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Sample records for surrounding gene density

  1. Persistent Confusion and Controversy Surrounding Gene Patents

    Science.gov (United States)

    Guerrini, Christi J.; Majumder, Mary A.; McGuire, Amy L.

    2016-01-01

    There is persistent confusion and controversy surrounding basic issues of patent law relevant to the genomics industry. Uncertainty and conflict can lead to the adoption of inefficient practices and exposure to liability. The development of patent-specific educational resources for industry members, as well as the prompt resolution of patentability rules unsettled by recent U.S. Supreme Court decisions, are therefore urgently needed. PMID:26849516

  2. Fruit and Vegetable Intake and Bone Mineral Density in Residents of Villages Surrounding Tehran

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    S Ebrahimof

    2004-03-01

    Full Text Available Osteoporosis is a major health problem because of the large health care costs associated with its clinical consequences. It is therefore of great importance to identify modifiable risk factors. We investigated association between fruit and vegetables intake and bone mineral density in rural population of Tehran surroundings. Subjects were a subgroup of a large study on prevalence and causes of vitamin D deficiency in rural population surrounding Tehran, capital of Iran. Fruit and vegetable intake of 82 subjects whose bone mineral density (BMD was measured and had a 24 hour food recall, was assessed. Weight and height were measured by standard methods. BMD was measured by Dual X-Ray (DXL (Calscan method at the heels. Osteopenia and osteoporosis rate in women older than 50 years were 55.5% and 33.3% and in men were 69.2% and 7.7%, respectively. Fruit intake was not correlated with BMD. Vegetable intake was positively associated with BMD just in women. According to interquartile range of vegetable intake women were grouped as those consuming less than 1.5 servings of vegetables per day and those consuming more. The women reported consuming more than 1.5 serving of vegetables had significantly higher T-score (-1.1±0.8 compared with -1.9±1.0, P<0.01. Those consumed more vegetables had high intake of some nutrients such as vitamin C, vitamin A, potassium, magnesium, zinc, folate, iron, sodium, calcium and phosphorus but none of them except for vitamin A (r= 0.03, P<0.05 was correlated with BMD. High consumption of vegetables positively affected bone mineral density in rural women and daily intake of at least 1.5 servings of vegetables could positively affect osteoporosis prevention.

  3. Evolution of human alpha 1-acid glycoprotein genes and surrounding Alu repeats.

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    Merritt, C M; Easteal, S; Board, P G

    1990-04-01

    There is a mosaic pattern of variation between the two tandemly arranged human alpha 1-acid glycoprotein genes. Both the synonymous and the nonsynonymous sites of exons 3 and 4 are more divergent than the rest of the gene, suggesting that they have had a different evolutionary history. Comparisons of the two gene sequences with rat AGP indicate that exons 3 and 4 of AGP2 have been evolving without functional constraint since their divergence from AGP1. It is proposed that the conserved region of the gene has been homogenized recently by gene conversion with the homologous regions of AGP1. The Alu sequences surrounding the genes appear to have been involved in both the gene duplication and the gene conversion events.

  4. Seasonal Variation in Sea Turtle Density and Abundance in the Southeast Florida Current and Surrounding Waters.

    Science.gov (United States)

    Bovery, Caitlin M; Wyneken, Jeanette

    2015-01-01

    Assessment and management of sea turtle populations is often limited by a lack of available data pertaining to at-sea distributions at appropriate spatial and temporal resolutions. Assessing the spatial and temporal distributions of marine turtles in an open system poses both observational and analytical challenges due to the turtles' highly migratory nature. Surface counts of marine turtles in waters along the southern part of Florida's east coast were made in and adjacent to the southeast portion of the Florida Current using standard aerial surveys during 2011 and 2012 to assess their seasonal presence. This area is of particular concern for sea turtles as interest increases in offshore energy developments, specifically harnessing the power of the Florida Current. While it is understood that marine turtles use these waters, here we evaluate seasonal variation in sea turtle abundance and density over two years. Density of sea turtles observed within the study area ranged from 0.003 turtles km-2 in the winter of 2011 to 0.064 turtles km-2 in the spring of 2012. This assessment of marine turtles in the waters off southeast Florida quantifies their in-water abundance across seasons in this area to establish baselines and inform future management strategies of these protected species.

  5. Seasonal Variation in Sea Turtle Density and Abundance in the Southeast Florida Current and Surrounding Waters

    Science.gov (United States)

    Bovery, Caitlin M.; Wyneken, Jeanette

    2015-01-01

    Assessment and management of sea turtle populations is often limited by a lack of available data pertaining to at-sea distributions at appropriate spatial and temporal resolutions. Assessing the spatial and temporal distributions of marine turtles in an open system poses both observational and analytical challenges due to the turtles’ highly migratory nature. Surface counts of marine turtles in waters along the southern part of Florida’s east coast were made in and adjacent to the southeast portion of the Florida Current using standard aerial surveys during 2011 and 2012 to assess their seasonal presence. This area is of particular concern for sea turtles as interest increases in offshore energy developments, specifically harnessing the power of the Florida Current. While it is understood that marine turtles use these waters, here we evaluate seasonal variation in sea turtle abundance and density over two years. Density of sea turtles observed within the study area ranged from 0.003 turtles km-2 in the winter of 2011 to 0.064 turtles km-2 in the spring of 2012. This assessment of marine turtles in the waters off southeast Florida quantifies their in-water abundance across seasons in this area to establish baselines and inform future management strategies of these protected species. PMID:26717520

  6. Divergence in cis-regulatory sequences surrounding the opsin gene arrays of African cichlid fishes

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    Streelman J Todd

    2011-05-01

    Full Text Available Abstract Background Divergence within cis-regulatory sequences may contribute to the adaptive evolution of gene expression, but functional alleles in these regions are difficult to identify without abundant genomic resources. Among African cichlid fishes, the differential expression of seven opsin genes has produced adaptive differences in visual sensitivity. Quantitative genetic analysis suggests that cis-regulatory alleles near the SWS2-LWS opsins may contribute to this variation. Here, we sequence BACs containing the opsin genes of two cichlids, Oreochromis niloticus and Metriaclima zebra. We use phylogenetic footprinting and shadowing to examine divergence in conserved non-coding elements, promoter sequences, and 3'-UTRs surrounding each opsin in search of candidate cis-regulatory sequences that influence cichlid opsin expression. Results We identified 20 conserved non-coding elements surrounding the opsins of cichlids and other teleosts, including one known enhancer and a retinal microRNA. Most conserved elements contained computationally-predicted binding sites that correspond to transcription factors that function in vertebrate opsin expression; O. niloticus and M. zebra were significantly divergent in two of these. Similarly, we found a large number of relevant transcription factor binding sites within each opsin's proximal promoter, and identified five opsins that were considerably divergent in both expression and the number of transcription factor binding sites shared between O. niloticus and M. zebra. We also found several microRNA target sites within the 3'-UTR of each opsin, including two 3'-UTRs that differ significantly between O. niloticus and M. zebra. Finally, we examined interspecific divergence among 18 phenotypically diverse cichlids from Lake Malawi for one conserved non-coding element, two 3'-UTRs, and five opsin proximal promoters. We found that all regions were highly conserved with some evidence of CRX transcription

  7. Density and Distribution of Xylocopa Nests (Hymenoptera: Apidae) in Caatinga Areas in the Surroundings of Passion Fruit Crops.

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    Martins, C F; de Siqueira, K M M; Kiill, L H P; Sá, I I S; Aguiar, C M L

    2014-08-01

    Due to their importance as pollinators of many plant species, this study aimed to know the nest density, spatial distribution, and nesting substrates used by Xylocopa species in the Caatinga, a xerophilous vegetation of Northeastern Brazil. Three areas of Caatinga in the surroundings of passion fruit crops were sampled. The bee species found in these areas were Xylocopa grisescens Lepeletier and Xylocopa frontalis (Olivier). All nests were in Commiphora leptophloeos (Burseraceae) trees (n = 113). Phytosociological analysis showed that this tree species presented the highest absolute density (212.5 individuals/ha) and index of importance value (52.7). The distribution pattern of the C. leptophloeos was aggregated. The nests were located in dead and dried branches with an average diameter of 5.3 ± 2.0 cm (n = 43). The mean number of nests/tree was 3.1 ± 2.8 (n = 113). The less disturbed area showed 6.7 nests/ha and 4.2 nests/tree. In the disturbed areas, 0.9 nests/ha and 2.4 to 2.7 nests/tree were observed. The availability of substrate for nesting in the studied areas and its importance as a limiting factor for nesting are discussed.

  8. Lithospheric density structure beneath the Tarim basin and surroundings, northwestern China, from the joint inversion of gravity and topography

    Science.gov (United States)

    Deng, Yangfan; Levandowski, Will; Kusky, Tim

    2017-02-01

    Intraplate strain generally focuses in discrete zones, but despite the profound impact of this partitioning on global tectonics, geodynamics, and seismic hazard, the processes by which deformation becomes localized are not well understood. Such heterogeneous intraplate strain is exemplified in central Asia, where the Indo-Eurasian collision has caused widespread deformation while the Tarim block has experienced minimal Cenozoic shortening. The apparent stability of Tarim may arise either because strain is dominantly accommodated by pre-existing faults in the continental suture zones that bound it-essentially discretizing Eurasia into microplates-or because the lithospheric-scale strength (i.e., viscosity) of the Tarim block is greater than its surroundings. Here, we jointly analyze seismic velocity, gravity, topography, and temperature to develop a 3-D density model of the crust and upper mantle in this region. The Tarim crust is characterized by high density, vs, vp, and vp /vs, consistent with a dominantly mafic composition and with the presence of an oceanic plateau beneath Tarim. Low-density but high-velocity mantle lithosphere beneath southern (southwestern) Tarim underlies a suite of Permian plume-related mafic intrusions and A-type granites sourced in previously depleted mantle lithosphere; we posit that this region was further depleted, dehydrated, and strengthened by Permian plume magmatism. The actively deforming western and southern margins of Tarim-the Tien Shan, Kunlun Shan, and Altyn Tagh fault-are underlain by buoyant upper mantle with low velocity; we hypothesize that this material has been hydrated by mantle-derived fluids that have preferentially migrated along Paleozoic continental sutures. Such hydrous material should be weak, and herein strain focuses there because of lithospheric-scale variations in rheology rather than the pre-existence of faults in the brittle crust. Thus this world-class example of strain partitioning arises not simply from

  9. Divergence in cis-regulatory sequences surrounding the opsin gene arrays of African cichlid fishes

    National Research Council Canada - National Science Library

    O'Quin, Kelly E; Smith, Daniel; Naseer, Zan; Schulte, Jane; Engel, Samuel D; Loh, Yong-Hwee E; Streelman, J Todd; Boore, Jeffrey L; Carleton, Karen L

    2011-01-01

    .... We use phylogenetic footprinting and shadowing to examine divergence in conserved non-coding elements, promoter sequences, and 3'-UTRs surrounding each opsin in search of candidate cis-regulatory...

  10. Selective Amplification of the Genome Surrounding Key Placental Genes in Trophoblast Giant Cells.

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    Hannibal, Roberta L; Baker, Julie C

    2016-01-25

    While most cells maintain a diploid state, polyploid cells exist in many organisms and are particularly prevalent within the mammalian placenta [1], where they can generate more than 900 copies of the genome [2]. Polyploidy is thought to be an efficient method of increasing the content of the genome by avoiding the costly and slow process of cytokinesis [1, 3, 4]. Polyploidy can also affect gene regulation by amplifying a subset of genomic regions required for specific cellular function [1, 3, 4]. This mechanism is found in the fruit fly Drosophila melanogaster, where polyploid ovarian follicle cells amplify genomic regions containing chorion genes, which facilitate secretion of eggshell proteins [5]. Here, we report that genomic amplification also occurs in mammals at selective regions of the genome in parietal trophoblast giant cells (p-TGCs) of the mouse placenta. Using whole-genome sequencing (WGS) and digital droplet PCR (ddPCR) of mouse p-TGCs, we identified five amplified regions, each containing a gene family known to be involved in mammalian placentation: the prolactins (two clusters), serpins, cathepsins, and the natural killer (NK)/C-type lectin (CLEC) complex [6-12]. We report here the first description of amplification at selective genomic regions in mammals and present evidence that this is an important mode of genome regulation in placental TGCs.

  11. Crustal and Upper Mantle Density Structure Beneath the Qinghai-Tibet Plateau and Surrounding Areas Derived from EGM2008 Geoid Anomalies

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    Honglei Li

    2016-12-01

    Full Text Available As the most active plateau on the Earth, the Qinghai-Tibet Plateau (TP has a complex crust–mantle structure. Knowledge of the distribution of such a structure provides information for understanding the underlying geodynamic processes. We obtain a three-dimensional model of the density of the crust and the upper mantle beneath the TP and surrounding areas from height anomalies using the Earth Gravitational Model 2008 (EGM2008. We refine the estimated density in the model iteratively using an initial density contrast model. We confirm that the EGM2008 products can be used to constrain the crust–mantle density structures. Our major findings are: (1 At a depth of 300–400 km, high-D(ensity anomalies terminate around the Jinsha River Suture (JRS in the central TP, which suggests that the Indian Plate has reached across the Bangong Nujiang Suture (BNS and almost reaches the JRS. (2 On the eastern TP, low-D(ensity anomalies at a depth of 0–300 km and with high-D anomalies at 400–670 km further verified the current eastward subduction of the Indian Plate. The ongoing subduction process provides force that results in frequent earthquakes and volcanoes. (3 At a depth of 600 km, low-D anomalies inside the TP illustrate the presence of hot weak material beneath it, which contribute to the inward thrusting of external material.

  12. Electron density change of atmospheric-pressure plasmas in helium flow depending on the oxygen/nitrogen ratio of the surrounding atmosphere

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    Tomita, Kentaro; Urabe, Keiichiro; Shirai, Naoki; Sato, Yuta; Hassaballa, Safwat; Bolouki, Nima; Yoneda, Munehiro; Shimizu, Takahiro; Uchino, Kiichiro

    2016-06-01

    Laser Thomson scattering was applied to an atmospheric-pressure plasma produced in a helium (He) gas flow for measuring the spatial profiles of electron density (n e) and electron temperature (T e). Aside from the He core flow, the shielding gas flow of N2 or synthesized air (\\text{N}2:\\text{O}2 = 4:1) surrounding the He flow was introduced to evaluate the effect of ambient gas components on the plasma parameters, eliminating the effect of ambient humidity. The n e at the discharge center was 2.7 × 1021 m-3 for plasma generated with N2/O2 shielding gas, 50% higher than that generated with N2 shielding.

  13. Finite element analysis of equine incisor teeth. Part 2: investigation of stresses and strain energy densities in the periodontal ligament and surrounding bone during tooth movement.

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    Schrock, P; Lüpke, M; Seifert, H; Staszyk, C

    2013-12-01

    This study investigated the hypothetical contribution of biomechanical loading to the onset of equine odontoclastic tooth resorption and hypercementosis (EOTRH) and to elucidate the physiological age-related positional changes of the equine incisors. Based on high resolution micro-computed tomography (μCT) datasets, 3-dimensional models of entire incisor arcades and the canine teeth were constructed representing a young and an old incisor dentition. Special attention was paid to constructing an anatomically correct model of the periodontal ligament (PDL). Using previously determined Young's moduli for the equine incisor PDL, finite element (FE) analysis was performed. Resulting strains, stresses and strain energy densities (SEDs), as well as the resulting regions of tension and compression within the PDL and the surrounding bone were investigated during occlusion. The results showed a distinct distribution pattern of high stresses and corresponding SEDs in the PDL and bone. Due to the tooth movement, peaks of SEDs were obtained in the PDL as well as in the bone on the labial and palatal/lingual sides of the alveolar crest. At the root, highest SEDs were detected in the PDL on the palatal/lingual side slightly occlusal of the root tip. This distribution pattern of high SEDs within the PDL coincides with the position of initial resorptive lesions in EOTRH affected teeth. The position of high SEDs in the bone can explain the typical age-related alteration of shape and angulation of equine incisors.

  14. Local gene density predicts the spatial position of genetic loci in the interphase nucleus.

    Science.gov (United States)

    Murmann, Andrea E; Gao, Juntao; Encinosa, Marissa; Gautier, Mathieu; Peter, Marcus E; Eils, Roland; Lichter, Peter; Rowley, Janet D

    2005-11-15

    Specific chromosomal translocations are hallmarks of many human leukemias. The basis for these translocation events is poorly understood, but it has been assumed that spatial positioning of genes in the nucleus of hematopoietic cells is a contributing factor. Analysis of the nuclear 3D position of the gene MLL, frequently involved in chromosomal translocations and five of its translocation partners (AF4, AF6, AF9, ENL and ELL), and two control loci revealed a characteristic radial distribution pattern in all hematopoietic cells studied. Genes in areas of high local gene density were found positioned towards the nuclear center, whereas genes in regions of low gene density were detected closer to the nuclear periphery. The gene density within a 2 Mbp window was found to be a better predictor for the relative positioning of a genomic locus within the cell nucleus than the gene density of entire chromosomes. Analysis of the position of MLL, AF4, AF6 and AF9 in cell lines carrying chromosomal translocations involving these genes revealed that the position of the normal genes was different from that of the fusion genes, and this was again consistent with the changes in local gene density within a 2 Mbp window. Thus, alterations in gene density directly at translocation junctions could explain the change in the position of affected genes in leukemia cells.

  15. Sulphonamide and trimethoprim resistance genes persist in sediments at Baltic Sea aquaculture farms but are not detected in the surrounding environment.

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    Windi Indra Muziasari

    Full Text Available Persistence and dispersal of antibiotic resistance genes (ARGs are important factors for assessing ARG risk in aquaculture environments. Here, we quantitatively detected ARGs for sulphonamides (sul1 and sul2 and trimethoprim (dfrA1 and an integrase gene for a class 1 integron (intI1 at aquaculture facilities in the northern Baltic Sea, Finland. The ARGs persisted in sediments below fish farms at very low antibiotic concentrations during the 6-year observation period from 2006 to 2012. Although the ARGs persisted in the farm sediments, they were less prevalent in the surrounding sediments. The copy numbers between the sul1 and intI1 genes were significantly correlated suggesting that class 1 integrons may play a role in the prevalence of sul1 in the farm sediments through horizontal gene transfer. In conclusion, the presence of ARGs may limit the effectiveness of antibiotics in treating fish illnesses, thereby causing a potential risk to the aquaculture industry. However, the restricted presence of ARGs at the farms is unlikely to cause serious effects in the northern Baltic Sea sediment environments around the farms.

