tool to objectively analyse the nature of structure revealed in Bayesian ancestry profiles using established statistical methods. ObStruct evaluates the extent of structural similarity between sampled and inferred populations, tests the significance of population differentiation, provides information on the contribution of sampled and inferred populations to the observed structure and crucially determines whether the predetermined factor of interest correlates with inferred population structure. Analyses of simulated and experimental data highlight ObStruct's ability to objectively assess the nature of structure in populations. We show the method is capable of capturing an increase in the level of structure with increasing time since divergence between simulated populations. Further, we applied the method to a highly structured dataset of 1,484 humans from seven continents and a less structured dataset of 179 Saccharomyces cerevisiae from three regions in New Zealand. Our results show that ObStruct provides an objective metric to classify the degree, drivers and significance of inferred structure, as well as providing novel insights into the relationships between sampled populations, and adds a final step to the pipeline for population structure analyses.

  11. Detection of ancestry informative HLA alleles confirms the admixed origins of Japanese population.

    Science.gov (United States)

    Nakaoka, Hirofumi; Mitsunaga, Shigeki; Hosomichi, Kazuyoshi; Shyh-Yuh, Liou; Sawamoto, Taiji; Fujiwara, Tsutomu; Tsutsui, Naohisa; Suematsu, Koji; Shinagawa, Akira; Inoko, Hidetoshi; Inoue, Ituro

    2013-01-01

    The polymorphisms in the human leukocyte antigen (HLA) region are powerful tool for studying human evolutionary processes. We investigated genetic structure of Japanese by using five-locus HLA genotypes (HLA-A, -B, -C, -DRB1, and -DPB1) of 2,005 individuals from 10 regions of Japan. We found a significant level of population substructure in Japanese; particularly the differentiation between Okinawa Island and mainland Japanese. By using a plot of the principal component scores, we identified ancestry informative alleles associated with the underlying population substructure. We examined extent of linkage disequilibrium (LD) between pairs of HLA alleles on the haplotypes that were differentiated among regions. The LDs were strong and weak for pairs of HLA alleles characterized by low and high frequencies in Okinawa Island, respectively. The five-locus haplotypes whose alleles exhibit strong LD were unique to Japanese and South Korean, suggesting that these haplotypes had been recently derived from the Korean Peninsula. The alleles characterized by high frequency in Japanese compared to South Korean formed segmented three-locus haplotype that was commonly found in Aleuts, Eskimos, and North- and Meso-Americans but not observed in Korean and Chinese. The serologically equivalent haplotype was found in Orchid Island in Taiwan, Mongol, Siberia, and Arctic regions. It suggests that early Japanese who existed prior to the migration wave from the Korean Peninsula shared ancestry with northern Asian who moved to the New World via the Bering Strait land bridge. These results may support the admixture model for peopling of Japanese Archipelago. PMID:23577161

  12. Detection of ancestry informative HLA alleles confirms the admixed origins of Japanese population.

    Directory of Open Access Journals (Sweden)

    Hirofumi Nakaoka

    Full Text Available The polymorphisms in the human leukocyte antigen (HLA region are powerful tool for studying human evolutionary processes. We investigated genetic structure of Japanese by using five-locus HLA genotypes (HLA-A, -B, -C, -DRB1, and -DPB1 of 2,005 individuals from 10 regions of Japan. We found a significant level of population substructure in Japanese; particularly the differentiation between Okinawa Island and mainland Japanese. By using a plot of the principal component scores, we identified ancestry informative alleles associated with the underlying population substructure. We examined extent of linkage disequilibrium (LD between pairs of HLA alleles on the haplotypes that were differentiated among regions. The LDs were strong and weak for pairs of HLA alleles characterized by low and high frequencies in Okinawa Island, respectively. The five-locus haplotypes whose alleles exhibit strong LD were unique to Japanese and South Korean, suggesting that these haplotypes had been recently derived from the Korean Peninsula. The alleles characterized by high frequency in Japanese compared to South Korean formed segmented three-locus haplotype that was commonly found in Aleuts, Eskimos, and North- and Meso-Americans but not observed in Korean and Chinese. The serologically equivalent haplotype was found in Orchid Island in Taiwan, Mongol, Siberia, and Arctic regions. It suggests that early Japanese who existed prior to the migration wave from the Korean Peninsula shared ancestry with northern Asian who moved to the New World via the Bering Strait land bridge. These results may support the admixture model for peopling of Japanese Archipelago.

  13. A Method to Exploit the Structure of Genetic Ancestry Space to Enhance Case-Control Studies.

    Science.gov (United States)

    Bodea, Corneliu A; Neale, Benjamin M; Ripke, Stephan; Daly, Mark J; Devlin, Bernie; Roeder, Kathryn

    2016-05-01

    One goal of human genetics is to understand the genetic basis of disease, a challenge for diseases of complex inheritance because risk alleles are few relative to the vast set of benign variants. Risk variants are often sought by association studies in which allele frequencies in case subjects are contrasted with those from population-based samples used as control subjects. In an ideal world we would know population-level allele frequencies, releasing researchers to focus on case subjects. We argue this ideal is possible, at least theoretically, and we outline a path to achieving it in reality. If such a resource were to exist, it would yield ample savings and would facilitate the effective use of data repositories by removing administrative and technical barriers. We call this concept the Universal Control Repository Network (UNICORN), a means to perform association analyses without necessitating direct access to individual-level control data. Our approach to UNICORN uses existing genetic resources and various statistical tools to analyze these data, including hierarchical clustering with spectral analysis of ancestry; and empirical Bayesian analysis along with Gaussian spatial processes to estimate ancestry-specific allele frequencies. We demonstrate our approach using tens of thousands of control subjects from studies of Crohn disease, showing how it controls false positives, provides power similar to that achieved when all control data are directly accessible, and enhances power when control data are limiting or even imperfectly matched ancestrally. These results highlight how UNICORN can enable reliable, powerful, and convenient genetic association analyses without access to the individual-level data. PMID:27087321

  14. The Genetics of Bene Israel from India Reveals Both Substantial Jewish and Indian Ancestry.

    Science.gov (United States)

    Waldman, Yedael Y; Biddanda, Arjun; Davidson, Natalie R; Billing-Ross, Paul; Dubrovsky, Maya; Campbell, Christopher L; Oddoux, Carole; Friedman, Eitan; Atzmon, Gil; Halperin, Eran; Ostrer, Harry; Keinan, Alon

    2016-01-01

    The Bene Israel Jewish community from West India is a unique population whose history before the 18th century remains largely unknown. Bene Israel members consider themselves as descendants of Jews, yet the identity of Jewish ancestors and their arrival time to India are unknown, with speculations on arrival time varying between the 8th century BCE and the 6th century CE. Here, we characterize the genetic history of Bene Israel by collecting and genotyping 18 Bene Israel individuals. Combining with 486 individuals from 41 other Jewish, Indian and Pakistani populations, and additional individuals from worldwide populations, we conducted comprehensive genome-wide analyses based on FST, principal component analysis, ADMIXTURE, identity-by-descent sharing, admixture linkage disequilibrium decay, haplotype sharing and allele sharing autocorrelation decay, as well as contrasted patterns between the X chromosome and the autosomes. The genetics of Bene Israel individuals resemble local Indian populations, while at the same time constituting a clearly separated and unique population in India. They are unique among Indian and Pakistani populations we analyzed in sharing considerable genetic ancestry with other Jewish populations. Putting together the results from all analyses point to Bene Israel being an admixed population with both Jewish and Indian ancestry, with the genetic contribution of each of these ancestral populations being substantial. The admixture took place in the last millennium, about 19-33 generations ago. It involved Middle-Eastern Jews and was sex-biased, with more male Jewish and local female contribution. It was followed by a population bottleneck and high endogamy, which can lead to increased prevalence of recessive diseases in this population. This study provides an example of how genetic analysis advances our knowledge of human history in cases where other disciplines lack the relevant data to do so.

  15. "Sisters of Nia": A Social Justice Advocacy Intervention for School Counselors in Their Work with Adolescent African American Females

    Science.gov (United States)

    Grimes, Lee Edmondson; Haizlip, Breyan; Rogers, Tiffany; Brown, Kimberly D.

    2013-01-01

    Adolescent African American females face multiple obstacles that hinder their educational success. High school completion and college attendance rates remain lower for African American females than those for other racial and gender groups, while pregnancy rates for African American teens are higher. Group work holds promise for meeting the…

  16. Mesoproterozoic Continental Arc Type Granite in the Central Tianshan Mountains: Zircon SHRIMP U-Pb Dating and Geochemical Analyses

    Institute of Scientific and Technical Information of China (English)

    YANG Tiannan; LI Jinyi; SUN Guihua; WANG Yanbin

    2008-01-01

    The Central Tianshan belt in northwestern China is a small Precambrian block located in the southern part of the Central Asia Orogenic Belt (CAOB), which is considered as "the most voluminous block of young continental crust in the world" that comprises numerous small continental blocks separated by Paleozoic magmatic arcs. The Precambrian basement of the central Tianshan Mountains is composed of volcanic rocks and associated volcano-sedimentary rocks that were intruded by granitic plutons. Geochemical analyses demonstrate that the granitic plutons and volcanic rocks were generated in the Andean-type active continental arc environment like today's Chile, and the zircon U-Pb SHRIMP dating indicates that they were developed at about 956 Ma, possibly corresponding to the subduction of the inferred Mozambique Ocean under the Baltic-African super-continent.

  17. African American Diaspora

    Directory of Open Access Journals (Sweden)

    Angela Brown

    2013-07-01

    Full Text Available The migration of blacks in North America through slavery became united.  The population of blacks past downs a tradition of artist through art to native born citizens. The art tradition involved telling stories to each generation in black families. The black culture elevated by tradition created hope to determine their personal freedom to escape from poverty of enslavement and to establish a way of life through tradition. A way of personal freedoms was through getting a good education that lead to a better foundation and a better way of life. With regard to all historic migrations (forced and voluntary, the African Union defined the African diaspora as "[consisting] of people of African origin living outside the continent, irrespective of their citizenship and nationality and who are willing to contribute to the development of the continent and the building of the African Union." Its constitutive act declares that it shall "invite and encourage the full participation of the African diaspora as an important part of our continent, in the building of the African Union." Keywords: literature concepts, African American abstracts

  18. Characterization of genome-wide association-identified variants for atrial fibrillation in African Americans.

    Directory of Open Access Journals (Sweden)

    Jessica T Delaney

    Full Text Available BACKGROUND: Despite a greater burden of risk factors, atrial fibrillation (AF is less common among African Americans than European-descent populations. Genome-wide association studies (GWAS for AF in European-descent populations have identified three predominant genomic regions associated with increased risk (1q21, 4q25, and 16q22. The contribution of these loci to AF risk in African American is unknown. METHODOLOGY/PRINCIPAL FINDINGS: We studied 73 African Americans with AF from the Vanderbilt-Meharry AF registry and 71 African American controls, with no history of AF including after cardiac surgery. Tests of association were performed for 148 SNPs across the three regions associated with AF, and 22 SNPs were significantly associated with AF (P<0.05. The SNPs with the strongest associations in African Americans were both different from the index SNPs identified in European-descent populations and independent from the index European-descent population SNPs (r(2<0.40 in HapMap CEU: 1q21 rs4845396 (odds ratio [OR] 0.30, 95% confidence interval [CI] 0.13-0.67, P = 0.003, 4q25 rs4631108 (OR 3.43, 95% CI 1.59-7.42, P = 0.002, and 16q22 rs16971547 (OR 8.1, 95% CI 1.46-45.4, P = 0.016. Estimates of European ancestry were similar among cases (23.6% and controls (23.8%. Accordingly, the probability of having two copies of the European derived chromosomes at each region did not differ between cases and controls. CONCLUSIONS/SIGNIFICANCE: Variable European admixture at known AF loci does not explain decreased AF susceptibility in African Americans. These data support the role of 1q21, 4q25, and 16q22 variants in AF risk for African Americans, although the index SNPs differ from those identified in European-descent populations.

  19. African American Women’s Limited Knowledge and Experiences with Genetic Counseling for Hereditary Breast Cancer

    OpenAIRE

    Sheppard, Vanessa B.; Graves, Kristi D.; Christopher, Juleen; Hurtado-de-Mendoza, Alejandra; Talley, Costellia; Williams, Karen Patricia

    2013-01-01

    Genetic counseling and testing for hereditary breast cancer have the potential benefit of early detection and early interventions in African American women. However, African American women have low use of these services compared to White women. We conducted two focus groups with African American women diagnosed with breast cancer (affected group, n=13) and women with at least one first-degree relative with breast/ovarian cancer (unaffected group, n= 8). A content analysis approach was employe...

  20. Potential evapotranspiration and continental drying

    Science.gov (United States)

    Milly, P. C. D.; Dunne, K. A.

    2016-10-01

    By various measures (drought area and intensity, climatic aridity index, and climatic water deficits), some observational analyses have suggested that much of the Earth’s land has been drying during recent decades, but such drying seems inconsistent with observations of dryland greening and decreasing pan evaporation. `Offline’ analyses of climate-model outputs from anthropogenic climate change (ACC) experiments portend continuation of putative drying through the twenty-first century, despite an expected increase in global land precipitation. A ubiquitous increase in estimates of potential evapotranspiration (PET), driven by atmospheric warming, underlies the drying trends, but may be a methodological artefact. Here we show that the PET estimator commonly used (the Penman-Monteith PET for either an open-water surface or a reference crop) severely overpredicts the changes in non-water-stressed evapotranspiration computed in the climate models themselves in ACC experiments. This overprediction is partially due to neglect of stomatal conductance reductions commonly induced by increasing atmospheric CO2 concentrations in climate models. Our findings imply that historical and future tendencies towards continental drying, as characterized by offline-computed runoff, as well as other PET-dependent metrics, may be considerably weaker and less extensive than previously thought.