  16. Microarray analysis of gene expression after electrical stimulation of the dura mater surrounding the superior sagittal sinus in conscious adult rats

    Institute of Scientific and Technical Information of China (English)

    Jiang Lei; Dong Zhao; Li Fengpeng; Liu Ruozhuo; Qiu Enchao; Wang Xiaolin; Yu Shengyuan

    2014-01-01

    Background The molecular and cellular origins of migraine headache are among the most complex problems in contemporary neurology.Up to now the pathogenesis of migraine still remains unclearly defined.The objective of this study was to explore new factors that may be related to the mechanism of migraine.Methods The present study performed a comprehensive analysis of gene expression in the trigeminal nucleus caudalis induced by electrical stimulation of dura mater surrounding the superior sagittal sinus in conscious rats using microarray analysis followed by quantitative real-time reverse-transcribed polymerase chain reaction (qRT-PCR) verification.Student's two sample t-test was employed when two groups were compared.A P value <0.05 was considered to be statistically significant.Results Comparing the placebo and the electrical stimulation groups,40 genes were determined to be significantly differentially expressed.These significantly differentially expressed genes were involved in many pathways,including transporter activity,tryptophan metabolism,G protein signaling,kinase activity,actin binding,signal transducer activity,anion transport,protein folding,enzyme inhibitor activity,coenzyme metabolism,binding,ion transport,cell adhesion,metal ion transport,oxidoreductase activity,mitochondrion function,and others.Most of the genes were involved in more than 2 pathways.Of particular interest is the up-regulation of Phactr3 and Akap5 and the down-regulation of Kdr.Conclusion These findings may provide important clues for a better understanding of the molecular mechanism of migraine.

  17. In situ localization of gene transcriptions for monoterpene synthesis in irregular parenchymic cells surrounding the secretory cavities in rough lemon (Citrus jambhiri).

    Science.gov (United States)

    Yamasaki, Yumiko; Akimitsu, Kazuya

    2007-11-01

    A cDNA (RlemispF) encoding 2-C-methyl-d-erythritol 2,4-cyclodiphosphate synthase, an enzyme of the methyl erythritol phosphate (MEP) pathway, and two homologs (RlemTPS1 and RlemTPS2) of citrus monoterpene synthase cDNA were isolated from the rough lemon (Citrus jambhiri). Transient localization of all or a part of RlemispF fused to a green fluorescence protein using particle gun-mediated DNA delivery localized RlemispF in the chloroplast. Transcripts of RlemispF and other monoterpene synthase genes are constitutively expressed in leaves of rough lemon. Transcript accumulations of RlemispF and RlemTPS1 were not induced by microbe attacks, but microbe attack weakly induced RlemTPS2 expression. Wounding decreased RlemispF expression. RlemispF and two different monoterpene synthase genes were specifically expressed in the epithelial tissue cells with dense cytoplasm that surround secretory cavities, which form a broadly round package containing a large volume of essential oils composed of monoterpenes. Interestingly, although expressions of RlemTPS1 and RlemTPS2 were detected at both mature and developing secretory cavities, the RlemispF-expressing cells were found more at around developing secretory cavities.

  18. Identification of putative candidate genes for juvenile wood density in Pinus radiata.

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    Li, Xinguo; Wu, Harry X; Southerton, Simon G

    2012-08-01

    Wood formation is a complex developmental process driven by the annual activity of the vascular cambium. Conifers usually produce juvenile wood at young ages followed by mature wood for the rest of their lifetime. Juvenile wood exhibits poorer wood quality (i.e., lower density) compared with mature wood and can account for up to 50% of short-rotation harvested logs, thus representing a major challenge for commercial forestry globally. Wood density is an important quality trait for many timber-related products. Understanding the molecular mechanisms involved in the regulation of juvenile wood density is critical for the improvement of juvenile wood quality via marker-aided selection. A previous study has identified several candidate genes affecting mature wood density in Picea sitchensis (Bong.) Carr.; however, genes associated with juvenile wood density in conifers remain poorly characterized. Here, cDNA microarrays containing 3320 xylem unigenes were used to investigate genes differentially transcribed in juvenile wood with high (HD) and low density (LD) in Pinus radiata D.Don. In total, 814 xylem unigenes with differential transcription were identified in at least one of two microarray experiments and 73 genes (45 for HD, 28 for LD) were identified in both experiments, thus representing putative candidate genes for juvenile wood density. Interestingly, cellulose synthases (PrCesA3, PrCesA11) and sucrose synthase (SuSy), which are involved in secondary cell wall formation, had stronger transcription in juvenile wood with HD, while genes functioning in primary wall formation (pectin synthesis, cell expansion and other modifications) were more transcribed in LD wood. Cell wall genes encoding monolignol biosynthesis enzymes, arabinogalactan proteins, actins and tubulins were differentially transcribed in either HD or LD juvenile wood; however, the latter had exclusively greater transcription of genes involved in monolignol polymerization (laccase and peroxidase). The

  19. Assessment of gene-by-sex interaction effect on bone mineral density

    DEFF Research Database (Denmark)

    Liu, Ching-Ti; Estrada, Karol; Yerges-Armstrong, Laura M;

    2012-01-01

    Sexual dimorphism in various bone phenotypes, including bone mineral density (BMD), is widely observed; however, the extent to which genes explain these sex differences is unclear. To identify variants with different effects by sex, we examined gene-by-sex autosomal interactions genome-wide, and ......Sexual dimorphism in various bone phenotypes, including bone mineral density (BMD), is widely observed; however, the extent to which genes explain these sex differences is unclear. To identify variants with different effects by sex, we examined gene-by-sex autosomal interactions genome...

  20. The effect of Agrobacterium densities and inoculation times on gene ...

    African Journals Online (AJOL)

    admin

    2014-06-04

    Jun 4, 2014 ... times on gene transformation efficiency in rubber tree ... 1Department of Plant Science, Faculty of Natural Resources, Prince of ... for 30 min gave the higher survival rate after being cultured on glyphosate containing MS medium for ..... for the production of fertile transgenic maize (Zea mays L.) plants. Mol.

  1. Density based pruning for identification of differentially expressed genes from microarray data

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    Xu Jia

    2010-11-01

    Full Text Available Abstract Motivation Identification of differentially expressed genes from microarray datasets is one of the most important analyses for microarray data mining. Popular algorithms such as statistical t-test rank genes based on a single statistics. The false positive rate of these methods can be improved by considering other features of differentially expressed genes. Results We proposed a pattern recognition strategy for identifying differentially expressed genes. Genes are mapped to a two dimension feature space composed of average difference of gene expression and average expression levels. A density based pruning algorithm (DB Pruning is developed to screen out potential differentially expressed genes usually located in the sparse boundary region. Biases of popular algorithms for identifying differentially expressed genes are visually characterized. Experiments on 17 datasets from Gene Omnibus Database (GEO with experimentally verified differentially expressed genes showed that DB pruning can significantly improve the prediction accuracy of popular identification algorithms such as t-test, rank product, and fold change. Conclusions Density based pruning of non-differentially expressed genes is an effective method for enhancing statistical testing based algorithms for identifying differentially expressed genes. It improves t-test, rank product, and fold change by 11% to 50% in the numbers of identified true differentially expressed genes. The source code of DB pruning is freely available on our website http://mleg.cse.sc.edu/degprune

  2. Cell culture density affects the stemness gene expression of adipose tissue-derived mesenchymal stem cells.

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    Kim, Dae Seong; Lee, Myoung Woo; Lee, Tae-Hee; Sung, Ki Woong; Koo, Hong Hoe; Yoo, Keon Hee

    2017-03-01

    The results of clinical trials using mesenchymal stem cells (MSCs) are controversial due to the heterogeneity of human MSCs and differences in culture conditions. In this regard, it is important to identify gene expression patterns according to culture conditions, and to determine how the cells are expanded and when they should be clinically used. In the current study, stemness gene expression was investigated in adipose tissue-derived MSCs (AT-MSCs) harvested following culture at different densities. AT-MSCs were plated at a density of 200 or 5,000 cells/cm(2). After 7 days of culture, stemness gene expression was examined by reverse transcription-quantitative polymerase chain reaction (RT-qPCR) analysis. The proliferation rate of AT-MSCs harvested at a low density (~50% confluent) was higher than that of AT-MSCs harvested at a high density (~90% confluent). Although there were differences in the expression levels of stemness gene, such as octamer-binding transcription factor 4, nanog homeobox (Nanog), SRY-box 2, Kruppel like factor 4, v-myc avian myelocytomatosis viral oncogene homolog (c-Myc), and lin-28 homolog A, in the AT-MSCs obtained from different donors, RT-qPCR analysis demonstrated differential gene expression patterns according to the cell culture density. Expression levels of stemness genes, particularly Nanog and c-Myc, were upregulated in AT-MSCs harvested at a low density (~50% confluent) in comparison to AT-MSCs from the same donor harvested at a high density (~90% confluent). These results imply that culture conditions, such as the cell density at harvesting, modulate the stemness gene expression and proliferation of MSCs.

  3. Characteristics and Tectonic Implications of Lithospheric Density Structures beneath Western Junggar and Its Surroundings%西准噶尔及邻区的岩石圈密度结构特征及其构造意义

    Institute of Scientific and Technical Information of China (English)

    许顺芳; 陈超; 杜劲松; 孙石达; 胡正旺

    2015-01-01

    对西准噶尔及周边地区壳幔结构的研究是揭示准噶尔盆地演化的重要基础。利用最新的卫星重力场模型,通过计算得到西准噶尔及周边地区的布格重力异常,进而采用三维反演技术,对西准噶尔及周边地区的地壳与上地幔顶部进行密度成像,得到了0~80 km 深度范围的密度异常结构。地壳密度分布显示古准噶尔洋壳有可能向 NE 和 NW 分别俯冲于西伯利亚板块和西准噶尔地块之下。上地幔顶部密度变化表明:阿尔泰褶皱带具有相对较低的密度,可能为古大陆巨厚的硅铝层所致;哈萨克斯坦-准噶尔盆地具有相对完整的高密度结构;天山褶皱带区域的密度大幅度变化刻画了超岩石圈断裂对岩石圈的切割以及岩石圈形变与构造活动的痕迹。%Structures in the crust and uppermost mantle beneath western Junggar and its surroundings,the key to better under-standing of the tectonic evolution of the Junggar basin,are studied in this paper.Firstly,the Bouguer gravity anomaly is calcu-lated from the satellite gravitational field model.Then 3D inversion technique is utilized,and the density imaging is operated in the crust and uppermost mantle beneath the western Junggar and its surroundings and finally the anomalous density structure at the depth range of 0-80 km is obtained.Crustal density distribution in the ancient oceanic crust of the Junggar indicates the possible subductions under the Siberian plate northeastwardly and the western Junggar northwestwardly.Density distribution in the uppermost mantle suggests that the relatively low density beneath Altay fold belt may have resulted from the thick sialic layer of the ancient continent,and Kazakhstan plate & Junggar basin are dominated by a relatively whole high-density structure while the significant density changes beneath the Tianshan fold belt describe the ultra-crustal deep faults and also the nicks of the tectonic

  4. Planning and Construction of Green Space Surrounding City Libraries Under High-density Background%高密度背景下城市图书馆周边绿地规划与建设

    Institute of Scientific and Technical Information of China (English)

    王滢

    2012-01-01

    随着我国城市化和经济建设的快速发展,一座座高楼大厦鳞次栉比拔地而起,塑造了高密度的新城市景观。由于土地资源本身固有属性的限制,土地供需矛盾,尤其是高密度地区用地供需矛盾日益尖锐。图书馆建筑也出现低层向多层纵向发展的态势,其周边绿地表现出新的空间特征。在这种背景下如何做好绿地规划与建设,本文提出一些原则和方法,以期图书馆空间环境质量得到不断提高。%In recent years,with the development of national economic construction,many of new landmark library building is emerging.Because of the limitation of land resource,in high density areas,the land supply and demand contradiction is increasingly sharp.Under this background,this paper puts forward some principle and ways of planning and construction of green space surrounding high-density city libraries,in order to improve the environment quality of library space.

  5. Association between low density lipoprotein receptor-related protein 2 gene polymorphisms and bone mineral density variation in Chinese population.

    Directory of Open Access Journals (Sweden)

    Chun Wang

    Full Text Available Low density lipoprotein receptor-related protein 2 gene (LRP2 is located next to the genomic region showing suggestive linkage with both hip and wrist bone mineral density (BMD phenotypes. LRP2 knockout mice showed severe vitamin D deficiency and bone disease, indicating the involvement of LRP2 in the preservation of vitamin D metabolites and delivery of the precursor to the kidney for the generation of 1α,25(OH(2D(3. In order to investigate the contribution of LRP2 gene polymorphisms to the variation of BMD in Chinese population, a total of 330 Chinese female-offspring nuclear families with 1088 individuals and 400 Chinese male-offspring nuclear families with 1215 individuals were genotyped at six tagSNPs of the LRP2 gene (rs2389557, rs2544381, rs7600336, rs10210408, rs2075252 and rs4667591. BMD values at the lumbar spine 1-4 (L1-4 and hip sites were measured by DXA. The association between LRP2 polymorphisms and BMD phenotypes was assessed by quantitative transmission disequilibrium tests (QTDTs in female- and male-offspring nuclear families separately. In the female-offspring nuclear families, rs2075252 and haplotype GA of rs4667591 and rs2075252 were identified in the nominally significant total association with peak BMD at L1-4; however, no significant within-family association was found between peak BMD at the L1-4 and hip sites and six tagSNPs or haplotypes. In male-offspring nuclear families, neither the six tagSNPs nor the haplotypes was in total association or within-family association with the peak BMD variation at the L1-4 and hip sites by QTDT analysis. Our findings suggested that the polymorphisms of LRP2 gene is not a major factor that contributes to the peak BMD variation in Chinese population.

  6. ASSOCIATION BETWEEN LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED PROTEIN GENE, BUTYRYLCHOLINESTERASE GENE AND ALZHEIMER'S DISEASE IN CHINESE

    Institute of Scientific and Technical Information of China (English)

    毕胜; 张昱; 吴江; 王德生; 赵庆杰

    2001-01-01

    Objective. To research the relations between low-density lipoprotein receptor-related protein gene (LRP)polymorphism, butyrylcholinesterase gene (BchE) polymorphism and Alzheimer's disease (AD) in Chinese. Methods. The gene polymorphisms of LRP and BchE were genotyped in 38 AD eases and 40 controls withpolymerase chain reaction-restrictian fragment length polymorphism (PCR-RFLP) methods. AD groups were classi-fled according to the LRP C/C genotype and compared with matched controls. Resu/ts. AD group had higher frequencies ofC/C homozygote (81.6% vs 60. 0%, P <0. 05) and of C allele (89.5% vs 76. 3%, P < 0. 05), with no significant difference between any of these LRP genotypes classi-fied AD groups and their respective control groups. Conclusions. A positive correlation was found between LRP gene polymorphism and AD, but not betweenBchE gene polymorphism and AD in Chinese AD cases.

  7. ASSOCIATION BETWEEN LOW-DENSITY LIPOPROTEIN RECEPTOR-RELATED PROTEIN GENE, BUTYRYLCHOLINESTERASE GENE AND ALZHEIMER'S DISEASE IN CHINESE

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Objective. To research the relations between low-density lipoprotein receptor-related protein gene (LRP) polymorphism, butyrylcholinesterase gene (BchE) polymorphism and Alzheimer's disease (AD) in Chinese. Methods. The gene polymorphisms of LRP and BchE were genotyped in 38 AD cases and 40 controls with polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) methods. AD groups were classified according to the LRP C/C genotype and compared with matched controls. Results. AD group had higher frequencies of C/C homozygote (81.6% vs 60.0% , P<0.05) and of C allele (89.5% vs 76.3% , P< 0.05),with no significant difference between any of these LRP genotypes classified AD groups and their respective control groups.? Conclusions. A positive correlation was found between LRP gene polymorphism and AD, but not between BchE gene polymorphism and AD in Chinese AD cases.

  8. Differential gene expression profiles in foetal skin of Rex rabbits with different wool density

    Directory of Open Access Journals (Sweden)

    L. Liu

    2016-09-01

    Full Text Available This study investigated the mechanisms controlling hair follicle development in the Rex rabbit. The Agilent rabbit gene expression microarray was used to determine differentially expressed genes in Rex rabbit foetuses with different wool densities. The expression patterns of selected differentially-expressed genes were further investigated by quantitative real-time PCR. Compared to low wool density rabbits, 1342 differentially expressed probes were identified in high wool density rabbits, including 950 upregulated probes and 392 downregulated probes. Gene ontology analysis revealed that the most upregulated differentially expressed probes belonged to receptors and the most downregulated differentially expressed probes belonged to DNA binding molecules. Kyoto Encyclopedia of Genes and Genomes pathway analysis revealed that the differentially expressed probes were mainly involved in the sonic hedgehog (Shh and Eph signalling pathways. The results also suggest that transforming growth factor-beta 1, growth hormone receptor, and the keratin-associated protein 6.1 genes, as well as the Shh and Eph signalling pathways, may be involved in the regulation of hair follicle developmental in Rex rabbits.

  9. Low plant density enhances gene dispersal in the Amazonian understory herb Heliconia acuminata.

    Science.gov (United States)

    Côrtes, Marina C; Uriarte, María; Lemes, Maristerra R; Gribel, Rogério; Kress, W John; Smouse, Peter E; Bruna, Emilio M

    2013-11-01

    In theory, conservation genetics predicts that forest fragmentation will reduce gene dispersal, but in practice, genetic and ecological processes are also dependent on other population characteristics. We used Bayesian genetic analyses to characterize parentage and propagule dispersal in Heliconia acuminata L. C. Richard (Heliconiaceae), a common Amazonian understory plant that is pollinated and dispersed by birds. We studied these processes in two continuous forest sites and three 1-ha fragments in Brazil's Biological Dynamics of Forest Fragments Project. These sites showed variation in the density of H. acuminata. Ten microsatellite markers were used to genotype flowering adults and seedling recruits and to quantify realized pollen and seed dispersal distances, immigration of propagules from outside populations, and reproductive dominance among parents. We tested whether gene dispersal is more dependent on fragmentation or density of reproductive plants. Low plant densities were associated with elevated immigration rates and greater propagule dispersal distances. Reproductive dominance among inside-plot parents was higher for low-density than for high-density populations. Elevated local flower and fruit availability is probably leading to spatially more proximal bird foraging and propagule dispersal in areas with high density of reproductive plants. Nevertheless, genetic diversity, inbreeding coefficients and fine-scale spatial genetic structure were similar across populations, despite differences in gene dispersal. This result may indicate that the opposing processes of longer dispersal events in low-density populations vs. higher diversity of contributing parents in high-density populations balance the resulting genetic outcomes and prevent genetic erosion in small populations and fragments.

  10. Autonomous Bacterial Localization and Gene Expression Based on Nearby Cell Receptor Density

    Science.gov (United States)

    2013-01-22

    Upon detection of B1–5 mM AI-2, these cells express T7 polymerase that amplifies the native lsr operon response by overexpressing DsRed (see...2 for initiating gene expression (lsr operon ). (B) Indicated densities of PCI-15B or HEK293 cells were seeded to wells followed by mouse anti-EGFR

  11. Differential modulation of gene expression in the NMDA postsynaptic density of schizophrenic and control smokers.

    Science.gov (United States)

    Mexal, S; Frank, M; Berger, R; Adams, C E; Ross, R G; Freedman, R; Leonard, S

    2005-10-03

    Nicotine is known to induce the release of multiple neurotransmitters, including glutamate and dopamine, through activation of nicotinic receptors. Gene expression in the N-methyl-d-aspartate postsynaptic density (NMDA-PSD), as well as other functional groups, was compared in postmortem hippocampus of schizophrenic and nonmentally ill smokers and nonsmokers utilizing a microarray and quantitative RT-PCR approach. The expression of 277 genes was significantly changed between all smokers and nonsmokers. Specific gene groups, most notably genes expressed in the NMDA-PSD, were prevalent among these transcripts. Analysis of the interaction between smoking and schizophrenia identified several genes in the NMDA-PSD that were differentially affected by smoking in patients. The present findings suggest that smoking may differentially modulate glutamatergic function in schizophrenic patients and control subjects. The biological mechanisms underlying chronic tobacco use are likely to differ substantially between these two groups.