  1. African Peacekeepers in Africa

    DEFF Research Database (Denmark)

    Emmanuel, Nikolas G.

    2015-01-01

    peacekeeping operations in the region. It is important to add that the international community has frequently tried to facilitate the deployment of African armed forces with aid and training. From this reality, the following study goes beyond the current literature by focusing on the international factors...... behind African participation in United Nations (UN) peacekeeping operations in Africa. In doing so, this research focuses on US military aid and foreign troop training from 2002 to 2012, and its impact on African deployments into UN peacekeeping missions in Africa. As can be expected, such third...

  2. Reading the African context

    OpenAIRE

    Musonda Bwalya

    2012-01-01

    There is so much alienation, pain and suffering in our today�s world. In this vein, African Christianity, a voice amongst many voices, should seek to be a transformational religion for the whole of life, affecting all facets of human life towards a fuller life of all in Africa. This article sought to highlight and point to some of the major societal challenges in the African context which African Christianity, as a life-affirming religion, should continue to embrace, re-embrace and engag...

  3. Capitalism and African business cultures

    OpenAIRE

    Taylor, Scott D.

    2014-01-01

    Scholars and practitioners once commonly linked 'African culture' to a distinctive 'African capitalism', at odds with genuine capitalism and the demands of modern business. Yet contemporary African business cultures reveal that a capitalist ethos has taken hold within both state and society. The success and visibility of an emergent, and celebrated, class of African big business reveals that business and profit are culturally acceptable. Existing theories of African capitalism are ill-equippe...

  4. African American Homeschooling Practices: Empirical Evidence

    Science.gov (United States)

    Mazama, Ama

    2016-01-01

    Despite a significant increase in scholarly interest for homeschooling, some of its most critical aspects, such as instructional daily practices, remain grossly understudied. This essay thus seeks to fill that void by presenting empirical evidence regarding the homeschooling practices of a specific group, African Americans. Most specifically, the…

  5. Geometries of hyperextended continental crust in northeastern continental brazilian margin: insights from potential field and seismic interpretation

    Science.gov (United States)

    Magalhães, José; Barbosa, José; Ribeiro, Vanessa; Oliveira, Jefferson; Filho, Osvaldo; Buarque, Bruno

    2016-04-01

    The study region encompasses a set of three basins located at Northeast Brazilian continental margin: Pernambuco (south sector), Paraíba and Natal platform (north sector). These basins were formed during the last stage of separation between South America and African plates during Cretaceous. The continental breakup in these regions occurred probably during the Middle-Upper Albian (~102 m.y). The adjacent basement rocks belong to Borborema Province (BP), which was formed due a complex superposition between Pre-Cambrian orogenic cycles. The structural framework of BP is dominated by large shear zones that divided this province in three main tectonic domains: South, Central and North. The Pernambuco Basin is located in the South Domain and the Paraíba and Natal platform basins are related to the Central Domain. The tectonic and magmatic evolution of the Pernambuco Basin was influenced by oblique rifting (~ 35° to rift axis) and a thermal anomaly probably caused by the Santa Helena hotspot. The north sector represents a continental shelf characterized by basement high with a narrow platform and an abrupt shelf break on transition to the abyssal plain. The continental platform break of this sector was parallel to the rift axis. In this way, we present a regional structural interpretation of these sectors of Brazilian rifted margin based on interpretation and 2D forward modeling of potential field and 2D seismic data. The magnetic maps (Reduction to magnetic pole and Analytic signal) revealed the influence of an alternating pattern of large narrow magnetic and non-magnetic lineaments, oriented NE-SW, E-W and NW-SE. In the Pernambuco Basin these lineaments (NE-SW and E-W) are related to shear zones in the hyperextended basement which is interpreted as a continuation of the granitic-gneissic and metasedimentary rocks of the South Domain of BP. The Paraíba and Natal platform basins show a slight change in the orientation of structures trending E-W (shear zones in

  6. Atlantic NAD 83 Continental Shelf Boundary (CSB)

    Data.gov (United States)

    Bureau of Ocean Energy Management, Department of the Interior — This data set contains Continental Shelf Boundary (CSB) lines in ESRI shapefile format for the BOEM Atlantic Region. The CSB defines the seaward limit of federally...

  7. Continental Shelf Boundary - Alaska NAD83

    Data.gov (United States)

    Bureau of Ocean Energy Management, Department of the Interior — This data set contains Continental Shelf Boundaries (CSB) lines in ESRI shapefile format for the BOEM Alaska Region. The CSB defines the seaward limit of federally...

  8. Modeling the dynamics of continental shelf carbon.

    Science.gov (United States)

    Hofmann, Eileen E; Cahill, Bronwyn; Fennel, Katja; Friedrichs, Marjorie A M; Hyde, Kimberly; Lee, Cindy; Mannino, Antonio; Najjar, Raymond G; O'Reilly, John E; Wilkin, John; Xue, Jianhong

    2011-01-01

    Continental margin systems are important contributors to global nutrient and carbon budgets. Effort is needed to quantify this contribution and how it will be modified under changing patterns of climate and land use. Coupled models will be used to provide projections of future states of continental margin systems. Thus, it is appropriate to consider the limitations that impede the development of realistic models. Here, we provide an overview of the current state of modeling carbon cycling on continental margins as well as the processes and issues that provide the next challenges to such models. Our overview is done within the context of a coupled circulation-biogeochemical model developed for the northeastern North American continental shelf region. Particular choices of forcing and initial fields and process parameterizations are used to illustrate the consequences for simulated distributions, as revealed by comparisons to observations using quantitative statistical metrics. PMID:21329200

  9. Rifting of Continental Interiors: Some New Geophysical Data and Interpretations

    Science.gov (United States)

    Keller, G. R.

    2005-12-01

    Rifting is one of the major processes that affect the evolution of the continents. This process sometimes leads to continental breakup and the formation of new oceans, but more often does not. This is presumably due to extension not progressing sufficiently to form a new plate margin resulting in a structure, which remains isolated in an intra-plate environment. The Southern Oklahoma aulacogen is such a feature, and the continental portion of the East African rift system may be a modern example. As more detailed geophysical and geological studies of rifts have become available in recent years, a complex picture of rift structure and evolution has emerged. Global patterns that reveal the connections between lithospheric structure (deep and shallow), magmatism (amount and style), amount of extension, uplift, and older structures remain elusive. However, our geophysical studies of modern and paleo rifts in North America, East Africa, and Europe makes it possible to make some general observations: 1). Magmatism in rifts is modest without the presence of a (pre-existing?) thermal anomaly in the mantle. 2). Magmatic modification of the crust takes many forms which probably depend on the nature of older structures present and the state of the lithosphere when rifting is initiated (i.e. cold vs. hot; fertility), 3) There is no clear relation between amount of extension and the amount of magmatic modification of the crust. 4) Brittle deformation in the upper crustal is complex, often asymmetrical and older features often play important roles in focusing deformation. However on a lithospheric scale, rift structure is usually symmetrical. 5) A better understanding of rift processes is emerging as we achieve higher levels of integration of a wide variety of geoscience data.

  10. African American women's perceptions of cancer clinical trials

    OpenAIRE

    Haynes-Maslow, Lindsey; Godley, Paul; DiMartino, Lisa; White, Brandolyn; Odom, Janice; Richmond, Alan; Carpenter, William

    2014-01-01

    Cancer clinical trials are important for resolving cancer health disparities for several reasons; however, clinical trial participation among African Americans is significantly lower than Caucasians. This study engaged focus groups of 82 female African American cancer survivors or cancer caregivers, including those in better resourced, more urban areas and less resourced, more rural areas. Informed by an integrated conceptual model, the focus groups examined perceptions of cancer clinical tri...

  11. Freshwater peat on the continental shelf

    Science.gov (United States)

    Emery, K.O.; Wigley, R.L.; Bartlett, A.S.; Rubin, M.; Barghoorn, E.S.

    1967-01-01

    Freshwater peats from the continental shelf off northeastern United States contain the same general pollen sequence as peats from ponds that are above sea level and that are of comparable radiocarbon ages. These peats indicate that during glacial times of low sea level terrestrial vegetation covered the region that is now the continental shelf in an unbroken extension from the adjacent land areas to the north and west.

  12. 5-HTTLPR Polymorphism: Analysis in South African Autistic Individuals

    KAUST Repository

    Arieff, Zainunisha

    2010-06-01

    The serotonin transporter promoter length polymorphism (5-hydroxytryptamine transporter length polymorphism; 5-HTTLPR) has long been implicated in autism and other psychiatric disorders. The use of selective serotonin reuptake inhibitors (SSRIs) has a positive effect on treating some symptoms of autism. The effects of these drugs vary in individuals because of the presence of the S or L allele of 5-HTTLPR. Studies performed on various autistic populations have found different allele frequencies for the L and S alleles. Allele frequencies and genotypes of the South African autistic populations (African, mixed, and Caucasian) were compared with matching South African ethnic control populations. The *S/*S genotype was found to be highly significantly associated with all the South African autistic ethnic populations. In the South African African population the *S/*S genotype was present in 7 (33%) of the autistic individuals but in none of the control subjects, yielding infinitely large odds of developing autism. The odds of developing autism with the *S/*S genotype compared to the *L/*L genotype increased 10.15-fold in the South African mixed group and 2.74-fold in the South African Caucasian population. The allele frequency of the South African autistic population was also compared with studies of other autistic populations around the world, and highly significant differences were found with the Japanese, Korean, and Indian population groups. The difference was not significant for the French, German, Israeli, Portuguese, and American groups. This is the first South African study of autistic individuals of different ethnic backgrounds that shows significant differences in allele and genotype frequencies of 5-HTTLPR. The results of this study open new avenues for investigating the role of transmission of the L and S alleles in families with autism in South Africa.

  13. Paleoproterozoic Greenstone-Granite Belts in Northern Brazil and the Former Guyana Shield - West African Craton Province

    Directory of Open Access Journals (Sweden)

    Ian McReath

    2006-03-01

    Full Text Available The mainly meta-volcano-sedimentary Vila Nova Group and associated granites constitute separate belts, which formpart of a large paleoproterozoic (mainly rhyacian province in the Guyana Shield of which northern Brazil forms a part, andthe West African Craton. In Brazil the southwestern Serra do Ipitinga and Serra Tumucumaque-Serra do Navio belts have noobvious geometrical extensions in the Guyanas or Venezuela, and may represent deposits formed at penecontemporaneouspassive continental margins and ocean floor spreading centres. To the Northeast the Serra Lombarda-Tartarugalzinho andOiapoque belts are continuations of Guianese belts. In the former the igneous rocks have geochemical characteristics ofsuprasubduction environments. Belts in the Guyana Shield and West African Craton have many similar features. Themegaprovince evolved in a number of stages, which may have started at about 2.3 Ga, and continued with diminished activityafter 2.11 Ga. Both major juvenile additions and (possibly minor reworking of earlier crust contributed to the growth of theprovince. The major transcurrent deformation, responsible for the present structure of the belts, probably occurred duringthe later stages of evolution of the province, but metamorphism and deformation are registered even in the oldest rocks.

  14. Stratigraphic Modelling of Continental Rifting

    Science.gov (United States)

    Mondy, Luke; Duclaux, Guillaume; Salles, Tristan; Thomas, Charmaine; Rey, Patrice

    2013-04-01

    Interlinks between deformation and sedimentation have long been recognised as an important factor in the evolution of continental rifts and basins development. However, determining the relative impact of tectonic and climatic forcing on the dynamics of these systems remains a major challenge. This problem in part derives from a lack of modelling tools capable of simulated high detailed surface processes within a large scale (spatially and temporally) tectonic setting. To overcome this issue an innovative framework has been designed using two existing numerical forward modelling codes: Underworld, capable of simulating 3D self-consistent tectonic and thermal lithospheric processes, and Tellus, a forward stratigraphic and geomorphic modelling framework dedicated to simulating highly detailed surface dynamics. The coupling framework enables Tellus to use Underworld outputs as internal and boundary conditions, thereby simulating the stratigraphic and geomorphic evolution of a realistic, active tectonic setting. The resulting models can provide high-resolution data on the stratigraphic record, grain-size variations, sediment provenance, fluvial hydrometric, and landscape evolution. Here we illustrate a one-way coupling method between active tectonics and surface processes in an example of 3D oblique rifting. Our coupled model enables us to visualise the distribution of sediment sources and sinks, and their evolution through time. From this we can extract and analyse at each simulation timestep the stratigraphic record anywhere within the model domain. We find that even from a generic oblique rift model, complex fluvial-deltaic and basin filling dynamics emerge. By isolating the tectonic activity from landscape dynamics with this one-way coupling, we are able to investigate the influence of changes in climate or geomorphic parameters on the sedimentary and landscape record. These impacts can be quantified in part via model post-processing to derive both instantaneous and

  15. 中国东北麻山杂岩晚泛非期变质的锆石SHRIMP年龄证据及全球大陆再造意义%The Mashan Complex: SHRIMP U-Pb zircon evidence for a Late Pan-African metamorphic event in NE China and its implication for global continental reconstructions