  12. Practices Surrounding Event Photos

    NARCIS (Netherlands)

    Vyas, Dhaval; Nijholt, Antinus; van der Veer, Gerrit C.; Kotzé, P.; Marsden, G.; Lindgaard, G.; Wesson, J.; Winckler, M.

    Sharing photos through mobile devices has a great potential for creating shared experiences of social events between co-located as well as remote participants. In order to design novel event sharing tools, we need to develop indepth understanding of current practices surrounding these so called

  13. Evaluation of low density array technology for quantitative parallel measurement of multiple genes in human tissue

    Directory of Open Access Journals (Sweden)

    Harmer Daniel W

    2006-02-01

    Full Text Available Abstract Background Low density arrays (LDAs have recently been introduced as a novel approach to gene expression profiling. Based on real time quantitative RT-PCR (QRT-PCR, these arrays enable a more focused and sensitive approach to the study of gene expression than gene chips, while offering higher throughput than more established approaches to QRT-PCR. We have now evaluated LDAs as a means of determining the expression of multiple genes simultaneously in human tissues and cells. Results Comparisons between LDAs reveal low variability, with correlation coefficients close to 1. By performing 2-fold and 10-fold serial dilutions of cDNA samples in the LDAs we determined a clear linear relationship between the gene expression data points over 5 orders of magnitude. We also showed that it is possible to use LDAs to accurately and quantitatively detect 2-fold changes in target copy number as well as measuring genes that are expressed with low and high copy numbers in the range of 1 × 102 – 1 × 106 copies. Furthermore, the data generated by the LDA from a cell based pharmacological study were comparable to data generated by conventional QRT-PCR. Conclusion LDAs represent a valuable new approach for sensitive and quantitative gene expression profiling.

  14. Optimization lighting layout based on gene density improved genetic algorithm for indoor visible light communications

    Science.gov (United States)

    Liu, Huanlin; Wang, Xin; Chen, Yong; Kong, Deqian; Xia, Peijie

    2017-05-01

    For indoor visible light communication system, the layout of LED lamps affects the uniformity of the received power on communication plane. In order to find an optimized lighting layout that meets both the lighting needs and communication needs, a gene density genetic algorithm (GDGA) is proposed. In GDGA, a gene indicates a pair of abscissa and ordinate of a LED, and an individual represents a LED layout in the room. The segmented crossover operation and gene mutation strategy based on gene density are put forward to make the received power on communication plane more uniform and increase the population's diversity. A weighted differences function between individuals is designed as the fitness function of GDGA for reserving the population having the useful LED layout genetic information and ensuring the global convergence of GDGA. Comparing square layout and circular layout, with the optimized layout achieved by the GDGA, the power uniformity increases by 83.3%, 83.1% and 55.4%, respectively. Furthermore, the convergence of GDGA is verified compared with evolutionary algorithm (EA). Experimental results show that GDGA can quickly find an approximation of optimal layout.

  15. ASSOCIATION OF PARATHYROID HORMONE GENE POLYMORPHISM WITH BONE MINERAL DENSITY IN CHINESE WOMEN

    Institute of Scientific and Technical Information of China (English)

    李梅; 孟迅吾; 周学瀛; 邢小平; 余卫

    2003-01-01

    Objective. To investigate the distribution frequency of parathyroid hormone(PTH) gene polymorphism in healthy adults from Bejing area and to explore the association of PTH genotypes with bone mineral density (BMD). Methods. PTH gene polymorphism was detected in 270 subjects by polymerase chain reaction (PCR) and PCR/restriction fragment length polymorphism (PCR/RFLP). The digestion products of restriction enzyme Bst B1 were separated on 1% agarose gels. PTH genotypes were confirmed by DNA sequences analysis. BMD was measured by dual-energy X-ray absorptiometry (DEXA, DPX- L, Lunar). Results. Genotype frequencies of BB, Bb, bb were 73.7% , 25.9% and 0.4% respectively in Beijing adults( P0.05). Conclusion. PTH gene polymorphism is not associated with BMD in Chinese women. The further research to explore the genetic risk factors of osteoporosis should be committed.

  16. Polymorphisms in genes involved in the estrogen pathway and mammographic density

    Directory of Open Access Journals (Sweden)

    Dumas Isabelle

    2010-11-01

    Full Text Available Abstract Background Single nucleotide polymorphisms (SNPs in genes involved in the estrogen pathway appear to be associated with breast cancer risk and possibly with mammographic density (MD, but little is known of these associations among premenopausal women. This study examines the association of 11 polymorphisms in five estrogen-related genes (estrogen receptors alpha and beta (ERα, ERβ, 17β-hydroxysteroid dehydrogenase 1 (HSD17B1, catechol-O-methyltransferase (COMT, cytochrome P450 1B1 (CYP1B1 with premenopausal MD. Effect modification of four estrogen-related factors (parity, age at menarche, hormonal derivatives use and body mass index (BMI on this relation is also assessed. Methods Polymorphisms were genotyped in 741 premenopausal Caucasian women whose MD was measured in absolute density (AD, cm2 and percent density using a computer-assisted method. Multivariate linear models were used to examine the associations (Ptrend and interactions (Pi. Results None of the SNPs showed a statistically significant association with AD. However, each additional rare allele of rs1056836 CYP1B1 was associated with a reduction in AD among nulliparous women (Ptrend = 0.004, while no association was observed among parous women (Ptrend = 0.62; Pi = 0.02. An increase in the number of rare alleles of the HSD17B1 SNP (rs598126 and rs2010750 was associated with an increase in AD among women who never used hormonal derivatives (Ptrend = 0.06 and Ptrend = 0.04, respectively, but with a decrease in AD among past hormonal derivatives users (Ptrend = 0.04; Pi = 0.02 and Ptrend = 0.08; Pi = 0.01, respectively. Moreover, a negative association of rs598126 HSD17B1 SNP with AD was observed among women with higher BMI (>median (Ptrend = 0.01; Pi = 0.02. A negative association between an increased number of rare alleles of COMT rs4680 SNP and AD was limited to women who never used hormonal derivatives (Ptrend = 0.02; Pi = 0.03 or with late age at menarche (>median

  17. Estrogen Receptor Gene (ESR1 PVUII and XBAI Polymorphisms and Bone Mineral Density in Kazakh Women

    Directory of Open Access Journals (Sweden)

    Ainur Akilzhanova

    2014-01-01

    Full Text Available Introduction: Osteoporosis is a common age-related disease that is strongly influenced by genetics. Polymorphisms of the estrogen receptor gene alpha (ESR1 are consistently been associated with bone mineral density (BMD and fracture. The purpose of this investigation was to evaluate potential association of single nucleotide polymorphism (SNP variants of the ESR1 gene and bone mineral density (BMD of the lumbar spine in Kazakh women. Methods: 140 female participants in Pavlodar clinics with varying measures of BMD. We are examined the potential association of BMD with 2 SNPs from the ESR1 gene (rs2234693 [PvuII] and rs9340799 [XbaI]. Genotyping of the PvuII and XbaI polymorphisms was performed by direct sequencing of the gene fragments containing restriction sites with the identification of genotypes PP, Pp, pp and XX, Xx, xx respectively. Results: Unadjusted mean BMD values ranged from 1.14±0.14 g/cm2 in Caucasian women and 1.03±0.11 g/cm2 in Asian women. The association between PvuII polymorphism and BMD at the lumbar spine (p= 0.04 for PP=Pp=pp was statistically significant in all women. The XbaI polymorphism was not associated with BMD at lumbar spine. The relative risk for low BMD was higher for the marker PvuII (RR=1.51 than for the marker XbaI (RR=1.35. Conclusion: The PvuII polymorphism had a weak association with lumbar spine BMD.  XbaI polymorphism was unlikely to be a predictor of lumbar spine BMD in Kazakh women. These conclusions could help to determine the genetic risk factors for osteoporosis; however, further studies on the association between gene polymorphisms and BMD are needed including larger numbers of participants and genes to clarify genetic risks.

  18. Atomic Hydrogen Surrounded by Water Molecules, H(H2O)m, Modulates Basal and UV-Induced Gene Expressions in Human Skin In Vivo

    Science.gov (United States)

    Shin, Mi Hee; Park, Raeeun; Nojima, Hideo; Kim, Hyung-Chel; Kim, Yeon Kyung; Chung, Jin Ho

    2013-01-01

    Recently, there has been much effort to find effective ingredients which can prevent or retard cutaneous skin aging after topical or systemic use. Here, we investigated the effects of the atomic hydrogen surrounded by water molecules, H(H2O)m, on acute UV-induced responses and as well as skin aging. Interestingly, we observed that H(H2O)m application to human skin prevented UV-induced erythema and DNA damage. And H(H2O)m significantly prevented UV-induced MMP-1, COX-2, IL-6 and IL-1β mRNA expressions in human skin in vivo. We found that H(H2O)m prevented UV-induced ROS generation and inhibited UV-induced MMP-1, COX-2 and IL-6 expressions, and UV-induced JNK and c-Jun phosphorylation in HaCaT cells. Next, we investigated the effects of H(H2O)m on intrinsically aged or photoaged skin of elderly subjects. In intrinsically aged skin, H(H2O)m application significantly reduced constitutive expressions of MMP-1, IL-6, and IL-1β mRNA. Additionally, H(H2O)m significantly increased procollagen mRNA and also decreased MMP-1 and IL-6 mRNA expressions in photoaged facial skin. These results demonstrated that local application of H(H2O)m may prevent UV-induced skin inflammation and can modulate intrinsic skin aging and photoaging processes. Therefore, we suggest that modifying the atmospheric gas environment within a room may be a new way to regulate skin functions or skin aging. PMID:23637886

  19. Mutations in low-density lipoprotein receptor gene as a cause of hypercholesterolemia in Taiwan.

    Science.gov (United States)

    Chiu, Chih-Yang; Wu, Yi-Chi; Jenq, Shwu-Fen; Jap, Tjin-Shing

    2005-08-01

    Familial hypercholesterolemia (FH) is inherited as an autosomal dominant trait that has been associated with more than 920 different mutations in the low-density lipoprotein receptor (LDLR) gene. To characterize LDLR gene mutations in the Chinese of Han descent with FH, we isolated genomic DNA from peripheral blood samples of 20 affected subjects and 50 healthy subjects with no family history of hypercholesterolemia. We used polymerase chain reaction and long polymerase chain reaction to amplify the 18 coding exons and the minimal promoter of the LDLR gene, and subjected amplicons to direct sequence analysis. We identified 6 mutations in LDLR gene, including heterozygous missense mutations I420T (ATC-->ACC), C660W (TGC-->TGG), H562Y (CAC-->TAC), and A606T (GCC-->ACC), and a heterozygous and a homozygous mutation in codon P664L (CCG-->CTG) as well as a homozygous large deletion of exons 6 to 8. The FH homozygotes manifested generalized xanthomatosis. One of the mutations we identified (C660W) was novel. In conclusion, we identified 5 missense mutations and 1 large deletion in LDLR gene, including 1 novel mutation in Han Chinese with FH in Taiwan.

  20. Poly(ethylene glycol)-block-cationic polylactide nanocomplexes of differing charge density for gene delivery.

    Science.gov (United States)

    Chen, Chih-Kuang; Jones, Charles H; Mistriotis, Panagiotis; Yu, Yun; Ma, Xiaoni; Ravikrishnan, Anitha; Jiang, Ming; Andreadis, Stelios T; Pfeifer, Blaine A; Cheng, Chong

    2013-12-01

    Representing a new type of biodegradable cationic block copolymer, well-defined poly(ethylene glycol)-block-cationic polylactides (PEG-b-CPLAs) with tertiary amine-based cationic groups were synthesized by thiol-ene functionalization of an allyl-functionalized diblock precursor. Subsequently the application of PEG-b-CPLAs as biodegradable vectors for the delivery of plasmid DNAs (pDNAs) was investigated. Via the formation of PEG-b-CPLA:pDNA nanocomplexes by spontaneous electrostatic interaction, pDNAs encoding luciferase or enhanced green fluorescent protein were successfully delivered to four physiologically distinct cell lines (including macrophage, fibroblast, epithelial, and stem cell). Formulated nanocomplexes demonstrated high levels of transfection with low levels of cytotoxicity and hemolysis when compared to a positive control. Biophysical characterization of charge densities of nanocomplexes at various polymer:pDNA weight ratios revealed a positive correlation between surface charge and gene delivery. Nanocomplexes with high surface charge densities were utilized in an in vitro serum gene delivery inhibition assay, and effective gene delivery was observed despite high levels of serum. Overall, these results help to elucidate the influence of charge, size, and PEGylation of nanocomplexes upon the delivery of nucleic acids in physiologically relevant conditions. Copyright © 2013 Elsevier Ltd. All rights reserved.

  1. Isolation of cosmid and cDNA clones in the region surrounding the BTK gene at Xq21.3-q22

    Energy Technology Data Exchange (ETDEWEB)

    Vorechovsky, I.; Zhou, J.N.; Hammarstroem, L. [Karolinska Institute, Huddinge (Sweden)] [and others

    1994-06-01

    A regional physical and transcription map involving yeast artificial chromosomes (YACs), cosmids, and cDNAs has been constructed for Xq21.3-q22 around the gene BTK (formerly atk or BPK) defective in X-linked agammaglobulinemia (XLA). With a positional cloning strategy employing direct cDNA selection, novel cDNAs were found to cluster in the region of approximately 100 kb flanking the XLA and {alpha}-galactosidase A loci. While these widely expressed transcripts are in the area known to contain CpG islands, a less evolutionarily conserved gene, located more than 130 kb distal of DXS178, maps to cosmid clones that could not be digested with rare-cutting restriction enzymes. The presence of transcribed sequences flanking the BTK allowed investigation of their involvement in complex XLA phenotypes. Southern blot analysis using cDNA clones isolated from this region permitted exclusion of a contiguous deletion syndrome as an underlying defect in three patients with XLA and associated growth hormone deficiency. A single XLA patient with torsion dystonia and cosegregating X-linked deafness has been found with a deletion in the 3{prime} part of BTK extending centromerically into the flanking expressed sequence DXS1274E. This suggests a possible involvement of the DXS1274E in this phenotype. The GenBank accession numbers for novel cDNA sequences are as follows: DXS1269E (L20773), DXS1271E (UO1923), DXS1273E (UO1925), and DXS1274E (UO1922). 51 refs., 4 figs., 1 tab.

  2. DETECTING LOW DENSITY LIPOPROTEIN RECEPTOR MUTANT GENE OF RABBIT BY PCR

    Institute of Scientific and Technical Information of China (English)

    Liu Enqi; Zhao Sihai; Chen Zhenglan; Yang Penghui

    2006-01-01

    Objective Watanabe Heritable Hyperlipidaemic (WHHL) rabbits with low density lipoprotein receptor (LDLr) gene mutation have provided unprecedented opportunities for the study of human atherosclerosis, in order to confirm LDL receptor gene status in rabbits, we developed a simple PCR technique to detect LDL mutations in rabbits. Methods Rabbits genomic DNA were extracted from ear biopsy, and amplified by PCR to detect 12 bp deletion mutation in WHHL rabbits. PCR products were directly digested with BglⅠ, and then applied to polyacrylamide gel electrophoresis. Results PCR products from homozygous LDLr +/+ rabbits generated 2 bands of 212 and 94 bp after BglⅠ digestion, LDLr +/- rabbits generated 3 bands (294, 212, and 94 bp), LDLr -/- animals, however, generated only 1 product (294 bp). Conclusion This modified PCR method is simple and reliable.

  3. Estrogen receptor gene polymorphisms and bone mineral density in Chinese postmenopausal women

    Institute of Scientific and Technical Information of China (English)

    刘建民; 朱汉民; 朱晓颖; 戴蒙; 江凌; 许曼音; 陈家伦

    2003-01-01

    Objective To investigate the relationships between the polymorphisms of estrogen receptor (ER) gene, bone mineral density (BMD) and bone biochemical markers in Chinese postmenopausal women. Methods BMD of lumbar spine and femoral neck were measured using dual-energy X-ray absorptiometry (DEXA)in 186 Chinese postmenopausal women. The PvuⅡ and XbaⅠ polymorphisms of the ER gene were detected using polymerase chain reaction (PCR). Bone biochemical markers, serum alkaline phosphatase, osteocalcin and pyridinoline were measured by ELISA. Results The femoral neck(FN) BMD (Z score) was higher in pp compared to Pp (-0.01±0.12 vs. -0.35±0.09, P<0.05) while lumbar spine BMD (Z score) was higher in XX type compared to Xx and xx genotypes (0.01±0.45 vs -1.53±0.17, -1.29±0.10, P<0.001 and 0.001, respectively). Women without Px haplotype (n=79) had a higher BMD Z-score for the lumbar spine (-1.03±0.14 vs -1.45±0.11, P<0.05) and femoral neck (-0.01±0.11 vs -0.31±0.09, P<0.05) than those who had it (n=107). Conclusions The present study suggested that the pp and XX genotypes of ER gene might play a certain role in maintaining FN and lumbar spine BMD. ER genotypes without Px haplotype might be favorable to bone mass, while those with it might exert some harmful effect on bone mineral density.

  4. Copepod swimming behavior, respiration, and expression of stress-related genes in response to high stocking densities

    DEFF Research Database (Denmark)

    Nilsson, Birgitte; Jakobsen, Hans; Stief, Peter

    2017-01-01

    ,000 ind. L−1. Three biological/physiological end-points were studied: swimming behavior, respiration rate and expression level of stress-related genes. None of the elevated densities caused any significant change in swimming behavior, respiration rate or gene expression level. This study suggests...

  5. Altered glial gene expression, density, and architecture in the visual cortex upon retinal degeneration.

    Science.gov (United States)

    Cornett, Ashley; Sucic, Joseph F; Hillsburg, Dylan; Cyr, Lindsay; Johnson, Catherine; Polanco, Anthony; Figuereo, Joe; Cabine, Kenneth; Russo, Nickole; Sturtevant, Ann; Jarvinen, Michael K

    2011-11-08

    Genes encoding the proteins of cytoskeletal intermediate filaments (IF) are tightly regulated, and they are important for establishing neural connections. However, it remains uncertain to what extent neurological disease alters IF gene expression or impacts cells that express IFs. In this study, we determined the onset of visual deficits in a mouse model of progressive retinal degeneration (Pde6b(-) mice; Pde6b(+) mice have normal vision) by observing murine responses to a visual task throughout development, from postnatal day (PND) 21 to adult (N=174 reliable observations). Using Q-PCR, we evaluated whether expression of the genes encoding two Type III IF proteins, glial fibrillary acidic protein (GFAP) and vimentin was altered in the visual cortex before, during, and after the onset of visual deficits. Using immunohistochemical techniques, we investigated the impact of vision loss on the density and morphology of astrocytes that expressed GFAP and vimentin in the visual cortex. We found that Pde6b(-) mice displayed 1) evidence of blindness at PND 49, with visual deficits detected at PND 35, 2) reduced GFAP mRNA expression in the visual cortex between PND 28 and PND 49, and 3) an increased ratio of vimentin:GFAP-labeled astrocytes at PND 49 with reduced GFAP cell body area. Together, these findings demonstrate that retinal degeneration modifies cellular and molecular indices of glial plasticity in a visual system with drastically reduced visual input. The functional consequences of these structural changes remain uncertain.

  6. A candidate gene association study of bone mineral density in an Iranian population.

    Directory of Open Access Journals (Sweden)

    Seyed Alireza Dastgheib

    2016-10-01

    Full Text Available The genetic epidemiology of variation in bone mineral density (BMD and osteoporosis is not well studied in Iranian populations and needs more research. We report a candidate gene association study of BMD variation in a healthy cross sectional study of 501 males and females sampled from the IMOS study Shiraz, Iran. We selected to study the association with 21 SNPs located in the 7 candidate genes LRP5, RANK, RANKL, OPG, P2RX7, VDR and ESR1. BMD was measured at the three sites L2-L4, neck of femur and total hip. Association between BMD and each SNP was assessed using multiple linear regression assuming an allele dose (additive effect on BMD (adjusted for age and sex. Statistically significant (at the unadjusted 5% level associations were seen with 7 SNPs in 5 of the candidate genes. Two SNPs showed statistically significant association with more than one BMD site. Significant association was seen between BMD at all three sites with the VDR SNP rs731246 (L2-L4 p=0.038; neck of femur p=0.001 and total hip p<0.001. The T allele was consistently associated with lower BMD than the C allele. Significant association was also seen for the P2RX7 SNP rs3751143 where the G allele was consistently associated with lower BMD than the T allele, (L2-L4 p=0.069; neck of femur p=0.024, total hip p=0.045.

  7. A codon substitution model that incorporates the effect of the GC contents, the gene density and the density of CpG islands of human chromosomes

    Directory of Open Access Journals (Sweden)

    Misawa Kazuharu

    2011-08-01

    Full Text Available Abstract Background Developing a model for codon substitutions is essential for the analyses of protein sequences. Recent studies on the mutation rates in the non-coding regions have shown that CpG mutation rates in the human genome are negatively correlated to the local GC content and to the densities of functional elements. This study aimed at understanding the effect of genomic features, namely, GC content, gene density, and frequency of CpG islands, on the rates of codon substitution in human chromosomes. Results Codon substitution rates of CpG to TpG mutations, TpG to CpG mutations, and non-CpG transitions and transversions in humans were estimated by comparing the coding regions of thousands of human and chimpanzee genes and inferring their ancestral sequences by using macaque genes as the outgroup. Since the genomic features are depending on each other, partial regression coefficients of these features were obtained. Conclusion The substitution rates of codons depend on gene densities of the chromosomes. Transcription-associated mutation is one such pressure. On the basis of these results, a model of codon substitutions that incorporates the effect of genomic features on codon substitution in human chromosomes was developed.

  8. Association between a variation in the phosphodiesterase 4D gene and bone mineral density

    Directory of Open Access Journals (Sweden)

    Sambrook Philip N

    2005-03-01

    Full Text Available Abstract Background Fragility fractures caused by osteoporosis are a major cause of morbidity and mortality in aging populations. Bone mineral density (BMD is a useful surrogate marker for risk of fracture and is a highly heritable trait. The genetic variants underlying this genetic contribution are largely unknown. Methods We performed a large-scale association study investigating more than 25,000 single nucleotide polymorphisms (SNPs located within 16,000 genes. Allele frequencies were estimated in contrasting DNA pools from white females selected for low (2, n = 319 and high (> 1.11 g/cm2, n = 321 BMD at the lumbar spine. Significant findings were verified in two additional sample collections. Results Based on allele frequency differences between DNA pools and subsequent individual genotyping, one of the candidate loci indicated was the phosphodiesterase 4D (PDE4D gene region on chromosome 5q12. We subsequently tested the marker SNP, rs1498608, in a second sample of 138 white females with low (2 and 138 females with high (>1.04 g/cm2 lumbar spine BMD. Odds ratios were 1.5 (P = 0.035 in the original sample and 2.1 (P = 0.018 in the replication sample. Association fine mapping with 80 SNPs located within 50 kilobases of the marker SNP identified a 20 kilobase region of association containing exon 6 of PDE4D. In a second, family-based replication sample with a preponderance of females with low BMD, rs1498608 showed an opposite relationship with BMD at different sites (p = 0.00044-0.09. We also replicated the previously reported association of the Ser37Ala polymorphism in BMP2, known to interact biologically with PDE4D, with BMD. Conclusion This study indicates that variants in the gene encoding PDE4D account for some of the genetic contribution to bone mineral density variation in humans. The contrasting results from different samples indicate that the effect may be context-dependent. PDE4 inhibitors have been shown to increase bone mass in

  9. Progestogen levels, Progesterone Receptor Gene polymorphisms, and mammographic density changes: results from the Postmenopausal Estrogen/Progestin Interventions Mammographic Density Study (PEPI-MDS)

    Science.gov (United States)

    Lee, Eunjung; Ingles, Sue A.; Van Den Berg, David; Wang, Wei; LaVallee, Chris; Huang, Mei-Hua; Crandall, Carolyn J.; Stanczyk, Frank Z.; Greendale, Gail A.; Ursin, Giske

    2015-01-01

    Objective Estrogen plus progestin therapy (EPT) in postmenopausal women increases breast cancer risk and mammographic density to a higher extent than does estrogen therapy (ET) alone. Data from the randomized placebo-controlled Postmenopausal Estrogen/Progestin Interventions (PEPI) trial showed that EPT-induced increases in serum estrone and estrone sulfate levels were positively correlated with increases in mammographic density. Here, after adjusting for serum estrone and estrone sulfate levels, we investigated the roles of post-treatment serum progestogen increase and of progesterone receptor gene (PGR) genetic variations on changes in mammographic density. Methods We measured percent mammographic density and serum progestogen levels in 280 PEPI participants randomized to EPT treatment. Analyses of genetic variations in PGR were limited to 260 white women for whom we successfully obtained PGR genotypes. We used linear regression analyses to determine how increase in progestogen levels and PGR genetic variations influenced mammographic density change following EPT. Results The increase in post-treatment serum progestogen level was positively associated with greater increases in mammographic density after adjustment for covariates (P-trend=0.044). Compared to women in the lowest quartile of serum progestogen, women in the highest quartile experienced a 3.5% greater increase in mammographic density (P=0.046). We did not find a strong indication that genetic variations in PGR were associated with mammographic density increase, or modified the association with serum progestogen, however confidence in these null findings is constrained by our small sample size. Conclusions Our results suggest that higher serum progestogen levels resulting from EPT treatment lead to greater increases in mammographic density. PMID:22105149

  10. The low-density lipoprotein receptor gene family: a cellular Swiss army knife?

    Science.gov (United States)

    Nykjaer, Anders; Willnow, Thomas E

    2002-06-01

    The low-density lipoprotein receptor gene family is an evolutionarily conserved group of cell-surface receptors produced by mammals and other organisms. Initially thought to be endocytic receptors that mediate the uptake of lipoproteins, recent findings have shown that these receptors have other roles in a range of cellular processes. Among other activities, members of this family act as signal transducers in neuronal migration processes, regulate synaptic plasticity or control vitamin homeostasis. Such multifunctionality is achieved by interaction with diverse cell-surface proteins including glycolipid-anchored receptors, G-protein-coupled receptors and ion channels. Here, we review the molecular interactions of this protein family with other cell-surface proteins that provide specificity and versatility - a versatility that may be reminiscent of a cellular Swiss army knife.

  11. A Biomimic Reconstituted High Density Lipoprotein Nanosystem for Enhanced VEGF Gene Therapy of Myocardial Ischemia

    Directory of Open Access Journals (Sweden)

    Xiaotian Sun

    2015-01-01

    Full Text Available A biomimic reconstituted high density lipoprotein (rHDL based system, rHDL/Stearic-PEI/VEGF complexes, was fabricated as an advanced nanovector for delivering VEGF plasmid. Here, Stearic-PEI was utilized to effectively condense VEGF plasmid and to incorporate the plasmid into rHDL. The rHDL/Stearic-PEI/VEGF complexes with diameter under 100 nm and neutral surface charge demonstrated enhanced stability under the presence of bovine serum albumin. Moreover, in vitro cytotoxicity and transfection assays on H9C2 cells further revealed their superiority, as they displayed lower cytotoxicity with much higher transfection efficiency when compared to PEI 10K/VEGF and Lipos/Stearic-PEI/VEGF complexes. In addition, in vivo investigation on ischemia/reperfusion rat model implied that rHDL/Stearic-PEI/VEGF complexes possessed high transgene capacity and strong therapeutic activity. These findings indicated that rHDL/Stearic-PEI/VEGF complexes could be an ideal gene delivery system for enhanced VEGF gene therapy of myocardial ischemia, which might be a new promising strategy for effective myocardial ischemia treatment.

  12. [New mutations in low-density lipoprotein receptor gene in familial hypercholesterolemia patients from Petrozavodsk].

    Science.gov (United States)

    Komarova, T Yu; Golovina, A S; Grudinina, N A; Zakharova, F M; Korneva, V A; Lipovetsky, B M; Serebrenitskaya, M P; Konstantinov, V O; Vasilyev, V B; Mandelshtam, M Yu

    2013-06-01

    Using an automated fluorescent single-strand conformation polymorphism (SSCP) analysis of the entire coding region, promoter zone, and exon-intron junctions of the low-density lipoprotein (LDL) receptor gene, we examined 80 DNA samples of patients with familial hypercholesterolemia (FH) from Petrozavodsk. We revealed mutations that might cause FH in five probands, including FH-North Karelia (c.925-931del7) mutation and four previously unknown mutations. These novel mutations included a transversion (c.618T>G (p.S206R), one nucleotide insertion c.195_196insT (p.FsV66:D129X), a complex gene rearrangement c.192del10/ins8 (p.FsS65:D129X), and a single nucleotide deletion c.2191delG (p.FsV731:V736X). Three out of four novel mutations produce an open reading frame shift and the premature termination of translation. An analysis of the cDNA sequence of the LDL receptor showed that this might result in the formation of a transmembrane-domain-deficient receptor that is unable to bind and internalize the ligand. Our results suggest the absence of a strong founder effect associated with FH in the Petrozavodsk population.

  13. Identification of transition bias in oxidized low density lipoprotein receptor 1 gene in buffalo

    Directory of Open Access Journals (Sweden)

    N. Shabir

    2014-03-01

    Full Text Available Aim: Though transition bias has been previously demonstrated in cattle, however, there has not been any study that has explored transition bias in buffalo nuclear genome. The aim of the present study was to evaluate the nucleotide substitution pattern in the Intron I of Oxidised Low Density Lipoprotein Receptor 1 (OLR1 gene in four breeds of Indian buffalo using 24 different nucleotide substitution models and evaluate their association with DNA methylation. Materials and Methods: Transition/transversion bias (R was estimated by 24 different nucleotide substitution models available in MEGA 5.0. The transition/transversion bias (R was estimated under the Kimura 2-parameter model. Substitution patterns and the transitions/transversions rates (r were then estimated by Tamura-Nei-I and Tamura-Nei-II models. The CpG Island search was done by using CpG Plot Island online Software available at European Bioinformatics Institute (EBI website. Results: The frequency of transition was found to be 3.5 times higher than that of the transversion mutation frequency. Out of 9 nucleotide substitutions, 7 transitions and 2 transversions were found. Among all the nucleotide substitutions, thymine to cytosine substitutions was observed to be very high. CpG Island search tool revealed that IntronI of OLR1 genes is a CpG rich region, thus prone to methylation. Conclusions: Higher transition frequency was found in the intronI of OLR1 gene, however due to the richness of methylated CpGs in the evaluated stretch of genome, the higher T↔C transitions could likely be a result of frequent deaminations of the methylated cytosines into thymines during the evolution of four buffalo breeds.

  14. Clinical Application of Surrounding Puncture

    Institute of Scientific and Technical Information of China (English)

    GUO Yao-jie; HAN Chou-ping

    2003-01-01

    Surrounding puncture can stop pathogenic qi from spreading, consolidate the connection between local meridians and enrich local qi and blood, which can eventually supplement anti-pathogenic qi and remove pathogenic qi, and consequently remedy diseases. The author of this article summrized and analyzed the clinical application of surrounding puncture for the purpose of studying this technique and improving the therapeutic effect.

  15. Identification of single nucleotide polymorphisms in the CCNA2 gene and its association with wool density in Rex rabbits.

    Science.gov (United States)

    Chen, S J; Liu, T; Liu, Y J; Dong, B; Huang, Y T; Gu, Z L

    2011-11-04

    The Rex rabbit is a typical fur breed. Wool density, hair length, wool fineness, and hide area are the main indices of fur quality. We previously found that the CCNA2 gene plays an important role in hair follicle initiation and development, and it is involved in the distinctive wool density of the Rex rabbit. It is an important candidate gene for wool density selection through marker-assisted selection. We conducted an association study to identify single nucleotide polymorphisms (SNPs) within the CCNA2 gene and their ligands associated with wool density. Using PCR-RFLP technology, we discovered two SNPs (129G>A and 1140G>C) of the CCNA2 gene. Allele frequencies of these two SNPs were investigated and evaluated by the χ(2) test in 100 Rex rabbits. The two SNPs were both in Hardy-Weinberg equilibrium. We also looked for a potential association of these SNPs with fur traits in 100 Rex rabbits. Rex rabbits with the GG genotype had significantly higher wool density (P Rex rabbit.

  16. Effect of culture density and antioxidants on naupliar production and gene expression of the cyclopoid copepod, Paracyclopina nana.

    Science.gov (United States)

    Lee, Kyun-Woo; Rhee, Jae-Sung; Han, Jeonghoon; Park, Heum Gi; Lee, Jae-Seong

    2012-02-01

    Although attempts have been made to use mass cultures of marine copepods as live foods in marine aquaculture, some limitations such as low density culture still exist. The brackish water cyclopoid copepod, Paracyclopina nana has the potential for mass culturing as live food. In this study, we not only investigated the effect of culture density on the naupliar production and specific gene expressions of P. nana, but also the effect of several antioxidants under the conditions of a high density culture. The naupliar production of the copepod decreased with increasing culture density. The expression of glutathione reductase (GR), selenium-dependent glutathione peroxidase (SeGPx), glutathione S-transferase kappa (GST kappa), heat shock protein 40 (Hsp40), and Hsp70 genes of P. nana increased in the high density treatment but vitellogenin genes (Vg1 and Vg2) showed downregulation. In the condition with 20 inds./mL, vitamin C had a significant decrease but sodium selenite induced the naupliar production of P. nana greatly. The expressions of GR, SeGPx, Hsp70, and Vg genes increased with the vitamin C treatment. Sodium selenite caused a decrease of SeGPx and Hsp40 but GST kappa increased in the treatment with 20 inds./mL. These results suggest that sodium selenite is a positive antioxidant which can increase the culture efficiency of the copepod.

  17. Lack of Association between Body Weight, Bone Mineral Density and Vitamin D Receptor Gene Polymorphism in Normal and Osteoporotic Women

    Directory of Open Access Journals (Sweden)

    Massimo Poggi

    1999-01-01

    Full Text Available In an ethnically homogeneous population of women living in Tuscany, Italy, the relationships between age, body weight, bone mineral density and the vitamin D receptor (VDR gene polymorphism were studied, with the objective of recognizing patients at risk for osteoporosis. In 275 women bone mineral density was measured by Dual Energy X-rays Absorptiometry (DEXA. In 50 of them the individual genetic pattern for VDR was evaluated by DNA extraction followed by PCR amplification of the VDR gene, and digestion with the restriction enzyme BsmI. Age and bone mineral density were inversely related (R2 = 0.298. Body weight was associated with bone mineral density (R2 = 0.059, but not with age. In osteoporotic women, mean (± SD body weight was 59.9 ± 6.5 Kg, lower than that recorded in non osteoporotic women (64.2 ± 9.4 Kg, even though not significantly different (p = 0.18. No association was found between VDR gene polymorphism, bone density or body weight. The performance of anthropometric and genetic components appear to be poor, and, at least for the time being, bone mineral density measurement by means of MOC-DEXA represents the optimal method to detect women at risk for postmenopausal osteoporosis.

  18. The effect of BCMO1 gene variants on macular pigment optical density in young healthy Caucasians

    Directory of Open Access Journals (Sweden)

    Zachary eKyle-Little

    2014-12-01

    Full Text Available Background: Serum lutein (L and zeaxanthin (Z positively correlate with macular pigment optical density (MPOD, hence the latter is a valuable indirect tool for measuring L and Z content in the macula. L and Z have been attributed antioxidant capacity and protection from certain retinal diseases but their uptake within the eye is thought to depend on genetic, age and environmental factors. In particular gene variants within beta-carotene monooxygenase (BCMO1 are thought to modulate MPOD in the macula.Objectives: To determine the effect of BCMO1 single nucleotide polymorphisms (SNPs rs11645428, rs6420424 and rs6464851 on macular pigment optical density (MPOD in a cohort of young healthy participants of Caucasian origin with normal ocular health.Design: In this cohort study, MPOD was assessed in 46 healthy participants (22 male and 24 female with a mean age of 24 ± 4.0 years (range 19-33. The three SNPs, rs11645428, rs6420424, rs6564851 that have established associations with MPOD were determined using MassEXTEND (hME Sequenom assay. One-way analysis of variance (ANOVA was performed on groups segregated into homozygous and heterozygous BCMO1 genotypes. Correlations between body mass index (BMI, iris colour, gender, central retinal thickness (CRT, diet and MPOD were investigated.Results: MPOD did not significantly vary with BCMO1 rs11645428 (F2,41 = 0.700, p = 0.503, rs6420424 (F2,41 = 0.210, p = 0.801 nor rs6464851 homozygous or heterozygous genotypes (F2,41 = 0,13, p = 0.88, in this young healthy cohort. The combination of these three SNPs into triple genotypes based on plasma conversion efficiency did not affect MPOD (F2,41 = 0.07, p = 0.9. There was a significant negative correlation with MPOD and central retinal thickness (r = - 0.39, p = 0.01 but no significant correlation between BMI, iris colour, gender and MPOD. Conclusion: Our results indicate that macular pigment deposition within the central retina is not dependent on BCMO1 gene variant

  19. Functional analysis of low-density lipoprotein receptor in homozygous familial hypercholesterolemia patients with novel 1439 C→T mutation of low-density lipoprotein receptor gene

    Institute of Scientific and Technical Information of China (English)

    LIN Jie; JIANG Zhi-sheng; WANG Lu-ya; LIU Shu; XIA Jun-hui; YONG Qiang; DU Lan-ping; PAN Xiao-dong; XUE Hong; CHEN Bao-sheng

    2008-01-01

    Background Familial hypercholesterolemia (FH), caused by low density lipoprotein (LDL) receptor (LDL-R) gene mutations, is associated with increased risk of premature coronary heart disease. Until now, limited molecular data concerning FH are available in China. The present study described the clinical profiles and cell biological defects of a Chinese FH kindred with novel LDL-R gene mutation.Methods The patient's LDL-R gene coding region was sequenced. The patient's lymphocytes were isolated and the LDL-R expression, binding and up-take functions were observed by immunohistochemistry staining and flow cytometry detection. The patient's heart and the major large vessels were detected by vessel ultrasound examination and myocardial perfusion imaging (MPI).Results The patient's LDL-R expression, LDL binding and up-take functions were significantly lower than normal control (39%, 63% and 76% respectively). A novel homozygous 1439 C→T mutation of the LDL-R gene was detected in the patient and his family. ECG showed atypical angina pectoris. Echocardiogram showed stenosis of the coronary artery and calcification of the aortic valve and its root. Blood vessel ultrasound examination showed the thickness of large vessel intima, and the vessel lumen was narrowed by 71%. MPI showed ischemic changes.Conclusions The LDL-R synthesis dysfunction of FH patients leads to arterial stenosis and calcification, which are the major phenotype of the clinical disorder. The mutation of the LDL-R gene is determined. These data increase the mutational spectrum of FH in China.