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    中国东北地区佳木斯地块南部麻山杂岩正、副片麻岩7个样品的锆石SHRIMP年龄数据首次明确地表明,东北地区存在500Ma的晚泛非期高级变质作用事件。峰期麻粒岩相变质导致柳毛地区(502±10)Ma(2σ)深熔花岗岩的形成。正、副片麻岩变质年龄的一致性表明它们已在变质前发生了构造叠置。西麻山副片麻岩中含有在后期麻粒岩相变质过程中未重结晶的碎屑锆石,由此形成从协和一致的550Ma到弱不一致1900Ma的较大207Pb/206Pb年龄变化范围,表明其原岩具有从新元古代到中元古代-古元古代的年龄。柳毛地区变质的片麻状闪长岩中所含的古老锆石的207Pb/206Pb年龄为546~1460Ma表明,该闪长岩大约在1400Ma就位,并受到500Ma变质事件的影响,从而说明柳毛地区存在中元古代基底。然而,与以前的认识相反,麻山杂岩不存在具有太古宙基底的同位素证据。晚泛非期变质事件年龄的确定对重塑晚前寒武纪-显生宙早期麻山杂岩和佳木斯地块的古地理位置具有重要意义。根据目前获得的有关证据,认为佳木斯地块可能曾经位于冈瓦纳大陆北缘的华北克拉通附近。%SHRIMP U-Pb zircon dating of seven samples of ortho- andparagneisses obtained from the southern outcrop of the Mashan Complex provides the first conclusive evidence for a ~ 500 Ma Late Pan-African high-grade metamorphic event in northeastern China. Peak granulite facies metamorphism resulted in the production of local anatectic granite at Liumao and this gives a 206pb/238U age of (502 ± 10) Ma (2σ). There is no distinction between the metamorphic age of the ortho- and paragneisses, indicating that they were tectonically interleaved prior to metamorphism. Paragneisses from Ximashan contain evidence of detrital zircons that were not recrystallised during the granulite facies metamorphism. These show a spectrum of concordant to weakly

  16. Geological features and geophysical signatures of continental margins of India

    Digital Repository Service at National Institute of Oceanography (India)

    Krishna, K.S.

    and classification of continental margins are in general dependent on style of continental splitting, rifting, subsidence and their proximity to the tectonic plate boundaries, at times the margins undergo for modifications by sediment deposition and volcanic... of super-continents or larger continental masses and rift apart by the formation of new ocean basins in between (Fig. 2). The shape of continental margins is in general constrained by style of continental breakup, rifting, stretching and following...

  17. 论敦达古鲁-巴哈里亚地区的陆相夹层及非洲其他地层中早白垩世恐龙化石的时代%BETWEEN TENDAGURU AND BAHARIYA: ON THE AGE OF THE EARLY CRETACEOUS DINOSAUR SITES FROM THE CONTINENTAL INTERCALAIRE AND OTHER AFRICAN FORMATIONS

    Institute of Scientific and Technical Information of China (English)

    Jean LE LOEUFF; Emilie LANG; Lionel CAVIN; Eric BUFFETAUT

    2012-01-01

    characterized by the association of dinosaurs (Spinosaurus, Carcharodontosaurus), sharks (Onchopristis numidus) and crocodiles (libycosuchids, stomatosuchids). It is suggested that some supposedly Early Cretaceous formations from central Africa (Galula Formation of Tanzania, dinosaur beds of Malawi) are Late Cretaceous in age. Fossil vertebrates seem to be essential to correlate those continental formations.

  18. The African Standby Force and Regional Security Integration

    DEFF Research Database (Denmark)

    Mandrup, Thomas

    2016-01-01

    . Will it therefore ever be able to transform itself into an effective security management regime, with the ability to handle the challenges facing the region? The regional enmities between the states seem to be widespread, deep-rooted and nearly chronic in nature. In June 2015 the African Union and its member states...... announced that they expected the five regionally based standby brigades to be fully operational by December 2015. Their readiness was tested in the continental field exercise, Amani Africa II, that took place in South Africa in October-November 2015 (Defence Web, 2015) The exercise successfully tested both...

  19. The African Standby Force and Regional Security Integration

    DEFF Research Database (Denmark)

    Mandrup, Thomas

    2015-01-01

    the challenges facing the region? The regional enmities between the states seem to be widespread, deep-rooted and of a nearly chronic nature. In June 2015 the African Union and its member-states announced that they expected the five regionally based standby brigades to be fully operational by December 2015....... The readiness is to be tested at a continental field exercise, Amani Africa 11 to take place in South Africa October 2015. (Defence Web, 2015) The article will start by mapping out the security dynamics and architecture in East Africa, including its membership circles and priorities. The article...

  20. The genetic legacy of Lonesome George survives: Giant tortoises with Pinta Island ancestry identified in Galápagos

    OpenAIRE

    Edwards, DL; Benavides, E; Garrick, RC; Gibbs, JP; Russello, MA; Dion, KB; Hyseni, C; Flanagan, JP; Tapia, W. (ed.); Caccone, A

    2013-01-01

    The death of Lonesome George, the last known purebred individual of Chelonoidis abingdoni native to Pinta Island, marked the extinction of one of 10 surviving giant tortoise species from the Galápagos Archipelago. Using a DNA reference dataset including historical C. abingdoni and >1600 living Volcano Wolf tortoise samples, a site on Isabela Island known to harbor hybrid tortoises, we discovered 17 individuals with ancestry in C. abingdoni. These animals belong to various hybrid categories, i...

  1. SEPP1 influences breast cancer risk among women with greater native american ancestry: the breast cancer health disparities study.

    Directory of Open Access Journals (Sweden)

    Andrew J Pellatt

    Full Text Available Selenoproteins are a class of proteins containing a selenocysteine residue, many of which have been shown to have redox functions, acting as antioxidants to decrease oxidative stress. Selenoproteins have previously been associated with risk of various cancers and redox-related diseases. In this study we evaluated possible associations between breast cancer risk and survival and single nucleotide polymorphisms (SNPs in the selenoprotein genes GPX1, GPX2, GPX3, GPX4, SELS, SEP15, SEPN1, SEPP1, SEPW1, TXNRD1, and TXNRD2 among Hispanic/Native American (2111 cases, 2597 controls and non-Hispanic white (NHW (1481 cases, 1586 controls women in the Breast Cancer Health Disparities Study. Adaptive Rank Truncated Product (ARTP analysis was used to determine both gene and pathway significance with these genes. The overall selenoprotein pathway PARTP was not significantly associated with breast cancer risk (PARTP = 0.69, and only one gene, GPX3, was of borderline significance for the overall population (PARTP =0.09 and marginally significant among women with 0-28% Native American (NA ancestry (PARTP=0.06. The SEPP1 gene was statistically significantly associated with breast cancer risk among women with higher NA ancestry (PARTP=0.002 and contributed to a significant pathway among those women (PARTP=0.04. GPX1, GPX3, and SELS were associated with Estrogen Receptor-/Progesterone Receptor+ status (PARTP = 0.002, 0.05, and 0.01, respectively. Four SNPs (GPX3 rs2070593, rsGPX4 rs2074451, SELS rs9874, and TXNRD1 rs17202060 significantly interacted with dietary oxidative balance score after adjustment for multiple comparisons to alter breast cancer risk. GPX4 was significantly associated with breast cancer survival among those with the highest NA ancestry (PARTP = 0.05 only. Our data suggest that SEPP1 alters breast cancer risk among women with higher levels of NA ancestry.

  2. Sex-specific Effects of Exercise Ancestry on Metabolic, Morphological, and Gene Expression Phenotypes in Multiple Generations of Mouse Offspring

    OpenAIRE

    Guth, Lisa M.; Andrew T. Ludlow; Witkowski, Sarah; Marshall, Mallory R.; Lima, Laila C. J.; Venezia, Andrew C.; Xiao, Tao; Lee, Mei-Ling Ting; Spangenburg, Espen E.; Roth, Stephen M.

    2013-01-01

    Early life and pre-conception environmental stimuli can affect adult health-related phenotypes. Exercise training is an environmental stimulus affecting many systems throughout the body and appears to alter offspring phenotypes. The aim of this study was to examine the influence of parental exercise training, or “exercise ancestry,” on morphological and metabolic phenotypes in two generations of mouse offspring. F0 C57BL/6 mice were exposed to voluntary exercise or sedentary lifestyle and bre...

  3. Empirical Selection of Informative Microsatellite Markers within Co-ancestry Pig Populations Is Required for Improving the Individual Assignment Efficiency

    OpenAIRE

    Y. H. Li; Chu, H. P.; Jiang, Y. N.; Lin, C.Y.; Li, S. H.; Li, K. T.; Weng, G. J.; Cheng, C. C.; Lu, D. J.; Ju, Y. T.

    2014-01-01

    The Lanyu is a miniature pig breed indigenous to Lanyu Island, Taiwan. It is distantly related to Asian and European pig breeds. It has been inbred to generate two breeds and crossed with Landrace and Duroc to produce two hybrids for laboratory use. Selecting sets of informative genetic markers to track the genetic qualities of laboratory animals and stud stock is an important function of genetic databases. For more than two decades, Lanyu derived breeds of common ancestry and crossbreeds hav...

  4. HLA class II sequence variants influence tuberculosis risk in populations of European ancestry

    Science.gov (United States)

    Sveinbjornsson, Gardar; Gudbjartsson, Daniel F.; Halldorsson, Bjarni V.; Kristinsson, Karl G.; Gottfredsson, Magnus; Barrett, Jeffrey C.; Gudmundsson, Larus J.; Blondal, Kai; Gylfason, Arnaldur; Gudjonsson, Sigurjon Axel; Helgadottir, Hafdis T.; Jonasdottir, Adalbjorg; Jonasdottir, Aslaug; Karason, Ari; Kardum, Ljiljana Bulat; Knežević, Jelena; Kristjansson, Helgi; Kristjansson, Mar; Love, Arthur; Luo, Yang; Magnusson, Olafur T.; Sulem, Patrick; Kong, Augustine; Masson, Gisli; Thorsteinsdottir, Unnur; Dembic, Zlatko; Nejentsev, Sergey; Blondal, Thorsteinn; Jonsdottir, Ingileif; Stefansson, Kari

    2016-01-01

    Mycobacterium tuberculosis (M. tuberculosis) infections cause 9.0 million new tuberculosis (TB) cases and 1.5 million deaths annually1. To search for sequence variants that confer risk of TB we tested 28.3 million variants identified through whole-genome sequencing of 2,636 Icelanders for association with TB (8,162 cases and 277,643 controls), pulmonary TB (PTB), and M. tuberculosis infection. We found association of three sequence variants in the HLA class II region: rs557011[T] (MAF=40.2%) with M. tuberculosis infection (OR =1.14, P=3.1×10-13) and PTB (OR=1.25, P=5.8×10-12) and rs9271378[G] (MAF=32.5%) with PTB (OR=0.78, P=2.5×10-12), both located between HLA-DQA1 and HLA-DRB1. Finally, a missense variant p.Ala210Thr in HLA-DQA1, (MAF=19.1%, rs9272785) shows association with M. tuberculosis infection (P=9.3×10-9, OR=1.14). The association of these variants with PTB was replicated in large samples of European ancestry from Russia and Croatia (Ptuberculosis, possibly through reduced presentation of protective M. tuberculosis antigens to T cells. PMID:26829749

  5. Genome-Wide DNA Methylation in Mixed Ancestry Individuals with Diabetes and Prediabetes from South Africa

    Science.gov (United States)

    Pheiffer, Carmen; Humphries, Stephen E.; Gamieldien, Junaid; Erasmus, Rajiv T.

    2016-01-01

    Aims. To conduct a genome-wide DNA methylation in individuals with type 2 diabetes, individuals with prediabetes, and control mixed ancestry individuals from South Africa. Methods. We used peripheral blood to perform genome-wide DNA methylation analysis in 3 individuals with screen detected diabetes, 3 individuals with prediabetes, and 3 individuals with normoglycaemia from the Bellville South Community, Cape Town, South Africa, who were age-, gender-, body mass index-, and duration of residency-matched. Methylated DNA immunoprecipitation (MeDIP) was performed by Arraystar Inc. (Rockville, MD, USA). Results. Hypermethylated DMRs were 1160 (81.97%) and 124 (43.20%), respectively, in individuals with diabetes and prediabetes when both were compared to subjects with normoglycaemia. Our data shows that genes related to the immune system, signal transduction, glucose transport, and pancreas development have altered DNA methylation in subjects with prediabetes and diabetes. Pathway analysis based on the functional analysis mapping of genes to KEGG pathways suggested that the linoleic acid metabolism and arachidonic acid metabolism pathways are hypomethylated in prediabetes and diabetes. Conclusions. Our study suggests that epigenetic changes are likely to be an early process that occurs before the onset of overt diabetes. Detailed analysis of DMRs that shows gradual methylation differences from control versus prediabetes to prediabetes versus diabetes in a larger sample size is required to confirm these findings.