  20. Association of estrogen receptor alpha gene polymorphisms with bone mineral density: a meta-analysis

    Institute of Scientific and Technical Information of China (English)

    WANG Ke-jie; SHI Dong-quan; SUN Li-sheng; JIANG Xu; L(U) Yan-yun; DAI Jin; CHEN Dong-yang; XU Zhi-hong; JIANG Qing

    2012-01-01

    Background A number of studies have examined the association between estrogen receptor alpha (ESR-α) gene polymorphisms and bone mineral density (BMD),but previous studies of ESR-α gene Xbal (rs9340799) and Pvull (rs2234693) polymorphisms have been hampered by small sample size,regional restrictions and inconclusive results.Thus a meta-analysis is needed to assess their pooled effects.üMethods This study reviewed all published articles indexed in Pubmed using the keywords in the title or abstract.All data were extracted independently by two reviewers using a standard form,the studies were mete-analyzed and minor discrepancies were resolved by authors' discussion.Results Twenty seven eligible studies involving 8467 women and 2032 men were identified.The Xbal and Pvull polymorphisms were significantly associated with BMD of the lumbar spine.XX and PP homozygotes had a protective effect in comparison with carriers of the x and p alleles,the effects were more significant in premenopausal women or Western women.At the femoral neck,the results were different.XX served as a protective factor in postmenopausal women,Western women,Western postmenopausal women,and men,while PP was likely to serve as a risk factor in Eastern women,Eastern postmenopausal women,and men.Conclusions The Xbal polymorphism is correlated to BMD at diverse skeletal sites.PP had a protective role for the lumbar spine but might be a risk factor for the femoral neck.

  1. The Interstellar Cloud Surrounding the Solar System

    Science.gov (United States)

    Frisch, P. C.

    Ultraviolet spectral data of nearby stars indicate that the cloud surrounding the solar system has an average neutral density n(HI)~0.1 cm-3, temperature ~6800 K, and turbulence ~1.7 km/s. Comparisons between the anomalous cosmic ray data and ultraviolet data suggest that the electron density is in the range n(e-)~0.22 to 0.44 cm-3. This cloud is flowing past the Sun from a position centered in the Norma-Lupis region. The cloud properties are consistent with interstellar gas which originated as material evaporated from the surfaces of embedded clouds in the Scorpius-Centaurus Association, and which was then displaced towards the Sun by a supernova event about 4 Myrs ago. The Sun and surrounding cloud velocities are nearly perpendicular in space, and this cloud is sweeping past the Sun. The morphology of this cloud can be reconstructed by assuming that the cloud moves in a direction parallel to the surface normal. With this assumption, the Sun entered the surrounding cloud 2000 to 8000 years ago, and is now about 0.05 to 0.16 pc from the cloud surface. Prior to its recent entry into the surrounding cloud complex, the Sun was embedded in a region of space with average density lower than 0.0002 cm-3. If a denser cloud velocity component seen towards alpha Cen A,B is real, it will encounter the solar system within 50,000 yr. The nearby magnetic field seen upwind has a spatial orientation that is parallel to the cloud surface. The nearby star Sirius is viewed through the wake of the solar system, but this direction also samples the hypothetical cloud interface. Comparisons of anomalous cosmic ray and interstellar absorption line data suggest that trace elements in the surrounding cloud are in ionization equilibrium. Data towards nearby white dwarfs indicate partial helium ionization, N(N(HI)(/N(HeI)>~13.7, which is consistent with pickup ion data within the solar system if less than 40% hydrogen ionization occurs in the heliopause region. However, the white dwarfs may

  2. Allele-specific expression of the low density lipoprotein receptor gene

    Energy Technology Data Exchange (ETDEWEB)

    Minnich, A.; Lussier-Cacan, S.; Roy, M. [Clincial Research Institute of Montreal, Quebec (Canada)

    1994-09-01

    Approximately 60% of familial hypercholesterolemia (FH) in French Canadians is due to a > 10 kb deletion of the promoter region of the gene encoding the low density lipoprotein (LDL) receptor (LDL-R), allowing determination of the influence of a single LDL-R allele on phenotypic expression of FH. Normal allele haplotypes of approximately 250 heterozygotes were determined with 7 RFLPs. In vitro maximal LDL-R activity of blood lymphocytes from a subset of approximately 150 heterozygotes, measured by immunocytofluorometry, was significantly higher (20 to 30%) in subjects with LDL-R normal allele haplotype G (n=11), and O (n=7) compared to the most frequent haplotype F (n=43), while no differences were observed among F, E (n=11), and the 2 other most prevalent haplotypes (n=43). LDL-R mRNA in these lymphocytes was significantly elevated 2.3-, 1.7-, and 1.8- fold, in G, O, and E, respectively, compared to F, while no significant differences were apparent between F and the other two most frequent haplotyes. Large interindividual variability in lymphocyte LDL-R mRNA levels and activity was observed even among subjects with the same LDL-R normal allele haplotype. However, maximally induced lymphocyte LDL-R mRNA levels correlated poorly with levels measured in freshly isolated cells (n=14). Relative to haplotype F (n=47 women (W), 39 men (M)), mean plasma LDL cholesterol levels adjusted for age and apolipoprotein E genotype were 5-10% lower in men and women with haplotypes G (n=16 W, 12 M) and O (n=8 W, 6 M), and 20% lower in 7 W with haplotype E. These results suggest that (1) normal LDL-R allele haplotype G and O may contain sequence variations which confer relatively high gene expression and (2) environmental and genetic influences other than the LDL-R gene contribute substantially to variability in LDL-R expression and plasma LDL cholesterol levels in French Canadian FH heterozygotes.

  3. Association of differentially expressed genes with activation of mouse hepatic stellate cells by high-density cDNA mircoarray

    Institute of Scientific and Technical Information of China (English)

    Xiao-Jing Liu; Li Yang; Feng-Ming Luo; Hong-Bin Wu; Qu-Qiang

    2004-01-01

    AIM: To characterize the gene expression profiles associated with activation of mouse hepatic stellate cell (HSC) and provide novel insights into the pathogenesis of hepatic fibrosis.METHODS: Mice HSCs were isolated from BALB/c mice by in situ perfusion of collagenase and pronase and singlestep density Nycodenz gradient. Total RNA and mRNA of quiescent HSC and culture-activated HSC were extracted,quantified and reversely transcripted into cDNA. cDNAs from activated HSC were labeled with Cy5 and cDNAs from the quiescent HSC were labeled with Cy3, which were mixed with equal quantity, then hybridized with cDNA chips containing 4 000 genes. Chips were washed, scanned and analyzed. Increased expression of 4 genes and decreased expression of one gene in activated HSC were confirmed by reverse transcription- polymerase chain reaction (RT-PCR).RESULTS: A total of 835 differentially expressed genes were identified by cDNA chip between activated and quiescent HSC, and 465 genes were highly expressed in activated HSC. The differentially expressed genes included those involved in protein synthesis, cell-cycle regulation,apoptosis, and DNA damage response.CONCLUSION: Many genes implicated in intrahepatic inflammation, fibrosis and proliferation were up-regulated in activated HSC. cDNA microarray is an effective technique in screening for differentially expressed genes between two different situations of the HSC. Further analysis of the obtained genes will help understand the molecular mechanism of activation of HSC and hepatic fibrosis.

  4. Global transcript structure resolution of high gene density genomes through multi-platform data integration.

    Science.gov (United States)

    O'Grady, Tina; Wang, Xia; Höner Zu Bentrup, Kerstin; Baddoo, Melody; Concha, Monica; Flemington, Erik K

    2016-10-14

    Annotation of herpesvirus genomes has traditionally been undertaken through the detection of open reading frames and other genomic motifs, supplemented with sequencing of individual cDNAs. Second generation sequencing and high-density microarray studies have revealed vastly greater herpesvirus transcriptome complexity than is captured by existing annotation. The pervasive nature of overlapping transcription throughout herpesvirus genomes, however, poses substantial problems in resolving transcript structures using these methods alone. We present an approach that combines the unique attributes of Pacific Biosciences Iso-Seq long-read, Illumina short-read and deepCAGE (Cap Analysis of Gene Expression) sequencing to globally resolve polyadenylated isoform structures in replicating Epstein-Barr virus (EBV). Our method, Transcriptome Resolution through Integration of Multi-platform Data (TRIMD), identifies nearly 300 novel EBV transcripts, quadrupling the size of the annotated viral transcriptome. These findings illustrate an array of mechanisms through which EBV achieves functional diversity in its relatively small, compact genome including programmed alternative splicing (e.g. across the IR1 repeats), alternative promoter usage by LMP2 and other latency-associated transcripts, intergenic splicing at the BZLF2 locus, and antisense transcription and pervasive readthrough transcription throughout the genome.

  5. Polymorphisms of exon 5, exon 7 and intron 10 of MMP2 gene and their association with wool density in Rex rabbits

    National Research Council Canada - National Science Library

    S.J. Chen; Y.J. Liu; T. Liu; B.J. Chen; Z.L. Gu

    2017-01-01

    Wool density is an important index that influences Rex rabbit fur quality. In our earlier studies, we found some important differentially expressed genes in different wool density of Rex rabbit by cDNA microarray...

  6. Visual surround suppression in schizophrenia

    Directory of Open Access Journals (Sweden)

    Marc Samuel Tibber

    2013-02-01

    Full Text Available Compared to unaffected observers patients with schizophrenia show characteristic differences in visual perception, including a reduced susceptibility to the influence of context on judgements of contrast - a manifestation of weaker surround suppression. To examine the generality of this phenomenon we measured the ability of 24 individuals with schizophrenia to judge the luminance, contrast, orientation and size of targets embedded in contextual surrounds that would typically influence the target’s appearance. Individuals with schizophrenia demonstrated weaker surround suppression compared to matched controls for stimuli defined by contrast or size, but not for those defined by luminance or orientation. As perceived luminance is thought to be regulated at the earliest stages of visual processing our findings are consistent with a suppression deficit that is predominantly cortical in origin. In addition, we propose that preserved orientation surround suppression in schizophrenia may reflect the sparing of broadly tuned mechanisms of suppression. We attempt to reconcile these data with findings from previous studies.

  7. Educational Success and Surrounding Culture

    Science.gov (United States)

    Walters, Garrison

    2016-01-01

    The curriculum, instruction, and services we provide in schools, colleges, and universities matter a lot, but if we continue to ignore our students' "surrounding culture," progress toward a more educated nation will continue to be disappointing.

  8. Educational Success and Surrounding Culture

    Science.gov (United States)

    Walters, Garrison

    2016-01-01

    The curriculum, instruction, and services we provide in schools, colleges, and universities matter a lot, but if we continue to ignore our students' "surrounding culture," progress toward a more educated nation will continue to be disappointing.

  9. Pilot Sequencing of Onion Genomic DNA Reveals Fragments of Transposable Elements, Low Gene Densities, and Significant Gene Enrichment After Methyl Filtration

    Science.gov (United States)

    Onion (Allium cepa) is a diploid (2n=2x=16) monocot with one of the largest nuclear genomes among cultivated plants, over 6 and 16 times that of maize and rice, respectively. In this study, we sequenced onion BACs to estimate gene densities and investigate the nature and distribution of repetitive ...

  10. 9-CIS-RETINOIC ACID REPRESSES ESTROGEN-INDUCED EXPRESSION OF THE VERY-LOW-DENSITY APOLIPOPROTEIN-II GENE

    NARCIS (Netherlands)

    SCHIPPERS, IJ; KLOPPENBURG, M; SNIPPE, L; AB, G

    1994-01-01

    The chicken very low density apolipoprotein II (apoVLDLII) gene is estrogen-inducible and specifically expressed in liver. We examined the possible involvement of the retinoid X receptor (RXR) and its ligand 9-cis-retinoic acid (9-cis-RA) in the activation of the apoVLDLII promoter. We first concent

  11. Association of polymorphisms in the beta-2 adrenergic receptor gene with fracture risk and bone mineral density

    NARCIS (Netherlands)

    Veldhuis-Vlug, A G; Oei, L; Souverein, P C; Tanck, M W T; Rivadeneira, F; Zillikens, M C; Kamphuisen, P W; Maitland-van der Zee, A H; de Groot, M C H; Hofman, A; Uitterlinden, A G; Fliers, E; de Boer, A; Bisschop, P H

    2015-01-01

    Signaling through the beta-2 adrenergic receptor (B2AR) on the osteoblast influences bone remodeling in rodents. In the B2AR gene, three polymorphisms influence receptor function. We show that these polymorphisms are not associated with fracture risk or bone mineral density in the UCP, Rotterdam Stu

  12. Association of polymorphisms in the beta-2 adrenergic receptor gene with fracture risk and bone mineral density

    NARCIS (Netherlands)

    A.G. Veldhuis-Vlug; L. Oei (Ling); P. Souverein (Patrick); M.W.T. Tanck (Michael); F. Rivadeneira Ramirez (Fernando); M.C. Zillikens (Carola); P.W. Kamphuisen; A-H. Maitland-van der Zee (Anke-Hilse); M.C.H. de Groot; A. Hofman (Albert); A.G. Uitterlinden (André); E. Fliers (Eric); A.C. de Boer (Anthonius); P.H. Bisschop

    2015-01-01

    textabstractSummary: Signaling through the beta-2 adrenergic receptor (B2AR) on the osteoblast influences bone remodeling in rodents. In the B2AR gene, three polymorphisms influence receptor function. We show that these polymorphisms are not associated with fracture risk or bone mineral density in t

  13. Association of polymorphisms in the beta-2 adrenergic receptor gene with fracture risk and bone mineral density

    NARCIS (Netherlands)

    Veldhuis-Vlug, A. G.; Oei, L.; Souverein, P. C.; Tanck, M. W T; Rivadeneira, F.; Zillikens, M. C.; Kamphuisen, P. W.; Maitland - van der Zee, A. H.; de Groot, M. C H; Hofman, A.; Uitterlinden, A. G.; Fliers, E.; de Boer, A.; Bisschop, P. H.

    2015-01-01

    Summary: Signaling through the beta-2 adrenergic receptor (B2AR) on the osteoblast influences bone remodeling in rodents. In the B2AR gene, three polymorphisms influence receptor function. We show that these polymorphisms are not associated with fracture risk or bone mineral density in the UCP, Rott

  14. 9-CIS-RETINOIC ACID REPRESSES ESTROGEN-INDUCED EXPRESSION OF THE VERY-LOW-DENSITY APOLIPOPROTEIN-II GENE

    NARCIS (Netherlands)

    SCHIPPERS, IJ; KLOPPENBURG, M; SNIPPE, L; AB, G

    1994-01-01

    The chicken very low density apolipoprotein II (apoVLDLII) gene is estrogen-inducible and specifically expressed in liver. We examined the possible involvement of the retinoid X receptor (RXR) and its ligand 9-cis-retinoic acid (9-cis-RA) in the activation of the apoVLDLII promoter. We first concent

  15. No major effect of estrogen receptor gene polymorphisms on bone mineral density or bone loss in postmenopausal Danish women

    DEFF Research Database (Denmark)

    Bagger, Y Z; Jørgensen, H L; Heegaard, Anne-Marie

    2000-01-01

    The polymorphisms of the estrogen receptor (ER) gene defined by the restriction enodonucleases PvuII and XbaI have recently been reported to be associated with bone mineral density (BMD) in postmenopausal women. To investigate the possible relation of the PvuII and XbaI restriction fragment-lengt...

  16. Multichannel spatial surround sound system

    Institute of Scientific and Technical Information of China (English)

    RAO Dan; XIE Bosun

    2004-01-01

    Based on the consideration of being compatible with 5.1 channel horizontal surround sound system, a spatial surround sound system is proposed. Theoretical and experimental results show that the system has a wide listening area. It can not only recreate stable image in the front and rear direction, but also eliminate the defect of poor lateral image of 5.1 channel system. The system can be used to reproduce special 3D sound effect and the spaciousness of hall.

  17. Mineral bone density association with estrogen alpha receptor gene (ESRa polymorphisms at postmenopausal osteoporosis

    Directory of Open Access Journals (Sweden)

    M Y Krylov

    2005-01-01

    Full Text Available Objective. To study restrict fragment length polymorphisms (RFLP Pvull and Xbal of estrogen gene (EG receptor sites and its association with bone mineral density (BMD. Material and methods. 96 female with osteoporosis (OP and 60 female without OP of comparable postmenopausal age (55-83 years were included. Results. Statistically significant differences of Pvull genotypes frequencies prevalence between women with OP and control group so as absence of differences of Xbal genotypes frequencies prevalence were shown (p<0,05. Similar results were shown for combined genotypes PvuII/Xbal. Genotype ppxx in pts with OP was 3 times more frequent than in control group (29,2% and 10,0% respectively, p<0,05. Among pts with PP genotype mean spine BMD value came to 0,686±0,064 g/cm- and was significantly less (p<0,05 in comparison with Pp and pp genotypes (073310,073 g/cm 2 and 0,739±0,099 g/cm 2 respectively. Mean spine BMD value in pts with PPXx genotype was significantly less than in pts with ppxx genotype (0,66710,076 and 0,74410,102 g/cm2 respectively, p<0,05 and mean femoral neck BMD value in pts with the same genotype (PPXx was significantly less than in pts with PpXx genotype (0,57710,079 and 0,62710,054 g/cm 2 respectively. Conclusion. We have confirmed that some EG genotypes and their combinations are associated with low spine and femoral neck BMD values in pts with OP.