  6. Genome-Wide DNA Methylation in Mixed Ancestry Individuals with Diabetes and Prediabetes from South Africa

    Directory of Open Access Journals (Sweden)

    Tandi E. Matsha

    2016-01-01

    Full Text Available Aims. To conduct a genome-wide DNA methylation in individuals with type 2 diabetes, individuals with prediabetes, and control mixed ancestry individuals from South Africa. Methods. We used peripheral blood to perform genome-wide DNA methylation analysis in 3 individuals with screen detected diabetes, 3 individuals with prediabetes, and 3 individuals with normoglycaemia from the Bellville South Community, Cape Town, South Africa, who were age-, gender-, body mass index-, and duration of residency-matched. Methylated DNA immunoprecipitation (MeDIP was performed by Arraystar Inc. (Rockville, MD, USA. Results. Hypermethylated DMRs were 1160 (81.97% and 124 (43.20%, respectively, in individuals with diabetes and prediabetes when both were compared to subjects with normoglycaemia. Our data shows that genes related to the immune system, signal transduction, glucose transport, and pancreas development have altered DNA methylation in subjects with prediabetes and diabetes. Pathway analysis based on the functional analysis mapping of genes to KEGG pathways suggested that the linoleic acid metabolism and arachidonic acid metabolism pathways are hypomethylated in prediabetes and diabetes. Conclusions. Our study suggests that epigenetic changes are likely to be an early process that occurs before the onset of overt diabetes. Detailed analysis of DMRs that shows gradual methylation differences from control versus prediabetes to prediabetes versus diabetes in a larger sample size is required to confirm these findings.

  7. Prokaryotic ancestry and gene fusion of a dual localized peroxiredoxin in malaria parasites

    Directory of Open Access Journals (Sweden)

    Carine F. Djuika

    2015-01-01

    Full Text Available Horizontal gene transfer has emerged as a crucial driving force for the evolution of eukaryotes. This also includes Plasmodium falciparum and related economically and clinically relevant apicomplexan parasites, whose rather small genomes have been shaped not only by natural selection in different host populations but also by horizontal gene transfer following endosymbiosis. However, there is rather little reliable data on horizontal gene transfer between animal hosts or bacteria and apicomplexan parasites. Here we show that apicomplexan homologues of peroxiredoxin 5 (Prx5 have a prokaryotic ancestry and therefore represent a special subclass of Prx5 isoforms in eukaryotes. Using two different immunobiochemical approaches, we found that the P. falciparum Prx5 homologue is dually localized to the parasite plastid and cytosol. This dual localization is reflected by a modular Plasmodium-specific gene architecture consisting of two exons. Despite the plastid localization, our phylogenetic analyses contradict an acquisition by secondary endosymbiosis and support a gene fusion event following a horizontal prokaryote-to-eukaryote gene transfer in early apicomplexans. The results provide unexpected insights into the evolution of apicomplexan parasites as well as the molecular evolution of peroxiredoxins, an important family of ubiquitous, usually highly concentrated thiol-dependent hydroperoxidases that exert functions as detoxifying enzymes, redox sensors and chaperones.

  8. Mitochondrial control region genetic diversity and maternal ancestry of a Brangus-Ibage cattle populations

    Directory of Open Access Journals (Sweden)

    Luiz Ernani Henkes

    2005-03-01

    Full Text Available The genetic diversity of 277 nucleotides in the mitochondrial DNA control region (nt 15,964 to 16,240 in reference sequence was analyzed in crossbreed beef cattle (Brangus-Ibage, 5/8 Bos primigenius taurus x 3/8 Bos primigenius indicus as well as in some Nellore samples (B. p. indicus. Fifty-seven mutations were found in Brangus-Ibage comprising 18 haplotypes (haplotype diversity, h = 0.851 ± 0.041 and nucleotide diversity, ntd = 0.009 ± 0.006 and 66 in Nellore (h = 1.00 ± 0.27, ntd = 0.014 ± 0.012. These data indicated sequence identities of 99.6 and 92.1% between the B. p. taurus' reference sequence and Brangus-Ibage and Nellore, respectively. The comparison of our data with sequence data for 612 individuals recovered from GenBank showed a total of 205 haplotypes defined by 99 polymorphic sites. Most of the variability (53% was due to differentiation within breeds. The phylogenetic tree constructed using the neighbor-joining method showed clearly the well-known dichotomy between B. p. taurus and B. p. indicus. The Brangus-Ibage clustered with B. p. taurus lineages; however, the displacement of Nellore from B. p. indicus branch probably indicates a substantial B. p. taurus maternal ancestry in some Nellore samples (obtained from GenBank and reflects the primarily male-driven introduction of this breed in Brazil.

  9. Six new polymorphic microsatellite loci isolated and characterized from the African savannah elephant genome

    DEFF Research Database (Denmark)

    Nyakaana, Silvester; Okello, John Bosco A.; Muwanika, Vincent B.;

    2005-01-01

    The African savannah elephant (Loxodonta africana) is a 'keystone' species that plays a vital role in regulating the dynamics of both plant and animal communities and yet it is endangered and its numbers have been reduced to approximately 500 000 across their entire continental range. Molecular...... genetic markers are important tools for providing genetic information useful in formulating effective management and conservation strategies for the surviving elephant populations. We describe the isolation and characterization of six new polymorphic microsatellite markers in the African savannah elephant...

  10. Colorectal Cancer in African Americans: An Update.

    Science.gov (United States)

    Williams, Renee; White, Pascale; Nieto, Jose; Vieira, Dorice; Francois, Fritz; Hamilton, Frank

    2016-01-01

    This review is an update to the American College of Gastroenterology (ACG) Committee on Minority Affairs and Cultural Diversity's paper on colorectal cancer (CRC) in African Americans published in 2005. Over the past 10 years, the incidence and mortality rates of CRC in the United States has steadily declined. However, reductions have been strikingly much slower among African Americans who continue to have the highest rate of mortality and lowest survival when compared with all other racial groups. The reasons for the health disparities are multifactorial and encompass physician and patient barriers. Patient factors that contribute to disparities include poor knowledge of benefits of CRC screening, limited access to health care, insurance status along with fear and anxiety. Physician factors include lack of knowledge of screening guidelines along with disparate recommendations for screening. Earlier screening has been recommended as an effective strategy to decrease observed disparities; currently the ACG and American Society of Gastrointestinal Endoscopists recommend CRC screening in African Americans to begin at age 45. Despite the decline in CRC deaths in all racial and ethnic groups, there still exists a significant burden of CRC in African Americans, thus other strategies including educational outreach for health care providers and patients and the utilization of patient navigation systems emphasizing the importance of screening are necessary. These strategies have been piloted in both local communities and Statewide resulting in notable significant decreases in observed disparities. PMID:27467183

  11. African-Americans and Alzheimer's

    Science.gov (United States)

    ... Share Plus on Google Plus African-Americans and Alzheimer's alz.org | IHaveAlz Introduction 10 Warning Signs Brain ... African-Americans are at a higher risk for Alzheimer's disease. Many Americans dismiss the warning signs of ...

  12. Atlas of prostate cancer heritability in European and African-American men pinpoints tissue-specific regulation.

    Science.gov (United States)

    Gusev, Alexander; Shi, Huwenbo; Kichaev, Gleb; Pomerantz, Mark; Li, Fugen; Long, Henry W; Ingles, Sue A; Kittles, Rick A; Strom, Sara S; Rybicki, Benjamin A; Nemesure, Barbara; Isaacs, William B; Zheng, Wei; Pettaway, Curtis A; Yeboah, Edward D; Tettey, Yao; Biritwum, Richard B; Adjei, Andrew A; Tay, Evelyn; Truelove, Ann; Niwa, Shelley; Chokkalingam, Anand P; John, Esther M; Murphy, Adam B; Signorello, Lisa B; Carpten, John; Leske, M Cristina; Wu, Suh-Yuh; Hennis, Anslem J M; Neslund-Dudas, Christine; Hsing, Ann W; Chu, Lisa; Goodman, Phyllis J; Klein, Eric A; Witte, John S; Casey, Graham; Kaggwa, Sam; Cook, Michael B; Stram, Daniel O; Blot, William J; Eeles, Rosalind A; Easton, Douglas; Kote-Jarai, Zsofia; Al Olama, Ali Amin; Benlloch, Sara; Muir, Kenneth; Giles, Graham G; Southey, Melissa C; Fitzgerald, Liesel M; Gronberg, Henrik; Wiklund, Fredrik; Aly, Markus; Henderson, Brian E; Schleutker, Johanna; Wahlfors, Tiina; Tammela, Teuvo L J; Nordestgaard, Børge G; Key, Tim J; Travis, Ruth C; Neal, David E; Donovan, Jenny L; Hamdy, Freddie C; Pharoah, Paul; Pashayan, Nora; Khaw, Kay-Tee; Stanford, Janet L; Thibodeau, Stephen N; McDonnell, Shannon K; Schaid, Daniel J; Maier, Christiane; Vogel, Walther; Luedeke, Manuel; Herkommer, Kathleen; Kibel, Adam S; Cybulski, Cezary; Wokolorczyk, Dominika; Kluzniak, Wojciech; Cannon-Albright, Lisa; Teerlink, Craig; Brenner, Hermann; Dieffenbach, Aida K; Arndt, Volker; Park, Jong Y; Sellers, Thomas A; Lin, Hui-Yi; Slavov, Chavdar; Kaneva, Radka; Mitev, Vanio; Batra, Jyotsna; Spurdle, Amanda; Clements, Judith A; Teixeira, Manuel R; Pandha, Hardev; Michael, Agnieszka; Paulo, Paula; Maia, Sofia; Kierzek, Andrzej; Conti, David V; Albanes, Demetrius; Berg, Christine; Berndt, Sonja I; Campa, Daniele; Crawford, E David; Diver, W Ryan; Gapstur, Susan M; Gaziano, J Michael; Giovannucci, Edward; Hoover, Robert; Hunter, David J; Johansson, Mattias; Kraft, Peter; Le Marchand, Loic; Lindström, Sara; Navarro, Carmen; Overvad, Kim; Riboli, Elio; Siddiq, Afshan; Stevens, Victoria L; Trichopoulos, Dimitrios; Vineis, Paolo; Yeager, Meredith; Trynka, Gosia; Raychaudhuri, Soumya; Schumacher, Frederick R; Price, Alkes L; Freedman, Matthew L; Haiman, Christopher A; Pasaniuc, Bogdan

    2016-04-07

    Although genome-wide association studies have identified over 100 risk loci that explain ∼33% of familial risk for prostate cancer (PrCa), their functional effects on risk remain largely unknown. Here we use genotype data from 59,089 men of European and African American ancestries combined with cell-type-specific epigenetic data to build a genomic atlas of single-nucleotide polymorphism (SNP) heritability in PrCa. We find significant differences in heritability between variants in prostate-relevant epigenetic marks defined in normal versus tumour tissue as well as between tissue and cell lines. The majority of SNP heritability lies in regions marked by H3k27 acetylation in prostate adenoc7arcinoma cell line (LNCaP) or by DNaseI hypersensitive sites in cancer cell lines. We find a high degree of similarity between European and African American ancestries suggesting a similar genetic architecture from common variation underlying PrCa risk. Our findings showcase the power of integrating functional annotation with genetic data to understand the genetic basis of PrCa.

  13. Atlas of prostate cancer heritability in European and African-American men pinpoints tissue-specific regulation

    Science.gov (United States)