  18. Low density lipoprotein receptor related protein 1 and 6 gene variants and ischaemic stroke risk.

    Science.gov (United States)

    Harriott, A M; Heckman, M G; Rayaprolu, S; Soto-Ortolaza, A I; Diehl, N N; Kanekiyo, T; Liu, C-C; Bu, G; Malik, R; Cole, J W; Meschia, J F; Ross, O A

    2015-08-01

    Low density lipoprotein receptor related proteins (LRPs) 1 and 6 have been implicated in cerebral ischaemia. In addition, genetic variation in LRP1 and LRP6 has been linked with various factors that are related to risk of ischaemic stroke. The aim of this study was to examine the association of LRP1 and LRP6 gene variants with risk of ischaemic stroke as part of the Ischemic Stroke Genetics Study (ISGS). A Caucasian series (434 stroke patients, 319 controls) and an African American series (161 stroke patients, 116 controls) were included. Fourteen LRP6 variants and three LRP1 variants were genotyped and assessed for association with ischaemic stroke. In the Caucasian series, significant associations with ischaemic stroke were observed for LRP6 rs2075241 [odds ratio (OR) 0.42, P = 0.023], rs2302685 (OR 0.44, P = 0.049), rs7975614 (OR 0.07, P = 0.017), rs10492120 (OR 0.62, P = 0.036) and rs10743980 (OR 0.66, P = 0.037). Risk of ischaemic stroke was significantly lower for carriers of any of these five protective LRP6 variants (24.0% of subjects) compared to non-carriers (OR 0.57, P = 0.003). The protective association for LRP6 rs2075241 was observed at a similar magnitude across ischaemic stroke subtypes, whilst the effects of rs23022685, rs10492120 and rs10743980 were most apparent for cardioembolic and large vessel stroke. In the African American series, LRP1 rs11172113 was associated with an increased risk of stroke (OR 1.89, P = 0.006). The results of our preliminary study provide evidence that LRP6 and LRP1 variants may be associated with risk of ischaemic stroke. Validation in larger studies is warranted. © 2015 EAN.

  19. Gene expression profiling in human peripheral blood mononuclear cells using high-density filter-based cDNA microarrays.

    Science.gov (United States)

    Walker, J; Rigley, K

    2000-05-26

    Microarray technology has provided the ability to analyse the expression profiles for thousands of genes in parallel. The need for highly specialised equipment to use certain types of microarrays has restricted the application of this technology to a small number of dedicated laboratories. High-density filter-based cDNA microarrays provide a low-cost option for performing high-throughput gene expression analysis. We have used a model system in which filter-based cDNA microarrays representing over 4000 known human genes were used to monitor the kinetics of gene expression in human peripheral blood mononuclear cells (PBMCs) stimulated with phytohaemagluttinin (PHA). Using software-based cluster analysis, we identified 104 genes that altered in expression levels in response to PHA stimulation of PBMCs and showed that there was a considerable overlap between genes with similar temporal expression profiles and similar functional roles. Comparison of microarray quantitation with quantitative PCR showed almost identical expression profiles for a number of genes. Coupled with the fact that our findings are in agreement with a large number of independent observations, we conclude that the use of filter-based cDNA microarrays is a valid and accurate method for high-throughput gene expression profiling.

  20. Exon organization of the mouse entactin gene corresponds to the structural domains of the polypeptide and has regional homology to the low-density lipoprotein receptor gene

    DEFF Research Database (Denmark)

    Durkin, M E; Wewer, U M; Chung, A E

    1995-01-01

    Entactin is a widespread basement membrane protein of 150 kDa that binds to type IV collagen and laminin. The complete exon-intron structure of the mouse entactin gene has been determined from lambda genomic DNA clones. The gene spans at least 65 kb and contains 20 exons. The exon organization...... of the mouse entactin gene closely corresponds to the organization of the polypeptide into distinct structural and functional domains. The two amino-terminal globular domains are encoded by three exons each. Single exons encode the two protease-sensitive, O-glycosylated linking regions. The six EGF......-like repeats and the single thyroglobulin-type repeat are each encoded by separate exons. The carboxyl-terminal half of entactin displays sequence homology to the growth factor-like region of the low-density lipoprotein receptor, and in both genes this region is encoded by eight exons. The positions of four...

  1. Analysis of sequence variations in low-density lipoprotein receptor gene among Malaysian patients with familial hypercholesterolemia.

    Science.gov (United States)

    Al-Khateeb, Alyaa; Zahri, Mohd K; Mohamed, Mohd S; Sasongko, Teguh H; Ibrahim, Suhairi; Yusof, Zurkurnai; Zilfalil, Bin A

    2011-03-19

    Familial hypercholesterolemia is a genetic disorder mainly caused by defects in the low-density lipoprotein receptor gene. Few and limited analyses of familial hypercholesterolemia have been performed in Malaysia, and the underlying mutations therefore remain largely unknown.We studied a group of 154 unrelated FH patients from a northern area of Malaysia (Kelantan). The promoter region and exons 2-15 of the LDLR gene were screened by denaturing high-performance liquid chromatography to detect short deletions and nucleotide substitutions, and by multiplex ligation-dependent probe amplification to detect large rearrangements. A total of 29 gene sequence variants were reported in 117(76.0%) of the studied subjects. Eight different mutations (1 large rearrangement, 1 short deletion, 5 missense mutations, and 1 splice site mutation), and 21 variants. Eight gene sequence variants were reported for the first time and they were noticed in familial hypercholesterolemic patients, but not in controls (p.Asp100Asp, p.Asp139His, p.Arg471Gly, c.1705+117 T>G, c.1186+41T>A, 1705+112C>G, Dup exon 12 and p.Trp666ProfsX45). The incidence of the p.Arg471Gly variant was 11%. Patients with pathogenic mutations were younger, had significantly higher incidences of cardiovascular disease, xanthomas, and family history of hyperlipidemia, together with significantly higher total cholesterol and low density lipoprotein levels than patients with non-pathogenic variants. Twenty-nine gene sequence variants occurred among FH patients; those with predicted pathogenicity were associated with higher incidences of cardiovascular diseases, tendon xanthomas, and higher total and low density lipoprotein levels compared to the rest. These results provide preliminary information on the mutation spectrum of this gene among patients with FH in Malaysia.

  2. Analysis of sequence variations in low-density lipoprotein receptor gene among Malaysian patients with familial hypercholesterolemia

    Directory of Open Access Journals (Sweden)

    Yusof Zurkurnai

    2011-03-01

    Full Text Available Abstract Background Familial hypercholesterolemia is a genetic disorder mainly caused by defects in the low-density lipoprotein receptor gene. Few and limited analyses of familial hypercholesterolemia have been performed in Malaysia, and the underlying mutations therefore remain largely unknown. We studied a group of 154 unrelated FH patients from a northern area of Malaysia (Kelantan. The promoter region and exons 2-15 of the LDLR gene were screened by denaturing high-performance liquid chromatography to detect short deletions and nucleotide substitutions, and by multiplex ligation-dependent probe amplification to detect large rearrangements. Results A total of 29 gene sequence variants were reported in 117(76.0% of the studied subjects. Eight different mutations (1 large rearrangement, 1 short deletion, 5 missense mutations, and 1 splice site mutation, and 21 variants. Eight gene sequence variants were reported for the first time and they were noticed in familial hypercholesterolemic patients, but not in controls (p.Asp100Asp, p.Asp139His, p.Arg471Gly, c.1705+117 T>G, c.1186+41T>A, 1705+112C>G, Dup exon 12 and p.Trp666ProfsX45. The incidence of the p.Arg471Gly variant was 11%. Patients with pathogenic mutations were younger, had significantly higher incidences of cardiovascular disease, xanthomas, and family history of hyperlipidemia, together with significantly higher total cholesterol and low density lipoprotein levels than patients with non-pathogenic variants. Conclusions Twenty-nine gene sequence variants occurred among FH patients; those with predicted pathogenicity were associated with higher incidences of cardiovascular diseases, tendon xanthomas, and higher total and low density lipoprotein levels compared to the rest. These results provide preliminary information on the mutation spectrum of this gene among patients with FH in Malaysia.

  3. Low crop plant population densities promote pollen-mediated gene flow in spring wheat (Triticum aestivum L.).

    Science.gov (United States)

    Willenborg, Christian J; Brûlé-Babel, Anita L; Van Acker, Rene C

    2009-12-01

    Transgenic wheat is currently being field tested with the intent of eventual commercialization. The development of wheat genotypes with novel traits has raised concerns regarding the presence of volunteer wheat populations and the role they may play in facilitating transgene movement. Here, we report the results of a field experiment that investigated the potential of spring wheat plant population density and crop height to minimize gene flow from a herbicide-resistant (HR) volunteer population to a non-HR crop. Pollen-mediated gene flow (PMGF) between the HR volunteer wheat population and four conventional spring wheat genotypes varying in height was assessed over a range of plant population densities. Natural hybridization events between the two cultivars were detected by phenotypically scoring plants in F(1) populations followed by verification with Mendelian segregation ratios in the F(1:2) families. PMGF was strongly associated with crop yield components, but showed no association with flowering synchrony. Maximum observed PMGF was always less than 0.6%, regardless of crop height and density. The frequency of PMGF in spring wheat decreased exponentially with increasing plant population density, but showed no dependence on either crop genotype or height. However, increasing plant densities beyond the recommended planting rate of 300 cropped wheat plants m(-2) provided no obvious benefit to reducing PMGF. Nevertheless, our results demonstrate a critical plant density of 175-200 cropped wheat plants m(-2) below which PMGF frequencies rise exponentially with decreasing plant density. These results will be useful in the development of mechanistic models and best management practices that collectively facilitate the coexistence of transgenic and nontransgenic wheat crops.

  4. Analysis of low-density lipoprotein receptor gene mutations in a Chinese patient with clinically homozygous familial hypercholesterolemia

    Institute of Scientific and Technical Information of China (English)

    曹守春; 王绿娅; 秦彦文; 蔺洁; 吴邦俊; 刘舒; 潘晓冬; 杜兰平; 陈保生

    2003-01-01

    Objective To screen the point mutation of the low-density lipoprotein receptor (LDL-R) gene in Chinese familial hypercholesterolemia (FH) patients, characterize the relationship between the genotype and the phenotype and discuss the molecular pathological mechanism of FH. Methods A patient with clinical phenotype of homozygous FH and her parents were investigated for mutations in the promoter and all eighteen exons of the LDL-R gene. Screening was carried out using Touch-down PCR and direct DNA sequencing; multiple alignment analysis by DNASIS 2.5 was used to find base alteration, and the LDL-R gene mutation database was searched to identify the alteration. In addition, the apolipoprotein B gene (apo B) was screened for known mutations (R3500Q) that cause familial defective apo B100 (FDB) by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP).Results Two new heterozygous mutations in exons 4 and 9 of the LDL-R gene were identified in the proband (C122Y and T383I) as well as her parents. Both of the mutations have not been published in the LDL-R gene mutation database. No mutation of apo B100 (R3500Q) was observed. Conclusion Two new mutations (C112Y and T383I) were found in the LDL-R gene, which may result in FH and may be particularly pathogenetic genotypes in Chinese people.

  5. Improving lipoprotein profiles by liver-directed gene transfer of low density lipoprotein receptor gene in hypercholesterolaemia mice

    Indian Academy of Sciences (India)

    HAILONG OU; QINGHAI ZHANG; JIA ZENG

    2016-06-01

    The defect of low density lipoprotein receptor disturbs cholesterol metabolism and causes familial hypercholesterolaemia(FH). In this study, we directly delivered exogenousLdlrgene into the liver of FH model mice (Ldlr − / −) by lentiviral genetransfer system. The results showed that theLdlrgene controlled by hepatocyte-specific human thyroxine-binding globulin(TBG) promoter successfully and exclusively expressed in livers. We found that, although, the content of high density lipopro-tein in serum was not significantly affected by theLdlrgene expression, the serum low density lipoprotein level was reducedby 46%, associated with a 30% and 28% decrease in triglyceride and total cholesterol, respectively, compared to uninjectedLdlr − / −mice. Moreover, the TBG directed expression ofLdlrsignificantly decreased the lipid accumulation in liver andreduced plaque burden in aorta (32%). Our results indicated that the hepatocyte-specific expression ofLdlrgene strikinglylowered serum lipid levels and resulted in amelioration of hypercholesterolaemia.

  6. Pathways-driven sparse regression identifies pathways and genes associated with high-density lipoprotein cholesterol in two Asian cohorts.

    Directory of Open Access Journals (Sweden)

    Matt Silver

    2013-11-01

    Full Text Available Standard approaches to data analysis in genome-wide association studies (GWAS ignore any potential functional relationships between gene variants. In contrast gene pathways analysis uses prior information on functional structure within the genome to identify pathways associated with a trait of interest. In a second step, important single nucleotide polymorphisms (SNPs or genes may be identified within associated pathways. The pathways approach is motivated by the fact that genes do not act alone, but instead have effects that are likely to be mediated through their interaction in gene pathways. Where this is the case, pathways approaches may reveal aspects of a trait's genetic architecture that would otherwise be missed when considering SNPs in isolation. Most pathways methods begin by testing SNPs one at a time, and so fail to capitalise on the potential advantages inherent in a multi-SNP, joint modelling approach. Here, we describe a dual-level, sparse regression model for the simultaneous identification of pathways and genes associated with a quantitative trait. Our method takes account of various factors specific to the joint modelling of pathways with genome-wide data, including widespread correlation between genetic predictors, and the fact that variants may overlap multiple pathways. We use a resampling strategy that exploits finite sample variability to provide robust rankings for pathways and genes. We test our method through simulation, and use it to perform pathways-driven gene selection in a search for pathways and genes associated with variation in serum high-density lipoprotein cholesterol levels in two separate GWAS cohorts of Asian adults. By comparing results from both cohorts we identify a number of candidate pathways including those associated with cardiomyopathy, and T cell receptor and PPAR signalling. Highlighted genes include those associated with the L-type calcium channel, adenylate cyclase, integrin, laminin, MAPK

  7. Effects of stocking density on lipid deposition and expression of lipid-related genes in Amur sturgeon (Acipenser schrenckii).

    Science.gov (United States)

    Ren, Yuanyuan; Wen, Haishen; Li, Yun; Li, Jifang; He, Feng; Ni, Meng

    2017-09-16

    To investigate the correlation between lipid deposition variation and stocking density in Amur sturgeon (Acipenser schrenckii) and the possible physiological mechanism, fish were conducted in different stocking densities (LSD 5.5 kg/m(3), MSD 8.0 kg/m(3), and HSD 11.0 kg/m(3)) for 70 days and then the growth index, lipid content, lipase activities, and the mRNA expressions of lipid-related genes were examined. Results showed that fish subjected to higher stocking density presented lower final body weights (FBW), specific growth ratio (SGR), and gonad adipose tissue index (GAI) (P density lipoprotein cholesterol (HDL-C) decreased significantly with increasing stocking density, while no significant change was observed for low-density lipoprotein cholesterol (LDL-C). Furthermore, the cDNAs encoding lipoprotein lipase (LPL) and hepatic lipase (HL) were isolated in Amur sturgeon, respectively. The full-length LPL cDNA was composed of 1757 bp with an open reading frame of 501 amino acids, while the complete nucleotide sequences of HL covered 1747 bp encoding 499 amino acids. In the liver, the activities and mRNA levels of LPL were markedly lower in HSD group, which were consistent with the variation tendency of HL. Fish reared in HSD group also presented lower levels of activities and mRNA expression of LPL in the muscle and gonad. Moreover, the expressions of peroxisome proliferator-activated receptor α (PPARα) in both the liver and skeletal muscle were significantly upregulated in HSD group. Overall, the results indicated that high stocking density negatively affects growth performance and lipid deposition of Amur sturgeon to a certain extent. The downregulation of LPL and HL and the upregulation of PPARα may be responsible for the lower lipid distribution of Amur sturgeon in higher stocking density.

  8. Association between SNP and haplotypes in PPARGCl and adiponectin genes and bone mineral density in Chinese nuclear families

    Institute of Scientific and Technical Information of China (English)

    Zhen-lin ZHANG; Jin-wei HE; Yue-juan QIN; Yun-qiu HU; Miao LI; Yu-juan LIU; Hao ZHANG; Wei-wei HU

    2007-01-01

    Aim: To assess the contribution of single nucleotide polymorphisms (SNP) and haplotypes in the peroxisome proliferator-activated receptor-γ co-activator-1(PPARGC1) and adiponectin genes to normal bone mineral density (BMD) variation in healthy Chinese women and men. Methods: We performed population-based (ANOVA) and family-based (quantitative trait locus transmission disequi-librium test) association studies of PPARGC1 and adiponectin genes. SNP in the 2 genes were genotyped. BMD was measured using dual-energy X-ray absorptiometry in the lumbar spine and hip in 401 nuclear families with a total of1260 subjects, including 458 premenopausal women, 20-40 years of age; 401 post-menopausal women (mothers), 43-74 years of age; and 401 men (fathers), 49-76years of age. Results: Significant within-family association was found between the Thr394Thr polymorphism in the PPGAGC1 gene and peak BMD in the femoral neck (P=0.026). Subsequent permutations were in agreement with this significant within-family association result (P=0.016), but Thr394Thr SNP only accounted for0.7% of the variation in femoral neck peak BMD. However, no significant within-family association was detected between each SNP in the adiponect in gene and peak BMD. Although no significant association was found between BMD and SNP in the PPARGC1 and adiponectin genes in both men and postmenopausal women, haplotype 2 (T-T) in the adiponect in gene was associated with lumbar spine BMD in postmenopausal women (P=0.019). Conclusion: Our findings sug-gest that Thr394Thr SNP in the PPARGC1 gene was associated with peak BMD in the femoral neck in Chinese women. Confirmation of our results is needed in other populations and with more functional markers within and flanking the PPARGC1 or adiponectin genes region.

  9. Visual Surround Suppression in Schizophrenia

    Science.gov (United States)

    Tibber, Marc S.; Anderson, Elaine J.; Bobin, Tracy; Antonova, Elena; Seabright, Alice; Wright, Bernice; Carlin, Patricia; Shergill, Sukhwinder S.; Dakin, Steven C.

    2013-01-01

    Compared to unaffected observers patients with schizophrenia (SZ) show characteristic differences in visual perception, including a reduced susceptibility to the influence of context on judgments of contrast – a manifestation of weaker surround suppression (SS). To examine the generality of this phenomenon we measured the ability of 24 individuals with SZ to judge the luminance, contrast, orientation, and size of targets embedded in contextual surrounds that would typically influence the target’s appearance. Individuals with SZ demonstrated weaker SS compared to matched controls for stimuli defined by contrast or size, but not for those defined by luminance or orientation. As perceived luminance is thought to be regulated at the earliest stages of visual processing our findings are consistent with a suppression deficit that is predominantly cortical in origin. In addition, we propose that preserved orientation SS in SZ may reflect the sparing of broadly tuned mechanisms of suppression. We attempt to reconcile these data with findings from previous studies. PMID:23450069

  10. Knowledge-driven analysis identifies a gene-gene interaction affecting high-density lipoprotein cholesterol levels in multi-ethnic populations.