    Gusev, Alexander; Shi, Huwenbo; Kichaev, Gleb; Pomerantz, Mark; Li, Fugen; Long, Henry W.; Ingles, Sue A.; Kittles, Rick A.; Strom, Sara S.; Rybicki, Benjamin A.; Nemesure, Barbara; Isaacs, William B.; Zheng, Wei; Pettaway, Curtis A.; Yeboah, Edward D.; Tettey, Yao; Biritwum, Richard B.; Adjei, Andrew A.; Tay, Evelyn; Truelove, Ann; Niwa, Shelley; Chokkalingam, Anand P.; John, Esther M.; Murphy, Adam B.; Signorello, Lisa B.; Carpten, John; Leske, M. Cristina; Wu, Suh-Yuh; Hennis, Anslem J. M.; Neslund-Dudas, Christine; Hsing, Ann W.; Chu, Lisa; Goodman, Phyllis J.; Klein, Eric A.; Witte, John S.; Casey, Graham; Kaggwa, Sam; Cook, Michael B.; Stram, Daniel O.; Blot, William J.; Eeles, Rosalind A.; Easton, Douglas; Kote-Jarai, ZSofia; Al Olama, Ali Amin; Benlloch, Sara; Muir, Kenneth; Giles, Graham G.; Southey, Melissa C.; Fitzgerald, Liesel M.; Gronberg, Henrik; Wiklund, Fredrik; Aly, Markus; Henderson, Brian E.; Schleutker, Johanna; Wahlfors, Tiina; Tammela, Teuvo L. J.; Nordestgaard, Børge G.; Key, Tim J.; Travis, Ruth C.; Neal, David E.; Donovan, Jenny L.; Hamdy, Freddie C.; Pharoah, Paul; Pashayan, Nora; Khaw, Kay-Tee; Stanford, Janet L.; Thibodeau, Stephen N.; McDonnell, Shannon K.; Schaid, Daniel J.; Maier, Christiane; Vogel, Walther; Luedeke, Manuel; Herkommer, Kathleen; Kibel, Adam S.; Cybulski, Cezary; Wokolorczyk, Dominika; Kluzniak, Wojciech; Cannon-Albright, Lisa; Teerlink, Craig; Brenner, Hermann; Dieffenbach, Aida K.; Arndt, Volker; Park, Jong Y.; Sellers, Thomas A.; Lin, Hui-Yi; Slavov, Chavdar; Kaneva, Radka; Mitev, Vanio; Batra, Jyotsna; Spurdle, Amanda; Clements, Judith A.; Teixeira, Manuel R.; Pandha, Hardev; Michael, Agnieszka; Paulo, Paula; Maia, Sofia; Kierzek, Andrzej; Cook, Margaret; Guy, Michelle; Govindasami, Koveela; Leongamornlert, Daniel; Sawyer, Emma J.; Wilkinson, Rosemary; Saunders, Edward J.; Tymrakiewicz, Malgorzata; Dadaev, Tokhir; Morgan, Angela; Fisher, Cyril; Hazel, Steve; Livni, Naomi; Lophatananon, Artitaya; Pedersen, John; Hopper, John L.; Adolfson, Jan; Stattin, Paer; Johansson, Jan-Erik; Cavalli-Bjoerkman, Carin; Karlsson, Ami; Broms, Michael; Auvinen, Anssi; Kujala, Paula; Maeaettaenen, Liisa; Murtola, Teemu; Taari, Kimmo; Weischer, Maren; Nielsen, Sune F.; Klarskov, Peter; Roder, Andreas; Iversen, Peter; Wallinder, Hans; Gustafsson, Sven; Cox, Angela; Brown, Paul; George, Anne; Marsden, Gemma; Lane, Athene; Davis, Michael; Zheng, Wei; Signorello, Lisa B.; Blot, William J.; Tillmans, Lori; Riska, Shaun; Wang, Liang; Rinckleb, Antje; Lubiski, Jan; Stegmaier, Christa; Pow-Sang, Julio; Park, Hyun; Radlein, Selina; Rincon, Maria; Haley, James; Zachariah, Babu; Kachakova, Darina; Popov, Elenko; Mitkova, Atanaska; Vlahova, Aleksandrina; Dikov, Tihomir; Christova, Svetlana; Heathcote, Peter; Wood, Glenn; Malone, Greg; Saunders, Pamela; Eckert, Allison; Yeadon, Trina; Kerr, Kris; Collins, Angus; Turner, Megan; Srinivasan, Srilakshmi; Kedda, Mary-Anne; Alexander, Kimberly; Omara, Tracy; Wu, Huihai; Henrique, Rui; Pinto, Pedro; Santos, Joana; Barros-Silva, Joao; Conti, David V.; Albanes, Demetrius; Berg, Christine; Berndt, Sonja I.; Campa, Daniele; Crawford, E. David; Diver, W. Ryan; Gapstur, Susan M.; Gaziano, J. Michael; Giovannucci, Edward; Hoover, Robert; Hunter, David J.; Johansson, Mattias; Kraft, Peter; Le Marchand, Loic; Lindström, Sara; Navarro, Carmen; Overvad, Kim; Riboli, Elio; Siddiq, Afshan; Stevens, Victoria L.; Trichopoulos, Dimitrios; Vineis, Paolo; Yeager, Meredith; Trynka, Gosia; Raychaudhuri, Soumya; Schumacher, Frederick R.; Price, Alkes L.; Freedman, Matthew L.; Haiman, Christopher A.; Pasaniuc, Bogdan

    2016-01-01

    Although genome-wide association studies have identified over 100 risk loci that explain ∼33% of familial risk for prostate cancer (PrCa), their functional effects on risk remain largely unknown. Here we use genotype data from 59,089 men of European and African American ancestries combined with cell-type-specific epigenetic data to build a genomic atlas of single-nucleotide polymorphism (SNP) heritability in PrCa. We find significant differences in heritability between variants in prostate-relevant epigenetic marks defined in normal versus tumour tissue as well as between tissue and cell lines. The majority of SNP heritability lies in regions marked by H3k27 acetylation in prostate adenoc7arcinoma cell line (LNCaP) or by DNaseI hypersensitive sites in cancer cell lines. We find a high degree of similarity between European and African American ancestries suggesting a similar genetic architecture from common variation underlying PrCa risk. Our findings showcase the power of integrating functional annotation with genetic data to understand the genetic basis of PrCa. PMID:27052111

  14. A genome-wide association study of serum uric acid in African Americans

    Directory of Open Access Journals (Sweden)

    Gerry Norman P

    2011-02-01

    Full Text Available Abstract Background Uric acid is the primary byproduct of purine metabolism. Hyperuricemia is associated with body mass index (BMI, sex, and multiple complex diseases including gout, hypertension (HTN, renal disease, and type 2 diabetes (T2D. Multiple genome-wide association studies (GWAS in individuals of European ancestry (EA have reported associations between serum uric acid levels (SUAL and specific genomic loci. The purposes of this study were: 1 to replicate major signals reported in EA populations; and 2 to use the weak LD pattern in African ancestry population to better localize (fine-map reported loci and 3 to explore the identification of novel findings cognizant of the moderate sample size. Methods African American (AA participants (n = 1,017 from the Howard University Family Study were included in this study. Genotyping was performed using the Affymetrix® Genome-wide Human SNP Array 6.0. Imputation was performed using MACH and the HapMap reference panels for CEU and YRI. A total of 2,400,542 single nucleotide polymorphisms (SNPs were assessed for association with serum uric acid under the additive genetic model with adjustment for age, sex, BMI, glomerular filtration rate, HTN, T2D, and the top two principal components identified in the assessment of admixture and population stratification. Results Four variants in the gene SLC2A9 achieved genome-wide significance for association with SUAL (p-values ranging from 8.88 × 10-9 to 1.38 × 10-9. Fine-mapping of the SLC2A9 signals identified a 263 kb interval of linkage disequilibrium in the HapMap CEU sample. This interval was reduced to 37 kb in our AA and the HapMap YRI samples. Conclusions The most strongly associated locus for SUAL in EA populations was also the most strongly associated locus in this AA sample. This finding provides evidence for the role of SLC2A9 in uric acid metabolism across human populations. Additionally, our findings demonstrate the utility of following-up EA

  15. "Mom Made Me Do It": The Role of Family in African Americans' Decisions to Enroll in Doctoral Education

    Science.gov (United States)

    McCallum, Carmen M.

    2016-01-01

    Large disparities exist among African Americans and other cultural groups in doctoral degree enrollment and degree attainment. To address this concern, scholars have focused on why African Americans do not pursue doctoral degrees. Although informative, this deficit perspective does not explain the factors that encourage African Americans to enroll…

  16. African Cultural Astronomy

    CERN Document Server

    Holbrook, Jarita C; Medupe, R. Thebe; Current Archaeoastronomy and Ethnoastronomy research in Africa

    2008-01-01

    Astronomy is the science of studying the sky using telescopes and light collectors such as photographic plates or CCD detectors. However, people have always studied the sky and continue to study the sky without the aid of instruments this is the realm of cultural astronomy. This is the first scholarly collection of articles focused on the cultural astronomy of Africans. It weaves together astronomy, anthropology, and Africa. The volume includes African myths and legends about the sky, alignments to celestial bodies found at archaeological sites and at places of worship, rock art with celestial imagery, and scientific thinking revealed in local astronomy traditions including ethnomathematics and the creation of calendars. Authors include astronomers Kim Malville, Johnson Urama, and Thebe Medupe; archaeologist Felix Chami, and geographer Michael Bonine, and many new authors. As an emerging subfield of cultural astronomy, African cultural astronomy researchers are focused on training students specifically for do...

  17. A meta-analysis and genome-wide association study of platelet count and mean platelet volume in african americans.

    Directory of Open Access Journals (Sweden)

    Rehan Qayyum

    Full Text Available Several genetic variants associated with platelet count and mean platelet volume (MPV were recently reported in people of European ancestry. In this meta-analysis of 7 genome-wide association studies (GWAS enrolling African Americans, our aim was to identify novel genetic variants associated with platelet count and MPV. For all cohorts, GWAS analysis was performed using additive models after adjusting for age, sex, and population stratification. For both platelet phenotypes, meta-analyses were conducted using inverse-variance weighted fixed-effect models. Platelet aggregation assays in whole blood were performed in the participants of the GeneSTAR cohort. Genetic variants in ten independent regions were associated with platelet count (N = 16,388 with p<5×10(-8 of which 5 have not been associated with platelet count in previous GWAS. The novel genetic variants associated with platelet count were in the following regions (the most significant SNP, closest gene, and p-value: 6p22 (rs12526480, LRRC16A, p = 9.1×10(-9, 7q11 (rs13236689, CD36, p = 2.8×10(-9, 10q21 (rs7896518, JMJD1C, p = 2.3×10(-12, 11q13 (rs477895, BAD, p = 4.9×10(-8, and 20q13 (rs151361, SLMO2, p = 9.4×10(-9. Three of these loci (10q21, 11q13, and 20q13 were replicated in European Americans (N = 14,909 and one (11q13 in Hispanic Americans (N = 3,462. For MPV (N = 4,531, genetic variants in 3 regions were significant at p<5×10(-8, two of which were also associated with platelet count. Previously reported regions that were also significant in this study were 6p21, 6q23, 7q22, 12q24, and 19p13 for platelet count and 7q22, 17q11, and 19p13 for MPV. The most significant SNP in 1 region was also associated with ADP-induced maximal platelet aggregation in whole blood (12q24. Thus through a meta-analysis of GWAS enrolling African Americans, we have identified 5 novel regions associated with platelet count of which 3 were replicated in other ethnic

  18. African names for American plants

    NARCIS (Netherlands)

    Andel, van T.R.

    2015-01-01

    African slaves brought plant knowledge to the New World, sometimes applying it to related plants they found there and sometimes bringing Old World plants with them. By tracing the linguistic parallels between names for plants in African languages and in communities descended from African slaves, pie

  19. The Struggles over African Languages

    Science.gov (United States)

    Maseko, Pam; Vale, Peter

    2016-01-01

    In this interview, African Language expert Pam Maseko speaks of her own background and her first encounter with culture outside of her mother tongue, isiXhosa. A statistical breakdown of South African languages is provided as background. She discusses Western (originally missionary) codification of African languages and suggests that this approach…

  20. African Oral Traditions: Riddles Among The Haya of Northwestern Tanzania

    Science.gov (United States)

    Ishengoma, Johnson M.

    2005-05-01

    This study argues for the integration of African oral traditions and other elements of traditional learning into the modern school curriculum. It thus contributes to supporting the increased relevance of education to local communities. In particular, using the example of riddles collected from one of the main ethnic groups in Northwestern Tanzania, the Haya people, the present study challenges the views of those social and cultural anthropologists who hold that African riddles have no substantially meaningful educational value. Instead, it is maintained that riddles make an important contribution to children's full participation in the social, cultural, political, and economic life of African communities, especially by fostering critical thinking and transmitting indigenous knowledge.

  1. Autosomal and X-linked single nucleotide polymorphisms reveal a steep Asian-Melanesian ancestry cline in eastern Indonesia and a sex bias in admixture rates.

    Science.gov (United States)

    Cox, Murray P; Karafet, Tatiana M; Lansing, J Stephen; Sudoyo, Herawati; Hammer, Michael F

    2010-05-22

    The geographical region between mainland Asia and New Guinea is characterized by numerous small islands with isolated human populations. Phenotypically, groups in the west are similar to their neighbours in mainland Southeast Asia, eastern groups near New Guinea are similar to Melanesians, and intervening populations are intermediate in appearance. A long-standing question is whether this pattern primarily reflects mixing between groups with distinct origins or whether natural selection has shaped this range of variation by acting differentially on populations across the region. To address this question, we genotyped a set of 37 single nucleotide polymorphisms that are evolutionarily independent, putatively neutral and highly informative for Asian-Melanesian ancestry in 1430 individuals from 60 populations spanning mainland Asia to Melanesia. Admixture analysis reveals a sharp transition from Asian to Melanesian genetic variants over a narrow geographical region in eastern Indonesia. Interestingly, this admixture cline roughly corresponds to the human phenotypic boundary noted by Alfred Russell Wallace in 1869. We conclude that this phenotypic gradient probably reflects mixing of two long-separated ancestral source populations-one descended from the initial Melanesian-like inhabitants of the region, and the other related to Asian groups that immigrated during the Paleolithic and/or with the spread of agriculture. A higher frequency of Asian X-linked markers relative to autosomal markers throughout the transition zone suggests that the admixture process was sex-biased, either favouring a westward expansion of patrilocal Melanesian groups or an eastward expansion of matrilocal Asian immigrants. The matrilocal marriage practices that dominated early Austronesian societies may be one factor contributing to this observed sex bias in admixture rates.

  2. Autosomal and X-linked single nucleotide polymorphisms reveal a steep Asian–Melanesian ancestry cline in eastern Indonesia and a sex bias in admixture rates

    Science.gov (United States)

    Cox, Murray P.; Karafet, Tatiana M.; Lansing, J. Stephen; Sudoyo, Herawati; Hammer, Michael F.

    2010-01-01

    The geographical region between mainland Asia and New Guinea is characterized by numerous small islands with isolated human populations. Phenotypically, groups in the west are similar to their neighbours in mainland Southeast Asia, eastern groups near New Guinea are similar to Melanesians, and intervening populations are intermediate in appearance. A long-standing question is whether this pattern primarily reflects mixing between groups with distinct origins or whether natural selection has shaped this range of variation by acting differentially on populations across the region. To address this question, we genotyped a set of 37 single nucleotide polymorphisms that are evolutionarily independent, putatively neutral and highly informative for Asian–Melanesian ancestry in 1430 individuals from 60 populations spanning mainland Asia to Melanesia. Admixture analysis reveals a sharp transition from Asian to Melanesian genetic variants over a narrow geographical region in eastern Indonesia. Interestingly, this admixture cline roughly corresponds to the human phenotypic boundary noted by Alfred Russell Wallace in 1869. We conclude that this phenotypic gradient probably reflects mixing of two long-separated ancestral source populations—one descended from the initial Melanesian-like inhabitants of the region, and the other related to Asian groups that immigrated during the Paleolithic and/or with the spread of agriculture. A higher frequency of Asian X-linked markers relative to autosomal markers throughout the transition zone suggests that the admixture process was sex-biased, either favouring a westward expansion of patrilocal Melanesian groups or an eastward expansion of matrilocal Asian immigrants. The matrilocal marriage practices that dominated early Austronesian societies may be one factor contributing to this observed sex bias in admixture rates. PMID:20106848

  3. Tribe and Village in African Organizations and Business

    DEFF Research Database (Denmark)

    Kragh, Simon Ulrik

    2016-01-01

    Purpose – The purpose of this paper is to show that organizational behaviour and business relations in African countries reflect preindustrial social norms typical of kinship based, rural communities such as in-group/out-group differentiation, reliance on kinship and the use of gift-exchange to c...... of social distance and reciprocity showing how this theory explains behaviours in and between African organizations.......-exchange to create and strengthen social bonds. Design/methodology/approach – Two books on African management are interpreted using anthropological and sociological theory as the analytical perspective. Findings – The analysis of the two works suggests that the preindustrial patterns described in the anthropological...... literature play a central role in African management and business. Practical implications – The paper concludes that manager should recognize the negative effects that may follow from a rejection of these socio-cultural patterns of behaviour. Originality/value – It introduces Marshall Sahlins’ theory...

  4. Psychiatric symptoms in offspring of within vs. across racial/ethnic marriages.

    Science.gov (United States)

    Danko, G P; Miyamoto, R H; Foster, J E; Johnson, R C; Andrade, N N; Yates, A; Edman, J L

    1997-01-01

    A large number of adolescents of interracial ancestry (parents comprising various combinations of African-American, American Indian/Alaska Native, European-American, Chinese, Filipino, Hispanic, Japanese, Korean, Puerto Rican, Samoan, and Tongan ancestry) were contrasted with a monoracial European-American sample in the degree to which they reported symptoms of depression, anxiety, conduct disorder/aggression, and substance abuse. The adolescents of interracial ancestry were subdivided into three groups in terms of parental ancestry: both parents of interracial ancestry, one parent of interracial and the other of monoracial ancestry, and both parents of monoracial but different ancestries. The interracial ancestry groups did not differ significantly from one another or from the European American sample in terms of symptom scores.

  5. Insights into the Genetic Relationships and Breeding Patterns of the African Tea Germplasm Based on nSSR Markers and cpDNA Sequences.

    Science.gov (United States)

    Wambulwa, Moses C; Meegahakumbura, Muditha K; Kamunya, Samson; Muchugi, Alice; Möller, Michael; Liu, Jie; Xu, Jian-Chu; Ranjitkar, Sailesh; Li, De-Zhu; Gao, Lian-Ming

    2016-01-01

    Africa is one of the key centers of global tea production. Understanding the genetic diversity and relationships of cultivars of African tea is important for future targeted breeding efforts for new crop cultivars, specialty tea processing, and to guide germplasm conservation efforts. Despite the economic importance of tea in Africa, no research work has been done so far on its genetic diversity at a continental scale. Twenty-three nSSRs and three plastid DNA regions were used to investigate the genetic diversity, relationships, and breeding patterns of tea accessions collected from eight countries of Africa. A total of 280 African tea accessions generated 297 alleles with a mean of 12.91 alleles per locus and a genetic diversity (H S) estimate of 0.652. A STRUCTURE analysis suggested two main genetic groups of African tea accessions which corresponded well with the two tea types Camellia sinensis var. sinensis and C. sinensis var. assamica, respectively, as well as an admixed "mosaic" group whose individuals were defined as hybrids of F2 and BC generation with a high proportion of C. sinensis var. assamica being maternal parents. Accessions known to be C. sinensis var. assamica further separated into two groups representing the two major tea breeding centers corresponding to southern Africa (Tea Research Foundation of Central Africa, TRFCA), and East Africa (Tea Research Foundation of Kenya, TRFK). Tea accessions were shared among countries. African tea has relatively lower genetic diversity. C. sinensis var. assamica is the main tea type under cultivation and contributes more in tea breeding improvements in Africa. International germplasm exchange and movement among countries within Africa was confirmed. The clustering into two main breeding centers, TRFCA, and TRFK, suggested that some traits of C. sinensis var. assamica and their associated genes possibly underwent selection during geographic differentiation or local breeding preferences. This study represents

  6. Insights into the Genetic Relationships and Breeding Patterns of the African Tea Germplasm Based on nSSR Markers and cpDNA Sequences.

    Science.gov (United States)

    Wambulwa, Moses C; Meegahakumbura, Muditha K; Kamunya, Samson; Muchugi, Alice; Möller, Michael; Liu, Jie; Xu, Jian-Chu; Ranjitkar, Sailesh; Li, De-Zhu; Gao, Lian-Ming

    2016-01-01

    Africa is one of the key centers of global tea production. Understanding the genetic diversity and relationships of cultivars of African tea is important for future targeted breeding efforts for new crop cultivars, specialty tea processing, and to guide germplasm conservation efforts. Despite the economic importance of tea in Africa, no research work has been done so far on its genetic diversity at a continental scale. Twenty-three nSSRs and three plastid DNA regions were used to investigate the genetic diversity, relationships, and breeding patterns of tea accessions collected from eight countries of Africa. A total of 280 African tea accessions generated 297 alleles with a mean of 12.91 alleles per locus and a genetic diversity (H S) estimate of 0.652. A STRUCTURE analysis suggested two main genetic groups of African tea accessions which corresponded well with the two tea types Camellia sinensis var. sinensis and C. sinensis var. assamica, respectively, as well as an admixed "mosaic" group whose individuals were defined as hybrids of F2 and BC generation with a high proportion of C. sinensis var. assamica being maternal parents. Accessions known to be C. sinensis var. assamica further separated into two groups representing the two major tea breeding centers corresponding to southern Africa (Tea Research Foundation of Central Africa, TRFCA), and East Africa (Tea Research Foundation of Kenya, TRFK). Tea accessions were shared among countries. African tea has relatively lower genetic diversity. C. sinensis var. assamica is the main tea type under cultivation and contributes more in tea breeding improvements in Africa. International germplasm exchange and movement among countries within Africa was confirmed. The clustering into two main breeding centers, TRFCA, and TRFK, suggested that some traits of C. sinensis var. assamica and their associated genes possibly underwent selection during geographic differentiation or local breeding preferences. This study represents

  7. Androgen Metabolism Gene Polymorphisms, Associations with Prostate Cancer Risk and Pathological Characteristics: A Comparative Analysis between South African and Senegalese Men

    Directory of Open Access Journals (Sweden)

    Pedro Fernandez

    2012-01-01

    Full Text Available Prostate cancer is the most common cancer in men in developed countries and the leading cause of mortality in males in less developed countries. African ethnicity is one of the major risk factors for developing prostate cancer. Pathways involved in androgen metabolism have been implicated in the etiology of the disease. Analyses of clinical data and CYP3A4, CYP3A5, and SRD5A2 genotypes were performed in South African White (120 cases; 134 controls, Mixed Ancestry (207 cases; 167 controls, and Black (25 cases; 20 controls men, as well as in Senegalese men (86 cases; 300 controls. Senegalese men were diagnosed earlier with prostate cancer and had higher median PSA levels compared to South African men. Metastasis occurred more frequently in Senegalese men. Gene polymorphism frequencies differed significantly between South African and Senegalese men. The CYP3A4 rs2740574 polymorphism was associated with prostate cancer risk and tumor aggressiveness in South African men, after correction for population stratification, and the SRD5A2 rs523349 CG genotype was inversely associated with high-stage disease in Senegalese men. These data suggest that variants previously associated with prostate cancer in other populations may also affect prostate cancer risk in African men.

  8. Very recent African immigrants and unemployment in British Columbia

    OpenAIRE

    Rameshni, Farnaz

    2012-01-01

    Despite the provincial and federal governments focus on improving employment services through the Canada-British Columbia Immigration agreement, the unemployment rate among very recent African immigrants continues to remain the highest among other ethnic groups in Canada (StatCan, 2010). As such, this study looks into the various barriers faced by very recent African immigrants in finding employment in B.C., and addresses the problem through interviews with settlement agencies and a governmen...

  9. The evolution of African plant diversity

    Directory of Open Access Journals (Sweden)

    Hans Peter Linder

    2014-07-01

    Full Text Available Sub-Saharan Africa includes some 45,000 plant species. The spatial patterns of this diversity have been well explored. We can group the species into a set of biogeographical regions (largely co-incident with regions defined for terrestrial vertebrate groups. Furthermore, we know that the diversity is unevenly distributed, with southern Africa (especially the south-western tip disproportionally species rich, while the West African interior is disproportionally species poor. However, the origins of this diversity have only been explored for two anomalous African Floras (the Tropic-alpine Flora and the Cape Flora, whereas the origins of the diversity of the other floras are still unknown. Here I argue that six floras, with distinct geographical centres, different extra-African affinities, ages of radiation and radiation rates, can be delimited: the Austro-temperate, Tropic-alpine, Lowland forest, Tropic-montane, Savanna and Arid Floras. The oldest flora may be the Lowland forest Flora, and the most recent is the Tropic-alpine, which probably evolved during the Plio-Pleistocene on the summits of the East Africa volcanoes. My results suggest that the most rapidly radiating flora is the Austro-temperate Flora, while the other floras are all diversifying at more or less the same rate, this is also consistent with the current massive species richness in this flora (about half of the African species richness. The Austro-temperate Flora appears to be related to the floras of the other southern continents, the Tropic-alpine Flora to that of the Northern Hemisphere, and the four tropical floras to the tropical regions of the other continents, consistent with the theory of phylogenetic niche conservatism. Current African diversity may be the result of the sequential adding of new floras to the continent. Possibly the species poverty especially of the Lowland forest Flora may be the result of the spread of C4 grasslands and associated regular fires.

  10. Narrow genetic basis for the Australian dingo confirmed through analysis of paternal ancestry.

    Science.gov (United States)

    Ardalan, Arman; Oskarsson, Mattias; Natanaelsson, Christian; Wilton, Alan N; Ahmadian, Afshin; Savolainen, Peter

    2012-03-01

    The dingo (Canis lupus dingo) is an iconic animal in the native culture of Australia, but archaeological and molecular records indicate a relatively recent history on the continent. Studies of mitochondrial DNA (mtDNA) imply that the current dingo population was founded by a small population of already tamed dogs from Southeast Asia. However, the maternal genetic data might give a unilateral picture, and the gene pool has yet to be screened for paternal ancestry. We sequenced 14,437 bp of the Y-chromosome (Y-chr) from two dingoes and one New Guinea Singing Dog (NGSD). This positioned dingo and NGSD within the domestic dog Y-chr phylogeny, and produced one haplotype not detected before. With this data, we characterized 47 male dingoes in 30 Y-chr single-nucleotide polymorphism sites using protease-mediated allele-specific extension technology. Only two haplotypes, H3 and H60, were found among the dingoes, at frequencies of 68.1 and 31.9 %, respectively, compared to 27 haplotypes previously established in the domestic dog. While H3 is common among Southeast Asian dogs, H60 was specifically found in dingoes and the NGSD, but was related to Southeast Asian dog Y-chr haplotypes. H3 and H60 were observed exclusively in the western and eastern parts of Australia, respectively, but had a common range in Southeast. Thus, the Y-chr diversity was very low, similar to previous observations for d-loop mtDNA. Overall genetic evidence suggests a very restricted introduction of the first dingoes into Australia, possibly from New Guinea. This study further confirms the dingo as an isolated feral dog.

  11. African Women Writing Resistance

    Institute of Scientific and Technical Information of China (English)

    Jennifer Browdy de Hernandez; Pauline Dongala; Omotayo; Jolaosho; Anne Serafin

    2011-01-01

    AFRICAN Women Writing Resistance is the first transnational anthology to focus on women's strategies of resistance to the challenges they face in Africa today.The anthology brings together personal narratives,testimony,interviews,short stories,poetry,performance scripts,folktales and lyrics.

  12. African Women Writing Resistance

    Institute of Scientific and Technical Information of China (English)

    Jennifer; Browdy; de; Hernandez; Pauline; Dongala; Omotayo; Jolaosho; Anne; Serafin

    2011-01-01

    An Anthology of Contemporary Voices AFRICAN Women Writing Resistance is the first transnational anthology to focus on women’s strategies of resistance to the challenges they face in Africa today.The anthology brings together personal narratives,testimony,interviews, short stories,po-

  13. Deepening African Ties

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Chinese President Hu Jintao has just embarked on his state visits to eight African countries that will take him to both the northern and southern tips of the continent. This is his first trip abroad this year, and also his third visit to Africa

  14. East African institutions

    DEFF Research Database (Denmark)

    Nordby, Johannes Riber; Jacobsen, Katja

    For the past decade security in East Africa has gained focus internationally. However there is a growing ambition among African states to handle such issues by themselves, sometimes through regional institutions. This has been supported by many Western states but potential risks are often forgotten....

  15. African tick bite fever

    DEFF Research Database (Denmark)

    Johansen, Jakob Aaquist; Thybo, Søren

    2011-01-01

    The incident of spotted fever imported to Denmark is unknown. We present a classic case of African Tick Bite Fever (ATBF) to highlight a disease, which frequently infects wildlife enthusiasts and hunters on vacation in South Africa. ATBF has a good prognosis and is easily treated with doxycyclin...