    Science.gov (United States)

    Ma, Li; Brautbar, Ariel; Boerwinkle, Eric; Sing, Charles F; Clark, Andrew G; Keinan, Alon

    2012-01-01

    Total cholesterol, low-density lipoprotein cholesterol, triglyceride, and high-density lipoprotein cholesterol (HDL-C) levels are among the most important risk factors for coronary artery disease. We tested for gene-gene interactions affecting the level of these four lipids based on prior knowledge of established genome-wide association study (GWAS) hits, protein-protein interactions, and pathway information. Using genotype data from 9,713 European Americans from the Atherosclerosis Risk in Communities (ARIC) study, we identified an interaction between HMGCR and a locus near LIPC in their effect on HDL-C levels (Bonferroni corrected P(c) = 0.002). Using an adaptive locus-based validation procedure, we successfully validated this gene-gene interaction in the European American cohorts from the Framingham Heart Study (P(c) = 0.002) and the Multi-Ethnic Study of Atherosclerosis (MESA; P(c) = 0.006). The interaction between these two loci is also significant in the African American sample from ARIC (P(c) = 0.004) and in the Hispanic American sample from MESA (P(c) = 0.04). Both HMGCR and LIPC are involved in the metabolism of lipids, and genome-wide association studies have previously identified LIPC as associated with levels of HDL-C. However, the effect on HDL-C of the novel gene-gene interaction reported here is twice as pronounced as that predicted by the sum of the marginal effects of the two loci. In conclusion, based on a knowledge-driven analysis of epistasis, together with a new locus-based validation method, we successfully identified and validated an interaction affecting a complex trait in multi-ethnic populations.

  11. Sequencing rare marine actinomycete genomes reveals high density of unique natural product biosynthetic gene clusters.

    Science.gov (United States)

    Schorn, Michelle A; Alanjary, Mohammad M; Aguinaldo, Kristen; Korobeynikov, Anton; Podell, Sheila; Patin, Nastassia; Lincecum, Tommie; Jensen, Paul R; Ziemert, Nadine; Moore, Bradley S

    2016-12-01

    Traditional natural product discovery methods have nearly exhausted the accessible diversity of microbial chemicals, making new sources and techniques paramount in the search for new molecules. Marine actinomycete bacteria have recently come into the spotlight as fruitful producers of structurally diverse secondary metabolites, and remain relatively untapped. In this study, we sequenced 21 marine-derived actinomycete strains, rarely studied for their secondary metabolite potential and under-represented in current genomic databases. We found that genome size and phylogeny were good predictors of biosynthetic gene cluster diversity, with larger genomes rivalling the well-known marine producers in the Streptomyces and Salinispora genera. Genomes in the Micrococcineae suborder, however, had consistently the lowest number of biosynthetic gene clusters. By networking individual gene clusters into gene cluster families, we were able to computationally estimate the degree of novelty each genus contributed to the current sequence databases. Based on the similarity measures between all actinobacteria in the Joint Genome Institute's Atlas of Biosynthetic gene Clusters database, rare marine genera show a high degree of novelty and diversity, with Corynebacterium, Gordonia, Nocardiopsis, Saccharomonospora and Pseudonocardia genera representing the highest gene cluster diversity. This research validates that rare marine actinomycetes are important candidates for exploration, as they are relatively unstudied, and their relatives are historically rich in secondary metabolites.

  12. Effects of rearing density on seabass (Dicentrarchus labrax, L. gene expression

    Directory of Open Access Journals (Sweden)

    M. Saroglia

    2011-03-01

    Full Text Available Animal welfare involves the subjective feeling of animals and the experience of pleasure, pain, frustration, hunger or other states and it is therefore difficult to define and to measure (Drawkins, 1990. When water quality criteria are respected and feeding restrictions are avoided, fish density may become one of the more relevant factors expected to potentially affect fish welfare. Such high density environment, may lead to a fish conditions that cannot be described or forecast simply with measurement of hematological responses (Roche and Bogé, 1996, in the same time, detection of zootechnical performances, do not provide a specific indications...

  13. A high-density association screen of 155 ion transport genes for involvement with common migraine

    Science.gov (United States)

    Nyholt, Dale R.; LaForge, K. Steven; Kallela, Mikko; Alakurtti, Kirsi; Anttila, Verneri; Färkkilä, Markus; Hämaläinen, Eija; Kaprio, Jaakko; Kaunisto, Mari A.; Heath, Andrew C.; Montgomery, Grant W.; Göbel, Hartmut; Todt, Unda; Ferrari, Michel D.; Launer, Lenore J.; Frants, Rune R.; Terwindt, Gisela M.; de Vries, Boukje; Verschuren, W.M. Monique; Brand, Jan; Freilinger, Tobias; Pfaffenrath, Volker; Straube, Andreas; Ballinger, Dennis G.; Zhan, Yiping; Daly, Mark J.; Cox, David R.; Dichgans, Martin; van den Maagdenberg, Arn M.J.M.; Kubisch, Christian; Martin, Nicholas G.; Wessman, Maija; Peltonen, Leena; Palotie, Aarno

    2008-01-01

    The clinical overlap between monogenic Familial Hemiplegic Migraine (FHM) and common migraine subtypes, and the fact that all three FHM genes are involved in the transport of ions, suggest that ion transport genes may underlie susceptibility to common forms of migraine. To test this leading hypothesis, we examined common variation in 155 ion transport genes using 5257 single nucleotide polymorphisms (SNPs) in a Finnish sample of 841 unrelated migraine with aura cases and 884 unrelated non-migraine controls. The top signals were then tested for replication in four independent migraine case–control samples from the Netherlands, Germany and Australia, totalling 2835 unrelated migraine cases and 2740 unrelated controls. SNPs within 12 genes (KCNB2, KCNQ3, CLIC5, ATP2C2, CACNA1E, CACNB2, KCNE2, KCNK12, KCNK2, KCNS3, SCN5A and SCN9A) with promising nominal association (0.00041 < P < 0.005) in the Finnish sample were selected for replication. Although no variant remained significant after adjusting for multiple testing nor produced consistent evidence for association across all cohorts, a significant epistatic interaction between KCNB2 SNP rs1431656 (chromosome 8q13.3) and CACNB2 SNP rs7076100 (chromosome 10p12.33) (pointwise P = 0.00002; global P = 0.02) was observed in the Finnish case–control sample. We conclude that common variants of moderate effect size in ion transport genes do not play a major role in susceptibility to common migraine within these European populations, although there is some evidence for epistatic interaction between potassium and calcium channel genes, KCNB2 and CACNB2. Multiple rare variants or trans-regulatory elements of these genes are not ruled out. PMID:18676988

  14. Chromatin Modulation of Herpesvirus Lytic Gene Expression: Managing Nucleosome Density and Heterochromatic Histone Modifications

    Directory of Open Access Journals (Sweden)

    Thomas M. Kristie

    2016-03-01

    Full Text Available Like their cellular hosts, herpesviruses are subject to the regulatory impacts of chromatin assembled on their genomes. Upon infection, these viruses are assembled into domains of chromatin with heterochromatic signatures that suppress viral gene expression or euchromatic characteristics that promote gene expression. The organization and modulation of these chromatin domains appear to be intimately linked to the coordinated expression of the different classes of viral genes and thus ultimately play an important role in the progression of productive infection or the establishment and maintenance of viral latency. A recent report from the Knipe laboratory (J. S. Lee, P. Raja, and D. M. Knipe, mBio 7:e02007-15, 2016 contributes to the understanding of the dynamic modulation of chromatin assembled on the herpes simplex virus genome by monitoring the levels of characteristic heterochromatic histone modifications (histone H3 lysine 9 and 27 methylation associated with a model viral early gene during the progression of lytic infection. Additionally, this study builds upon previous observations that the viral immediate-early protein ICP0 plays a role in reducing the levels of heterochromatin associated with the early genes.

  15. Association of polymorphisms in low-density lipoprotein receptor- related protein 5 gene with bone mineral density in postmenopausal Chinese women

    Institute of Scientific and Technical Information of China (English)

    Zhen-lin ZHANG; Yue-juan QIN; Jin-wei HE; Qi-ren HUANG; Miao LI; Yun-qiu HU; Yu-juan LIU

    2005-01-01

    Aim: To investigate the possible association of Q89R, N740N and A1330V polymorphisms in low-density lipoprotein receptor-related protein 5 (LRP5) gene with bone mineral density (BMD) in postmenopausal Chinese women. Methods: Q89R,N740N and A1330V genotypes were determined by polymerase chain reactionrestriction fragment length polymorphism (PCR-RFLP) in 647 unrelated healthy postmenopausal Han Chinese women aged 43-76 years in Shanghai. BMD at lumbar spine 1-4 and the left proximal femur including the femoral neck, trochanter and Ward's triangle were measured by dual-energy X-ray absorptionmetry in all subjects. Results: The distribution of the Q89R, N740N and A1330V genotypes in this population was as follows: QQ 80.5%, QR 18.7%, and RR 0.8%; TT 66.9%,TC 31.1%, and CC 2.0%; AA 68.0%, AV 29.7%, and VV 2.3%. The frequencies of the Q89R, N740N and A1330V genotypes and alleles did not deviate from the HardyWeinberg equilibrium. We found that the Q89R and A1330V polymorphisms were in linkage disequilibrium in our population (x2= 13.50, P<0.01). Both before and after adjusting for age, years since menopause, height, and weight, the Q89R or N740N genotypes were significantly associated with BMD at the femoral neck (P<0.05).Subjects with the Q89R QQ genotype or the N740N TT genotype had a significantly higher BMD at the femoral neck, compared with those with the QR/RR or TC/CC genotypes, respectively. No significant association was found between A1330V polymorphism and BMD at any site. Conclusion: Our findings suggest that the LRP5 gene is a candidate for the genetic determination of BMD in postmenopausal Chinese women.

  16. High-Density Genetic Map Construction and Gene Mapping of Basal Branching Habit and Flowers per Leaf Axil in Sesame

    Science.gov (United States)

    Mei, Hongxian; Liu, Yanyang; Du, Zhenwei; Wu, Ke; Cui, Chengqi; Jiang, Xiaolin; Zhang, Haiyang; Zheng, Yongzhan

    2017-01-01

    A good genetic map can provide the framework for quantitative trait loci (QTL) analysis, map-based gene cloning, and genome sequence assembling. The main objectives of this study were to develop a high-density genetic linkage map using specific length amplified fragment sequencing (SLAF-seq) in sesame. In the result, a high-resolution genetic map with 9,378 SLAF markers and 13 linkage groups (LGs) was constructed. The map spanned a total genetic distance of 1,974.23 cM, and the mean LG length was 151.86 cM, with an average genetic distance of 0.22 cM between adjacent markers. Based on the newly constructed genetic map, genes for basal branching habit (SiBH) and flowers per leaf axil (SiFA) were mapped to LG5 and LG11, respectively. PMID:28496450

  17. Collinearity Analysis and High-Density Genetic Mapping of the Wheat Powdery Mildew Resistance Gene Pm40 in PI 672538.

    Science.gov (United States)

    Zhong, Shengfu; Ma, Lixia; Fatima, Syeda Akash; Yang, Jiezhi; Chen, Wanquan; Liu, Taiguo; Hu, Yuting; Li, Qing; Guo, Jingwei; Zhang, Min; Lei, Li; Li, Xin; Tang, Shengwen; Luo, Peigao

    2016-01-01

    The wheat powdery mildew resistance gene Pm40, which is located on chromosomal arm 7BS, is effective against nearly all prevalent races of Blumeria graminis f. sp tritici (Bgt) in China and is carried by the common wheat germplasm PI 672538. A set of the F1, F2 and F2:3 populations from the cross of the resistant PI 672538 with the susceptible line L1034 were used to conduct genetic analysis of powdery mildew resistance and construct a high-density linkage map of the Pm40 gene. We constructed a high-density linkage genetic map with a total length of 6.18 cM and average spacing between markers of 0.48 cM.Pm40 is flanked by Xwmc335 and BF291338 at genetic distances of 0.58 cM and 0.26 cM, respectively, in deletion bin C-7BS-1-0.27. Comparative genomic analysis based on EST-STS markers established a high level of collinearity of the Pm40 genomic region with a 1.09-Mbp genomic region on Brachypodium chromosome 3, a 1.16-Mbp genomic region on rice chromosome 8, and a 1.62-Mbp genomic region on sorghum chromosome 7. We further anchored the Pm40 target intervals to the wheat genome sequence. A putative linear index of 85 wheat contigs containing 97 genes on 7BS was constructed. In total, 9 genes could be considered as candidates for the resistances to powdery mildew in the target genomic regions, which encoded proteins that were involved in the plant defense and response to pathogen attack. These results will facilitate the development of new markers for map-based cloning and marker-assisted selection of Pm40 in wheat breeding programs.

  18. Collinearity Analysis and High-Density Genetic Mapping of the Wheat Powdery Mildew Resistance Gene Pm40 in PI 672538

    Science.gov (United States)

    Fatima, Syeda Akash; Yang, Jiezhi; Chen, Wanquan; Liu, Taiguo; Hu, Yuting; Li, Qing; Guo, Jingwei; Zhang, Min; Lei, Li; Li, Xin; Tang, Shengwen; Luo, Peigao

    2016-01-01

    The wheat powdery mildew resistance gene Pm40, which is located on chromosomal arm 7BS, is effective against nearly all prevalent races of Blumeria graminis f. sp tritici (Bgt) in China and is carried by the common wheat germplasm PI 672538. A set of the F1, F2 and F2:3 populations from the cross of the resistant PI 672538 with the susceptible line L1034 were used to conduct genetic analysis of powdery mildew resistance and construct a high-density linkage map of the Pm40 gene. We constructed a high-density linkage genetic map with a total length of 6.18 cM and average spacing between markers of 0.48 cM.Pm40 is flanked by Xwmc335 and BF291338 at genetic distances of 0.58 cM and 0.26 cM, respectively, in deletion bin C-7BS-1-0.27. Comparative genomic analysis based on EST-STS markers established a high level of collinearity of the Pm40 genomic region with a 1.09-Mbp genomic region on Brachypodium chromosome 3, a 1.16-Mbp genomic region on rice chromosome 8, and a 1.62-Mbp genomic region on sorghum chromosome 7. We further anchored the Pm40 target intervals to the wheat genome sequence. A putative linear index of 85 wheat contigs containing 97 genes on 7BS was constructed. In total, 9 genes could be considered as candidates for the resistances to powdery mildew in the target genomic regions, which encoded proteins that were involved in the plant defense and response to pathogen attack. These results will facilitate the development of new markers for map-based cloning and marker-assisted selection of Pm40 in wheat breeding programs. PMID:27755575

  19. Transcriptional Activation of Low-Density Lipoprotein Receptor Gene by DJ-1 and Effect of DJ-1 on Cholesterol Homeostasis

    Science.gov (United States)

    Takahashi-Niki, Kazuko; Kato, Izumi; Niki, Takeshi; Goldberg, Matthew S.; Shen, Jie; Ishimoto, Kenji; Doi, Takefumi; Iguchi-Ariga, Sanae M. M.; Ariga, Hiroyoshi

    2012-01-01

    DJ-1 is a novel oncogene and also causative gene for familial Parkinson’s disease park7. DJ-1 has multiple functions that include transcriptional regulation, anti-oxidative reaction and chaperone and mitochondrial regulation. For transcriptional regulation, DJ-1 acts as a coactivator that binds to various transcription factors, resulting in stimulation or repression of the expression of their target genes. In this study, we found the low-density lipoprotein receptor (LDLR) gene is a transcriptional target gene for DJ-1. Reduced expression of LDLR mRNA and protein was observed in DJ-1-knockdown cells and DJ-1-knockout mice and this occurred at the transcription level. Reporter gene assays using various deletion and point mutations of the LDLR promoter showed that DJ-1 stimulated promoter activity by binding to the sterol regulatory element (SRE) with sterol regulatory element binding protein (SREBP) and that stimulating activity of DJ-1 toward LDLR promoter activity was enhanced by oxidation of DJ-1. Chromatin immunoprecipitation, gel-mobility shift and co-immunoprecipitation assays showed that DJ-1 made a complex with SREBP on the SRE. Furthermore, it was found that serum LDL cholesterol level was increased in DJ-1-knockout male, but not female, mice and that the increased serum LDL cholesterol level in DJ-1-knockout male mice was cancelled by administration with estrogen, suggesting that estrogen compensates the increased level of serum LDL cholesterol in DJ-1-knockout female mice. This is the first report that DJ-1 participates in metabolism of fatty acid synthesis through transcriptional regulation of the LDLR gene. PMID:22666465

  20. Transcriptional activation of low-density lipoprotein receptor gene by DJ-1 and effect of DJ-1 on cholesterol homeostasis.

    Directory of Open Access Journals (Sweden)

    Shiori Yamaguchi

    Full Text Available DJ-1 is a novel oncogene and also causative gene for familial Parkinson's disease park7. DJ-1 has multiple functions that include transcriptional regulation, anti-oxidative reaction and chaperone and mitochondrial regulation. For transcriptional regulation, DJ-1 acts as a coactivator that binds to various transcription factors, resulting in stimulation or repression of the expression of their target genes. In this study, we found the low-density lipoprotein receptor (LDLR gene is a transcriptional target gene for DJ-1. Reduced expression of LDLR mRNA and protein was observed in DJ-1-knockdown cells and DJ-1-knockout mice and this occurred at the transcription level. Reporter gene assays using various deletion and point mutations of the LDLR promoter showed that DJ-1 stimulated promoter activity by binding to the sterol regulatory element (SRE with sterol regulatory element binding protein (SREBP and that stimulating activity of DJ-1 toward LDLR promoter activity was enhanced by oxidation of DJ-1. Chromatin immunoprecipitation, gel-mobility shift and co-immunoprecipitation assays showed that DJ-1 made a complex with SREBP on the SRE. Furthermore, it was found that serum LDL cholesterol level was increased in DJ-1-knockout male, but not female, mice and that the increased serum LDL cholesterol level in DJ-1-knockout male mice was cancelled by administration with estrogen, suggesting that estrogen compensates the increased level of serum LDL cholesterol in DJ-1-knockout female mice. This is the first report that DJ-1 participates in metabolism of fatty acid synthesis through transcriptional regulation of the LDLR gene.

  1. Genome-wide association study using extreme truncate selection identifies novel genes affecting bone mineral density and fracture risk.

    Directory of Open Access Journals (Sweden)

    Emma L Duncan

    2011-04-01

    Full Text Available Osteoporotic fracture is a major cause of morbidity and mortality worldwide. Low bone mineral density (BMD is a major predisposing factor to fracture and is known to be highly heritable. Site-, gender-, and age-specific genetic effects on BMD are thought to be significant, but have largely not been considered in the design of genome-wide association studies (GWAS of BMD to date. We report here a GWAS using a novel study design focusing on women of a specific age (postmenopausal women, age 55-85 years, with either extreme high or low hip BMD (age- and gender-adjusted BMD z-scores of +1.5 to +4.0, n = 1055, or -4.0 to -1.5, n = 900, with replication in cohorts of women drawn from the general population (n = 20,898. The study replicates 21 of 26 known BMD-associated genes. Additionally, we report suggestive association of a further six new genetic associations in or around the genes CLCN7, GALNT3, IBSP, LTBP3, RSPO3, and SOX4, with replication in two independent datasets. A novel mouse model with a loss-of-function mutation in GALNT3 is also reported, which has high bone mass, supporting the involvement of this gene in BMD determination. In addition to identifying further genes associated with BMD, this study confirms the efficiency of extreme-truncate selection designs for quantitative trait association studies.

  2. The gustin (CA6) gene polymorphism, rs2274333 (A/G), as a mechanistic link between PROP tasting and fungiform taste papilla density and maintenance

    National Research Council Canada - National Science Library

    Melis, Melania; Atzori, Elena; Cabras, Stefano; Zonza, Andrea; Calò, Carla; Muroni, Patrizia; Nieddu, Mariella; Padiglia, Alessandra; Sogos, Valeria; Tepper, Beverly J; Tomassini Barbarossa, Iole

    2013-01-01

    Taste sensitivity to PROP varies greatly among individuals and is associated with polymorphisms in the bitter receptor gene TAS2R38, and with differences in fungiform papilla density on the anterior tongue surface...