  16. West African Antislavery Movements

    DEFF Research Database (Denmark)

    Hahonou, Eric Komlavi; Pelckmans, Lotte

    2011-01-01

    In the context of liberalization of West African political regimes, the upsurge of audacious political entrepreneurs who want to end chattel slavery in their nation-state, resulted in the legal criminalisation of slavery in both Mauritania (2007) and Niger (2003) and in a proposal to revise the...... cultures (or ‘mentalities’) go hand in hand....

  17. Immunizations and African Americans

    Science.gov (United States)

    ... Program Grants Other Grants Planning and Evaluation Grantee Best Practices Black/African American Asthma Cancer Chronic Liver Disease ... 13 to 17 years who ever received the human papillomavirus (HPV) vaccination, 2014 - Males # doses ... 240-453-2882 Office of Minority Health Resource Center Toll Free: 1-800-444-6472 / Fax: ...

  18. In Search of Greater Unity: African States and the Quest for an African Union Government

    Directory of Open Access Journals (Sweden)

    Sharkdam Wapmuk

    2009-12-01

    Full Text Available The paper examines the notion of an African union government.It argues that the proposal for a ‘union government’ has often divided African leaders into different ideological groups. That not withstanding, Africa leaders have had to bury their differences and embrace African unity in the fight against colonialism and racist rule. Under the OAU, these constituted the rallying point for African leaders until the last vestiges of colonialism and racist rule were crushed in South Africa in 1994. More than 40 years after the idea of unification of Africa was first suggested by Kwame Nkrumah of Ghana; the Libyan leader, President Muammar Ghaddafi re-tabled the proposal. However, the machinations being employed by the Libyan leader to actualise his vision of a union government in Africa under a single president necessitate a deeper exploration of the idea. The paper observed that the challenges to achieving a union government are numerous at this time. In addition toproblem of lack of integration at national levels and poor funding of the AU; Africa is presently faced with several problems bordering on violent conflicts, poverty and underdevelopment, economic development, diseases such as HIV-AIDS, malaria, tuberculosis, and bad governance amongst others. The paper concludes that these challenges should serve as the rallying point for African leaders at this time and not the political machinations of some leaders on the continent.

  19. Elephant teeth from the atlantic continental shelf

    Science.gov (United States)

    Whitmore, F.C., Jr.; Emery, K.O.; Cooke, H.B.S.; Swift, D.J.P.

    1967-01-01

    Teeth of mastodons and mastodons have been recovered by fishermen from at least 40 sites on the continental shelf as deep as 120 meters. Also present are submerged shorelines, peat deposits, lagoonal shells, and relict sands. Evidently elephants and other large mammals ranged this region during the glacial stage of low sea level of the last 25.000 years.

  20. Coordination: Southeast Continental Shelf studies. Progress report

    Energy Technology Data Exchange (ETDEWEB)

    Menzel, D.W.

    1981-02-01

    An overview of the Oceanograhic Program of Skidaway Institute of Oceanograhy is presented. Included are the current five year plan for studies of the Southeast Continental Shelf, a summary of research accomplishments, proposed research for 1981-1982, current status of the Savannah Navigational Light Tower, and a list of publications. (ACR)

  1. 25 years of continental deep subduction

    Institute of Scientific and Technical Information of China (English)

    ZHENG YongFei

    2009-01-01

    @@ This year marks the 25th anniversary of the discovery of coesite in metamorphic rocks of supracrustal origin.This initiated a revolution of the plate tectonics theory due to intensive studies of ultrahigh pressure metamorphism and continental deep subduction.The occurrence of coesite was first reported in 1984 by two French scientists,C.Chopin and D.C.Smith,respectively.

  2. Plate Tectonics and Continental Drift: Classroom Ideas.

    Science.gov (United States)

    Stout, Prentice K.

    1983-01-01

    Suggests various classroom studies related to plate tectonics and continental drift, including comments on and sources of resource materials useful in teaching the topics. A complete list of magazine articles on the topics from the Sawyer Marine Resource Collection may be obtained by contacting the author. (JN)

  3. African Psychology: The Psychological Adjustment of African Women Living in New Zealand

    Directory of Open Access Journals (Sweden)

    Adelowo, Adesayo

    2015-11-01

    Full Text Available Social representation theory is a social psychological framework of concepts and ideas relevant to studying psychosocial phenomena in modern societies. It suggests that social psychological phenomenon and processes can only be properly understood when they are anchored in history, culture and macro social conditions. Therefore, social representations are carriers of collective memories of social groups which are adequate for shaping the present through the past; while using the past to meet the demands of the present, which enables social groups to continue through time. Social groups are distinct in terms of their understanding of social phenomenon and other forms of action which in turn constitute their identity. In this article, I present an African psychological framework which represents African people’s worldview. Further to this, is my experience as a doctoral student, exploring the psychological adjustment of African women living in New Zealand. I reflect on why the framework that I had used in my research were deemed inadequate to be used as psychological principles, because they did not correspond with a Western lens of understanding behaviour, actions and social reality. I conclude that the outcome of my study shows the reification and legitimization of Western psychology over African psychology. This article provides a possibility for a critical account of unequal social relations between Western psychology and Indigenous psychology, and exposes the issue of power and resistance embedded in the heart of social representation theories as it relates to psychology.

  4. Dynamics of the continental margins

    Energy Technology Data Exchange (ETDEWEB)

    1990-11-01

    On 18--20 June 1990, over 70 oceanographers conducting research in the ocean margins of North America attended a workshop in Virginia Beach, Virginia. The purpose of the workshop was to provide the Department of Energy with recommendations for future research on the exchange of energy-related materials between the coastal and interior ocean and the relationship between the ocean margins and global change. The workshop was designed to optimize the interaction of scientists from specific research disciplines (biology, chemistry, physics and geology) as they developed hypotheses, research questions and topics and implementation plans. The participants were given few restraints on the research they proposed other than realistic time and monetary limits. The interdisciplinary structure of the meeting promoted lively discussion and creative research plans. The meeting was divided into four working groups based on lateral, vertical, air/sea and sediment/water processes. Working papers were prepared and distributed before the meeting. During the meeting the groups revised the papers and added recommendations that appear in this report, which was reviewed by an Executive Committee.

  5. Ambient noise tomography of the East African Rift in Mozambique

    Science.gov (United States)

    Domingues, Ana; Silveira, Graça; Ferreira, Ana M. G.; Chang, Sung-Joon; Custódio, Susana; Fonseca, João F. B. D.

    2016-03-01

    Seismic ambient noise tomography is applied to central and southern Mozambique, located in the tip of the East African Rift (EAR). The deployment of MOZART seismic network, with a total of 30 broad-band stations continuously recording for 26 months, allowed us to carry out the first tomographic study of the crust under this region, which until now remained largely unexplored at this scale. From cross-correlations extracted from coherent noise we obtained Rayleigh wave group velocity dispersion curves for the period range 5-40 s. These dispersion relations were inverted to produce group velocity maps, and 1-D shear wave velocity profiles at selected points. High group velocities are observed at all periods on the eastern edge of the Kaapvaal and Zimbabwe cratons, in agreement with the findings of previous studies. Further east, a pronounced slow anomaly is observed in central and southern Mozambique, where the rifting between southern Africa and Antarctica created a passive margin in the Mesozoic, and further rifting is currently happening as a result of the southward propagation of the EAR. In this study, we also addressed the question concerning the nature of the crust (continental versus oceanic) in the Mozambique Coastal Plains (MCP), still in debate. Our data do not support previous suggestions that the MCP are floored by oceanic crust since a shallow Moho could not be detected, and we discuss an alternative explanation for its ocean-like magnetic signature. Our velocity maps suggest that the crystalline basement of the Zimbabwe craton may extend further east well into Mozambique underneath the sediment cover, contrary to what is usually assumed, while further south the Kaapval craton passes into slow rifted crust at the Lebombo monocline as expected. The sharp passage from fast crust to slow crust on the northern part of the study area coincides with the seismically active NNE-SSW Urema rift, while further south the Mazenga graben adopts an N-S direction

  6. Managed European-Derived Honey Bee, Apis mellifera sspp, Colonies Reduce African-Matriline Honey Bee, A. m. scutellata, Drones at Regional Mating Congregations.

    Science.gov (United States)

    Mortensen, Ashley N; Ellis, James D

    2016-01-01

    African honey bees (Apis mellifera scutellata) dramatically changed the South American beekeeping industry as they rapidly spread through the Americas following their introduction into Brazil. In the present study, we aimed to determine if the management of European-derived honey bees (A. mellifera sspp.) could reduce the relative abundance of African-matriline drones at regional mating sites known as drone congregation areas (DCAs). We collected 2,400 drones at six DCAs either 0.25 km or >2.8 km from managed European-derived honey bee apiaries. The maternal ancestry of each drone was determined by Bgl II enzyme digestion of an amplified portion of the mitochondrial Cytochrome b gene. Furthermore, sibship reconstruction via nuclear microsatellites was conducted for a subset of 1,200 drones to estimate the number of colonies contributing drones to each DCA. Results indicate that DCAs distant to managed European apiaries (>2.8 km) had significantly more African-matriline drones (34.33% of the collected drones had African mitochondrial DNA) than did DCAs close (0.25 km) to managed European apiaries (1.83% of the collected drones had African mitochondrial DNA). Furthermore, nuclear sibship reconstruction demonstrated that the reduction in the proportion of African matriline drones at DCAs near apiaries was not simply an increase in the number of European matriline drones at the DCAs but also the result of fewer African matriline colonies contributing drones to the DCAs. Our data demonstrate that the management of European honey bee colonies can dramatically influence the proportion of drones with African matrilines at nearby drone congregation areas, and would likely decreasing the probability that virgin European queens will mate with African drones at those drone congregation areas.

  7. Managed European-Derived Honey Bee, Apis mellifera sspp, Colonies Reduce African-Matriline Honey Bee, A. m. scutellata, Drones at Regional Mating Congregations.

    Science.gov (United States)

    Mortensen, Ashley N; Ellis, James D

    2016-01-01

    African honey bees (Apis mellifera scutellata) dramatically changed the South American beekeeping industry as they rapidly spread through the Americas following their introduction into Brazil. In the present study, we aimed to determine if the management of European-derived honey bees (A. mellifera sspp.) could reduce the relative abundance of African-matriline drones at regional mating sites known as drone congregation areas (DCAs). We collected 2,400 drones at six DCAs either 0.25 km or >2.8 km from managed European-derived honey bee apiaries. The maternal ancestry of each drone was determined by Bgl II enzyme digestion of an amplified portion of the mitochondrial Cytochrome b gene. Furthermore, sibship reconstruction via nuclear microsatellites was conducted for a subset of 1,200 drones to estimate the number of colonies contributing drones to each DCA. Results indicate that DCAs distant to managed European apiaries (>2.8 km) had significantly more African-matriline drones (34.33% of the collected drones had African mitochondrial DNA) than did DCAs close (0.25 km) to managed European apiaries (1.83% of the collected drones had African mitochondrial DNA). Furthermore, nuclear sibship reconstruction demonstrated that the reduction in the proportion of African matriline drones at DCAs near apiaries was not simply an increase in the number of European matriline drones at the DCAs but also the result of fewer African matriline colonies contributing drones to the DCAs. Our data demonstrate that the management of European honey bee colonies can dramatically influence the proportion of drones with African matrilines at nearby drone congregation areas, and would likely decreasing the probability that virgin European queens will mate with African drones at those drone congregation areas. PMID:27518068

  8. Assessing sanitary mixtures in East African cities

    OpenAIRE

    Letema, S.C.

    2012-01-01

    The urbanisation of poverty and informality in East African cities poses a threat to environmental health, perpetuates social exclusion and inequalities, and creates service gaps (UN-Habitat, 2008). This makes conventional sanitation provision untenable citywide, giving rise to the emergence of sanitation mixtures. Sanitation mixtures have different scales, institutional arrangements, user groups, and rationalities for their establishment, location, and management. For assessing the performan...

  9. African Primary Care Research: Participatory action research

    OpenAIRE

    Bob Mash

    2014-01-01

    Abstract This article is part of the series on African primary care research and focuses on participatory action research. The article gives an overview of the emancipatory-critical research paradigm, the key characteristics and different types of participatory action research. Following this it describes in detail the methodological issues involved in professional participatory action research and running a cooperative inquiry group. The article is intended to help students with writing thei...

  10. Composition of the metazooplankton community and structure across the continental shelf off tropical NW Australia

    DEFF Research Database (Denmark)

    Jaspers, Cornelia; Nielsen, Torkel Gissel; Maar, Marie

    This talk focuses on the distribution pattern and grazing impact of different functional metazooplankton groups in a tropical marine ecosystem. We studied the metazooplankton distribution across the continental shelf from eutrophic mangrove areas to the oligotrophic deep blue ocean off NW Australia...

  11. Tectonics and melting in intra-continental settings

    NARCIS (Netherlands)

    Gorczyk, Weronika; Vogt, Katharina

    2015-01-01

    Most of the geodynamic theories of deformation aswell asmetamorphismandmelting of continental lithosphere are concentrated on plate boundaries and are dominated by the effects of subduction upon deformation of the margins of continental lithospheric blocks. However, it is becoming increasingly appar

  12. Federal Outer Continental Shelf Oil and Gas Production Statistics

    Data.gov (United States)

    Bureau of Ocean Energy Management, Department of the Interior — Federal Outer Continental Shelf Oil and Gas Production Statistics by month and summarized annually. Outer Continental Shelf consists of Gulf of Mexico, Pacific and...

  13. Meta-Analysis of Genome-Wide Association Studies in African Americans Provides Insights into the Genetic Architecture of Type 2 Diabetes

    Science.gov (United States)

    Chen, Brian H.; Li, Jiang; Chen, Wei-Min; Guo, Xiuqing; Liu, Jiankang; Bielinski, Suzette J.; Yanek, Lisa R.; Nalls, Michael A.; Comeau, Mary E.; Rasmussen-Torvik, Laura J.; Jensen, Richard A.; Evans, Daniel S.; Sun, Yan V.; An, Ping; Patel, Sanjay R.; Lu, Yingchang; Long, Jirong; Armstrong, Loren L.; Wagenknecht, Lynne; Yang, Lingyao; Snively, Beverly M.; Palmer, Nicholette D.; Mudgal, Poorva; Langefeld, Carl D.; Keene, Keith L.; Freedman, Barry I.; Mychaleckyj, Josyf C.; Nayak, Uma; Raffel, Leslie J.; Goodarzi, Mark O.; Chen, Y-D Ida; Taylor, Herman A.; Correa, Adolfo; Sims, Mario; Couper, David; Pankow, James S.; Boerwinkle, Eric; Adeyemo, Adebowale; Doumatey, Ayo; Chen, Guanjie; Mathias, Rasika A.; Vaidya, Dhananjay; Singleton, Andrew B.; Zonderman, Alan B.; Igo, Robert P.; Sedor, John R.; Kabagambe, Edmond K.; Siscovick, David S.; McKnight, Barbara; Rice, Kenneth; Liu, Yongmei; Hsueh, Wen-Chi; Zhao, Wei; Bielak, Lawrence F.; Kraja, Aldi; Province, Michael A.; Bottinger, Erwin P.; Gottesman, Omri; Cai, Qiuyin; Zheng, Wei; Blot, William J.; Lowe, William L.; Pacheco, Jennifer A.; Crawford, Dana C.; Grundberg, Elin; Rich, Stephen S.; Hayes, M. Geoffrey; Shu, Xiao-Ou; Loos, Ruth J. F.; Borecki, Ingrid B.; Peyser, Patricia A.; Cummings, Steven R.; Psaty, Bruce M.; Fornage, Myriam; Iyengar, Sudha K.; Evans, Michele K.; Becker, Diane M.; Kao, W. H. Linda; Wilson, James G.; Rotter, Jerome I.; Sale, Michèle M.; Liu, Simin; Rotimi, Charles N.; Bowden, Donald W.

    2014-01-01

    Type 2 diabetes (T2D) is more prevalent in African Americans than in Europeans. However, little is known about the genetic risk in African Americans despite the recent identification of more than 70 T2D loci primarily by genome-wide association studies (GWAS) in individuals of European ancestry. In order to investigate the genetic architecture of T2D in African Americans, the MEta-analysis of type 2 DIabetes in African Americans (MEDIA) Consortium examined 17 GWAS on T2D comprising 8,284 cases and 15,543 controls in African Americans in stage 1 analysis. Single nucleotide polymorphisms (SNPs) association analysis was conducted in each study under the additive model after adjustment for age, sex, study site, and principal components. Meta-analysis of approximately 2.6 million genotyped and imputed SNPs in all studies was conducted using an inverse variance-weighted fixed effect model. Replications were performed to follow up 21 loci in up to 6,061 cases and 5,483 controls in African Americans, and 8,130 cases and 38,987 controls of European ancestry. We identified three known loci (TCF7L2, HMGA2 and KCNQ1) and two novel loci (HLA-B and INS-IGF2) at genome-wide significance (4.15×10−94African Americans. Overall, this study identified two novel susceptibility loci for T2D in African Americans. A substantial number of previously reported loci are transferable to African Americans after accounting for linkage disequilibrium, enabling fine mapping of causal variants in trans-ethnic meta-analysis studies. PMID:25102180

  14. Meta-analysis of genome-wide association studies in African Americans provides insights into the genetic architecture of type 2 diabetes.

    Directory of Open Access Journals (Sweden)

    Maggie C Y Ng

    2014-08-01

    Full Text Available Type 2 diabetes (T2D is more prevalent in African Americans than in Europeans. However, little is known about the genetic risk in African Americans despite the recent identification of more than 70 T2D loci primarily by genome-wide association studies (GWAS in individuals of European ancestry. In order to investigate the genetic architecture of T2D in African Americans, the MEta-analysis of type 2 DIabetes in African Americans (MEDIA Consortium examined 17 GWAS on T2D comprising 8,284 cases and 15,543 controls in African Americans in stage 1 analysis. Single nucleotide polymorphisms (SNPs association analysis was conducted in each study under the additive model after adjustment for age, sex, study site, and principal components. Meta-analysis of approximately 2.6 million genotyped and imputed SNPs in all studies was conducted using an inverse variance-weighted fixed effect model. Replications were performed to follow up 21 loci in up to 6,061 cases and 5,483 controls in African Americans, and 8,130 cases and 38,987 controls of European ancestry. We identified three known loci (TCF7L2, HMGA2 and KCNQ1 and two novel loci (HLA-B and INS-IGF2 at genome-wide significance (4.15 × 10(-94African Americans. Overall, this study identified two novel susceptibility loci for T2D in African Americans. A substantial number of previously reported loci are transferable to African Americans after accounting for linkage disequilibrium, enabling fine mapping of causal variants in trans-ethnic meta-analysis studies.

  15. The macro- and megabenthic fauna on the continental shelf of the eastern Amundsen Sea, Antarctica

    OpenAIRE

    Linse, Katrin; Griffiths, Huw J.; Barnes, Dave KA; Brandt, Angelika; Davey, Niki; David, Bruno; Grave, Sammy De; d'Udekem d'Acoz, Cédric; Eléaume, Marc; Glover, Adrian G.; Lenaïg G. Hemery; Mah, Christopher; Martín-Ledo, Rafael; Munilla, Tomás; O'Loughlin, Mark

    2013-01-01

    In 2008 the BIOPEARL II expedition on board of RRS James Clark Ross sailed to the eastern Amundsen Sea Embayment and Pine Island Bay, one of the least studied Antarctic continental shelf regions due to its remoteness and ice cover. A total of 37 Agassiz trawls were deployed at depth transects along the continental and trough slopes. A total of 5469 specimens, belonging to 32 higher taxonomic groups and more than 270 species, were collected. Species richness per station varied from 1 to 55. Th...

  16. Proteomic-Coupled-Network Analysis of T877A-Androgen Receptor Interactomes Can Predict Clinical Prostate Cancer Outcomes between White (Non-Hispanic) and African-American Groups

    Science.gov (United States)

    Zaman, Naif; Giannopoulos, Paresa N.; Chowdhury, Shafinaz; Bonneil, Eric; Thibault, Pierre; Wang, Edwin; Trifiro, Mark; Paliouras, Miltiadis

    2014-01-01

    The androgen receptor (AR) remains an important contributor to the neoplastic evolution of prostate cancer (CaP). CaP progression is linked to several somatic AR mutational changes that endow upon the AR dramatic gain-of-function properties. One of the most common somatic mutations identified is Thr877-to-Ala (T877A), located in the ligand-binding domain, that results in a receptor capable of promiscuous binding and activation by a variety of steroid hormones and ligands including estrogens, progestins, glucocorticoids, and several anti-androgens. In an attempt to further define somatic mutated AR gain-of-function properties, as a consequence of its promiscuous ligand binding, we undertook a proteomic/network analysis approach to characterize the protein interactome of the mutant T877A-AR in LNCaP cells under eight different ligand-specific treatments (dihydrotestosterone, mibolerone, R1881, testosterone, estradiol, progesterone, dexamethasone, and cyproterone acetate). In extending the analysis of our multi-ligand complexes of the mutant T877A-AR we observed significant enrichment of specific complexes between normal and primary prostatic tumors, which were furthermore correlated with known clinical outcomes. Further analysis of certain mutant T877A-AR complexes showed specific population preferences distinguishing primary prostatic disease between white (non-Hispanic) vs. African-American males. Moreover, these cancer-related AR-protein complexes demonstrated predictive survival outcomes specific to CaP, and not for breast, lung, lymphoma or medulloblastoma cancers. Our study, by coupling data generated by our proteomics to network analysis of clinical samples, has helped to define real and novel biological pathways in complicated gain-of-function AR complex systems. PMID:25409505

  17. Proteomic-coupled-network analysis of T877A-androgen receptor interactomes can predict clinical prostate cancer outcomes between White (non-Hispanic) and African-American groups.

    Science.gov (United States)

    Zaman, Naif; Giannopoulos, Paresa N; Chowdhury, Shafinaz; Bonneil, Eric; Thibault, Pierre; Wang, Edwin; Trifiro, Mark; Paliouras, Miltiadis

    2014-01-01

    The androgen receptor (AR) remains an important contributor to the neoplastic evolution of prostate cancer (CaP). CaP progression is linked to several somatic AR mutational changes that endow upon the AR dramatic gain-of-function properties. One of the most common somatic mutations identified is Thr877-to-Ala (T877A), located in the ligand-binding domain, that results in a receptor capable of promiscuous binding and activation by a variety of steroid hormones and ligands including estrogens, progestins, glucocorticoids, and several anti-androgens. In an attempt to further define somatic mutated AR gain-of-function properties, as a consequence of its promiscuous ligand binding, we undertook a proteomic/network analysis approach to characterize the protein interactome of the mutant T877A-AR in LNCaP cells under eight different ligand-specific treatments (dihydrotestosterone, mibolerone, R1881, testosterone, estradiol, progesterone, dexamethasone, and cyproterone acetate). In extending the analysis of our multi-ligand complexes of the mutant T877A-AR we observed significant enrichment of specific complexes between normal and primary prostatic tumors, which were furthermore correlated with known clinical outcomes. Further analysis of certain mutant T877A-AR complexes showed specific population preferences distinguishing primary prostatic disease between white (non-Hispanic) vs. African-American males. Moreover, these cancer-related AR-protein complexes demonstrated predictive survival outcomes specific to CaP, and not for breast, lung, lymphoma or medulloblastoma cancers. Our study, by coupling data generated by our proteomics to network analysis of clinical samples, has helped to define real and novel biological pathways in complicated gain-of-function AR complex systems.

  18. Proteomic-coupled-network analysis of T877A-androgen receptor interactomes can predict clinical prostate cancer outcomes between White (non-Hispanic and African-American groups.

    Directory of Open Access Journals (Sweden)

    Naif Zaman

    Full Text Available The androgen receptor (AR remains an important contributor to the neoplastic evolution of prostate cancer (CaP. CaP progression is linked to several somatic AR mutational changes that endow upon the AR dramatic gain-of-function properties. One of the most common somatic mutations identified is Thr877-to-Ala (T877A, located in the ligand-binding domain, that results in a receptor capable of promiscuous binding and activation by a variety of steroid hormones and ligands including estrogens, progestins, glucocorticoids, and several anti-androgens. In an attempt to further define somatic mutated AR gain-of-function properties, as a consequence of its promiscuous ligand binding, we undertook a proteomic/network analysis approach to characterize the protein interactome of the mutant T877A-AR in LNCaP cells under eight different ligand-specific treatments (dihydrotestosterone, mibolerone, R1881, testosterone, estradiol, progesterone, dexamethasone, and cyproterone acetate. In extending the analysis of our multi-ligand complexes of the mutant T877A-AR we observed significant enrichment of specific complexes between normal and primary prostatic tumors, which were furthermore correlated with known clinical outcomes. Further analysis of certain mutant T877A-AR complexes showed specific population preferences distinguishing primary prostatic disease between white (non-Hispanic vs. African-American males. Moreover, these cancer-related AR-protein complexes demonstrated predictive survival outcomes specific to CaP, and not for breast, lung, lymphoma or medulloblastoma cancers. Our study, by coupling data generated by our proteomics to network analysis of clinical samples, has helped to define real and novel biological pathways in complicated gain-of-function AR complex systems.

  19. Leadership in the African context

    Directory of Open Access Journals (Sweden)

    M. Masango

    2002-08-01

    Full Text Available The Western world has always viewed the African continent as plagued by corruption; dictatorship; military coups; rebellious leaders; greediness; misuse of power; and incompetent, politically unstable leaders - in effect, suspicious leaders who undermine their own democracies. This paper analyzes African leadership and its impact by concentrating on three historical eras, namely; the African Religious era; the Christian era, and the era of Globalization. These affected African leadership. In addition, many brilliant minds left the continent in search of greener pastures. A review of these three eras will help us understand how leadership shifted from African values into Western concepts. The role of missionaries lead African people to live with both an African and a Western concept of life. In spite of the above problems, our past leaders did their best in addressing the difficulties they faced during the three eras. African concepts of leadership were often regarded as barbaric and uncultured. Structures were evaluated by Western standards. Due to globalisation, African leaders, through programmes like NEPAD, are going back to basics, drawing on African concepts of unity among its leadership. Effectiveness or life-giving leadership is emerging and empowering villagers/communities in the continent. This type of leadership is innovative and has brought new hope for the continent.

  20. "Work Hard, Fly Bight"——Today's Continental Airlines

    Institute of Scientific and Technical Information of China (English)

    Guo Yan

    2006-01-01

    @@ On June16, 2006, Continental Airlines celebrated the first anniversary of its daily nonstop flight from Beifing to New York. China's Foreign Trade exclusively interviewed Kwok Hing-Cheong, Chief Representative & Country Director-Continental Airlines, China. He talked about the developments, challenges and benefits of Continental Airlines in China.