  3. The Gustin (CA6) Gene Polymorphism, rs2274333 (A/G), as a Mechanistic Link between PROP Tasting and Fungiform Taste Papilla Density and Maintenance: e74151

    National Research Council Canada - National Science Library

    Melania Melis; Elena Atzori; Stefano Cabras; Andrea Zonza; Carla Calò; Patrizia Muroni; Mariella Nieddu; Alessandra Padiglia; Valeria Sogos; Beverly J Tepper; Iole Tomassini Barbarossa

    2013-01-01

      Taste sensitivity to PROP varies greatly among individuals and is associated with polymorphisms in the bitter receptor gene TAS2R38, and with differences in fungiform papilla density on the anterior tongue surface...

  4. SCARB1 Gene Variants Are Associated With the Phenotype of Combined High High-Density Lipoprotein Cholesterol and High Lipoprotein (a)

    DEFF Research Database (Denmark)

    Yang, Xiaoping; Sethi, Amar A; Yanek, Lisa R

    2016-01-01

    BACKGROUND: SR-B1 (scavenger receptor class B type 1), encoded by the gene SCARB1, is a lipoprotein receptor that binds both high-density lipoprotein (HDL) and low-density lipoprotein. We reported that SR-B1 is also a receptor for lipoprotein (a) (Lp(a)), mediating cellular uptake of Lp(a) in vitro...

  5. Apolipoprotein A-V interaction with members of the low density lipoprotein receptor gene family

    DEFF Research Database (Denmark)

    Nilsson, Stefan K; Lookene, Aivar; Beckstead, Jennifer A;

    2007-01-01

    Apolipoprotein A-V is a potent modulator of plasma triacylglycerol levels. To investigate the molecular basis for this phenomenon we explored the ability of apolipoprotein A-V, in most experiments complexed to disks of dimyristoylphosphatidylcholine, to interact with two members of the low densit...... to receptor-covered sensor chips. Our results indicate that apolipoprotein A-V may influence plasma lipid homeostasis by enhancing receptor-mediated endocytosis of triacylglycerol-rich lipoproteins. Udgivelsesdato: 2007-Mar-27......Apolipoprotein A-V is a potent modulator of plasma triacylglycerol levels. To investigate the molecular basis for this phenomenon we explored the ability of apolipoprotein A-V, in most experiments complexed to disks of dimyristoylphosphatidylcholine, to interact with two members of the low density...... lipoprotein receptor family, the low density lipoprotein receptor-related protein and the mosaic type-1 receptor, SorLA. Experiments using surface plasmon resonance showed specific binding of both free and lipid-bound apolipoprotein A-V to both receptors. The binding was calcium dependent and was inhibited...

  6. Preliminary design of surrounding heliostat fields

    Energy Technology Data Exchange (ETDEWEB)

    Collado, Francisco J. [Zaragoza University, Dpto. de Ingenieria Mecanica, CPS-B, Maria de Luna 3, 50018 Zaragoza (Spain)

    2009-05-15

    Recently, the author has shown elsewhere a simplified model that allows quick evaluations of the annual overall energy collected by a surrounding heliostat field. This model is the combination of an analytical flux density function produced by a heliostat, developed by the own author, and an optimized mirror density distribution developed by University of Houston for the Solar One Project. As main conclusion of this previous work, it was recognized that such pseudo-continuous simplified model should not substitute much more accurate discrete evaluations, which manage thousands of individual heliostat coordinates. Here in this work, the difficulty of generating a preliminary discrete layout of a large number of heliostats is addressed. The main novelty is the direct definition of thousands of heliostat coordinates through basically two parameters i.e. a simplified blocking factor and an additional security distance. Such procedure, which was formerly theoretically suggested by the author, is put into practice here, showing examples and commenting their problems and advantages. Getting a previous set of thousands of heliostat coordinates would be a major first step in the complex process of designing solar power tower (SPT). (author)

  7. Characterization of a disease-causing Glu119-Lys mutation in the low-density lipoprotein receptor gene in two Danish families with heterozygous familial hypercholesterolemia

    DEFF Research Database (Denmark)

    Jensen, H K; Jensen, T G; Jensen, L G

    1994-01-01

    Mutations in the gene for the low-density lipoprotein receptor (LDL receptor) cause the autosomal dominant inherited disease familial hypercholesterolemia (FH). In 15 Danish patients with heterozygous FH we have screened exon 4 of the LDL receptor gene for point mutations and small rearrangements...

  8. Rapid characterization of disease-causing mutations in the low density lipoprotein receptor (LDL-R) gene by overexpression in COS cells

    DEFF Research Database (Denmark)

    Jensen, T G; Andresen, B S; Jensen, H K;

    1996-01-01

    To characterize disease-causing mutations in the low density lipoprotein receptor (LDL-R) gene, COS cells are transfected with the mutant gene in an EBV-based expression vector and characterized by flow cytometry. Using antibodies against the LDL-receptor the amount of receptor protein on the cell...

  9. Multidimensional metrics for estimating phage abundance, distribution, gene density, and sequence coverage in metagenomes

    Directory of Open Access Journals (Sweden)

    Ramy Karam Aziz

    2015-05-01

    Full Text Available Phages are the most abundant biological entities on Earth and play major ecological roles, yet the current sequenced phage genomes do not adequately represent their diversity, and little is known about the abundance and distribution of these sequenced genomes in nature. Although the study of phage ecology has benefited tremendously from the emergence of metagenomic sequencing, a systematic survey of phage genes and genomes in various ecosystems is still lacking, and fundamental questions about phage biology, lifestyle, and ecology remain unanswered. To address these questions and improve comparative analysis of phages in different metagenomes, we screened a core set of publicly available metagenomic samples for sequences related to completely sequenced phages using the web tool, Phage Eco-Locator. We then adopted and deployed an array of mathematical and statistical metrics for a multidimensional estimation of the abundance and distribution of phage genes and genomes in various ecosystems. Experiments using those metrics individually showed their usefulness in emphasizing the pervasive, yet uneven, distribution of known phage sequences in environmental metagenomes. Using these metrics in combination allowed us to resolve phage genomes into clusters that correlated with their genotypes and taxonomic classes as well as their ecological properties. We propose adding this set of metrics to current metaviromic analysis pipelines, where they can provide insight regarding phage mosaicism, habitat specificity, and evolution.

  10. Effect of Curcumin on the Gene Expression of Low Density Lipoprotein Receptors

    Institute of Scientific and Technical Information of China (English)

    2005-01-01

    Objective: To investigate the molecular mechanisms and effective target ponits of lipid-lowering drug, Rhizoma Curcumae Longae, and study the effect of curcumin on the expression of low density lipoprotein (LDL) receptors in macrophages in mice. Methods: Macrophages in mice were treated with curcumin, which was purified from the ethanolly extraction of Rhizoma Curcumae Longae for 24 h. The LDL receptors expressed in the macrophages were determined by enzyme-linked immunosorbent assay (ELISA) and assay of Dil labeled LDL uptake by flow cytometer. Results: It was found for the first time that 10 μmol/L-50μmol/L curcumin could obviously up-regulate the expression of LDL receptor in macrophages in mice, and a dose-effect relationship was demonstrated. Conclusion: One of the lipid-lowering mechanisms of traditional Chinese medicine, Rhizoma Curcumae Longae, was completed by the effect of curcumin through the up-regulation of the expression of LDL receptor.

  11. Dopamine receptor D1 and postsynaptic density gene variants associate with opiate abuse and striatal expression levels.

    Science.gov (United States)

    Jacobs, M M; Ökvist, A; Horvath, M; Keller, E; Bannon, M J; Morgello, S; Hurd, Y L

    2013-11-01

    Opioid drugs are highly addictive and their abuse has a strong genetic load. Dopamine-glutamate interactions are hypothesized to be important for regulating neural systems central for addiction vulnerability. Balanced dopamine-glutamate interaction is mediated through several functional associations, including a physical link between discs, large homolog 4 (Drosophila) (DLG4, PSD-95) and dopamine receptor 1 (DRD1) within the postsynaptic density to regulate DRD1 trafficking. To address whether genetic associations with heroin abuse exist in relation to dopamine and glutamate and their potential interactions, we evaluated single-nucleotide polymorphisms of key genes within these systems in three populations of opiate abusers and controls, totaling 489 individuals from Europe and the United States. Despite significant differences in racial makeup of the separate samples, polymorphisms of DRD1 and DLG4 were found to be associated with opiate abuse. In addition, a strong gene-gene interaction between homer 1 homolog (Drosophila) (HOMER1) and DRD1 was predicted to occur in Caucasian subjects. This interaction was further analyzed by evaluating DRD1 genotype in relation to HOMER1b/c protein expression in postmortem tissue from a subset of Caucasian subjects. DRD1 rs265973 genotype correlated with HOMER1b/c levels in the striatum, but not cortex or amygdala; the correlation was inversed in opiate abusers as compared with controls. Cumulatively, these results support the hypothesis that there may be significant, genetically influenced interactions between glutamatergic and dopaminergic pathways in opiate abusers.

  12. Polymorphism rs2073618 of the TNFRSF11B (OPG Gene and Bone Mineral Density in Mexican Women with Rheumatoid Arthritis

    Directory of Open Access Journals (Sweden)

    C. A. Nava-Valdivia

    2017-01-01

    Full Text Available Osteoporosis (OP is highly prevalent in rheumatoid arthritis (RA and is influenced by genetic factors. Single-nucleotide polymorphism (SNP rs2073618 in the TNFRSF11B osteoprotegerin (OPG gene has been related to postmenopausal OP although, to date, no information has been described concerning whether this polymorphism is implied in abnormalities of bone mineral density (BMD in RA. We evaluated, in a case-control study performed in Mexican-Mestizo women with RA, whether SNP rs2073618 in the TNFRSF11B gene is associated with a decrease in BMD. RA patients were classified as follows: (1 low BMD and (2 normal BMD. All patients were genotyped for the rs2073618 polymorphism by PCR-RFLP. The frequency of low BMD was 74.4%. Higher age was observed in RA with low BMD versus normal BMD (62 and 54 years, resp.; p<0.001. Worse functioning and lower BMI were observed in RA with low BMD (p=0.003 and p=0.002, resp.. We found similar genotype frequencies in RA with low BMD versus RA with normal BMD (GG genotype 71% versus 64.4%, GC 26% versus 33%, and CC 3% versus 2.2%, resp.; p=0.6. We concluded that in Mexican-Mestizo female patients with RA, the rs2073618 polymorphism of the TNRFS11B gene is not associated with low BMD.

  13. Evidence of association of vitamin D receptor Apa I gene polymorphism with bone mineral density in postmenopausal women with osteoporosis.

    Science.gov (United States)

    Dundar, Umit; Solak, Mustafa; Kavuncu, Vural; Ozdemir, Mujgan; Cakir, Tuncay; Yildiz, Handan; Evcik, Deniz

    2009-10-01

    The vitamin D receptor (VDR) was the first candidate gene to be studied in relation to osteoporosis, and most attention has focused on polymorphisms situated near the 3' flank of VDR. The aim of this study was to investigate the association about VDR gene Apa I polymorphism with bone mineral density (BMD) in postmenopausal women with osteoporosis. We studied a total of 136 postmenopausal women with a mean age of 56.36 +/- 10.29 years. Among them, a total of 75 had osteoporosis, 37 had osteopenia, and 24 had normal BMD. Venous blood samples were obtained for evaluation of bone metabolism and genotyping. The VDR Apa I genotype was determined by polymerase chain reaction-restriction fragment length polymorphism. BMDs at the lumbar spine and hip were measured by dual-energy X-ray absorptiometry. Postmenopausal women with aa genotype had significantly lower BMD values (grams per centimeter square) at lumbar spines compared to persons with AA genotype. Also, postmenopausal women with AA genotype had significantly higher serum Ca level than the subjects with aa genotype. In conclusion, our result may indicate that VDR Apa I gene polymorphism may be responsible for a important part of the heritable component of lumbar spine BMD in postmenopausal women, possibly related to impaired calcium absorption from the bowel.

  14. Binaural Rendering in MPEG Surround

    Directory of Open Access Journals (Sweden)

    Kristofer Kjörling

    2008-04-01

    Full Text Available This paper describes novel methods for evoking a multichannel audio experience over stereo headphones. In contrast to the conventional convolution-based approach where, for example, five input channels are filtered using ten head-related transfer functions, the current approach is based on a parametric representation of the multichannel signal, along with either a parametric representation of the head-related transfer functions or a reduced set of head-related transfer functions. An audio scene with multiple virtual sound sources is represented by a mono or a stereo downmix signal of all sound source signals, accompanied by certain statistical (spatial properties. These statistical properties of the sound sources are either combined with statistical properties of head-related transfer functions to estimate “binaural parameters” that represent the perceptually relevant aspects of the auditory scene or used to create a limited set of combined head-related transfer functions that can be applied directly on the downmix signal. Subsequently, a binaural rendering stage reinstates the statistical properties of the sound sources by applying the estimated binaural parameters or the reduced set of combined head-related transfer functions directly on the downmix. If combined with parametric multichannel audio coders such as MPEG Surround, the proposed methods are advantageous over conventional methods in terms of perceived quality and computational complexity.

  15. Reduced surround inhibition in musicians.

    Science.gov (United States)

    Shin, Hae-Won; Kang, Suk Y; Hallett, Mark; Sohn, Young H

    2012-06-01

    To investigate whether surround inhibition (SI) in the motor system is altered in professional musicians, we performed a transcranial magnetic stimulation (TMS) study in 10 professional musicians and 15 age-matched healthy non-musicians. TMS was set to be triggered by self-initiated flexion of the index finger at different intervals ranging from 3 to 1,000 ms. Average motor evoked potential (MEP) amplitudes obtained from self-triggered TMS were normalized to average MEPs of the control TMS at rest and expressed as a percentage. Normalized MEP amplitudes of the abductor digiti minimi (ADM) muscles were compared between the musicians and non-musicians with the primary analysis being the intervals between 3 and 80 ms (during the movement). A mixed-design ANOVA revealed a significant difference in normalized ADM MEPs during the index finger flexion between groups, with less SI in the musicians. This study demonstrated that the functional operation of SI is less strong in musicians than non-musicians, perhaps due to practice of movement synergies involving both muscles. Reduced SI, however, could lead susceptible musicians to be prone to develop task-specific dystonia.

  16. Binaural Rendering in MPEG Surround

    Science.gov (United States)

    Breebaart, Jeroen; Villemoes, Lars; Kjörling, Kristofer

    2008-12-01

    This paper describes novel methods for evoking a multichannel audio experience over stereo headphones. In contrast to the conventional convolution-based approach where, for example, five input channels are filtered using ten head-related transfer functions, the current approach is based on a parametric representation of the multichannel signal, along with either a parametric representation of the head-related transfer functions or a reduced set of head-related transfer functions. An audio scene with multiple virtual sound sources is represented by a mono or a stereo downmix signal of all sound source signals, accompanied by certain statistical (spatial) properties. These statistical properties of the sound sources are either combined with statistical properties of head-related transfer functions to estimate "binaural parameters" that represent the perceptually relevant aspects of the auditory scene or used to create a limited set of combined head-related transfer functions that can be applied directly on the downmix signal. Subsequently, a binaural rendering stage reinstates the statistical properties of the sound sources by applying the estimated binaural parameters or the reduced set of combined head-related transfer functions directly on the downmix. If combined with parametric multichannel audio coders such as MPEG Surround, the proposed methods are advantageous over conventional methods in terms of perceived quality and computational complexity.

  17. Analysis of Metastatic-Related Gene Expression in Gastric Cancer by Low-Density cDNA Microarrays

    Institute of Scientific and Technical Information of China (English)

    Baojun Huang; Huimian Xu; Yujie Zhao; Zhenning Wang; Shaocheng Wang

    2006-01-01

    OBJECTIVE To screen metastatic-related genes in human gastric cancer by a low-density cDNA microarray technique.METHODS A total of 18 paired gastric cancer and adjacent normal mucosa were examined by a low-density cDNA microarray containing 23genes. RT-PCR was used for further verification.RESULTS The mRNA expression of MMP-7, heparanase, S100A4,hTERT, hRad17 in gastric cancers was higher than that in coupled normal mucosa (P =0.002, 0.00011, 0.000072, 0.002, 0.00016 respectively),whereas nm23H1, and CDH1 were lower (P=0.003, 0.012 respectively).The concordance was verified further by RT-PCR with a correlation coefficient of 0.774. In gastric primary lesions the mRNA expression of MMP-7, heparanase and S100A4 was higher in the serosa involved compared to non-involved (P=0.003, 0.009, 0.012 respectively), whereas nm23H1,CDH1, KAI1 were lower (P=0.001, 0.001, 0.006 respectively). With respect to the area of serosa involvement, MMP-7 and heparanase expressions were higher in an area of more than 20 cm2 compared to an area of less than 20 cm2 (P=0.001, 0.02 respectively), whereas nm23H1,CDH1 and KAI1 were lower (P=0.030, 0.041, 0.031 respectively). MMP-7and hTERT expressions were higher in the heavier lymph node metastatic cases (no less than 7) than in the lighter lymph node metastatic cases(no more than 6, P=0.001, 0.005 respectively).CONCLUSION Expression of MMP-7, S100A4, heparanase, hTERT,KAI1, CDH1 and nm23H1 correlated closely with invasion and metastasis in gastric carcinomas. The low-density cDNA microarrays can be used to examine the expression of many genes simultaneously, parallely and quickly.

  18. Population-specific haplotype association of the postsynaptic density gene DLG4 with schizophrenia, in family-based association studies.

    Directory of Open Access Journals (Sweden)

    Shabeesh Balan

    Full Text Available The post-synaptic density (PSD of glutamatergic synapses harbors a multitude of proteins critical for maintaining synaptic dynamics. Alteration of protein expression levels in this matrix is a marked phenomenon of neuropsychiatric disorders including schizophrenia, where cognitive functions are impaired. To investigate the genetic relationship of genes expressed in the PSD with schizophrenia, a family-based association analysis of genetic variants in PSD genes such as DLG4, DLG1, PICK1 and MDM2, was performed, using Japanese samples (124 pedigrees, n = 376 subjects. Results showed a significant association of the rs17203281 variant from the DLG4 gene, with preferential transmission of the C allele (p = 0.02, although significance disappeared after correction for multiple testing. Replication analysis of this variant, found no association in a Chinese schizophrenia cohort (293 pedigrees, n = 1163 subjects or in a Japanese case-control sample (n = 4182 subjects. The DLG4 expression levels between postmortem brain samples from schizophrenia patients showed no significant changes from controls. Interestingly, a five marker haplotype in DLG4, involving rs2242449, rs17203281, rs390200, rs222853 and rs222837, was enriched in a population specific manner, where the sequences A-C-C-C-A and G-C-C-C-A accumulated in Japanese (p = 0.0009 and Chinese (p = 0.0007 schizophrenia pedigree samples, respectively. However, this could not be replicated in case-control samples. None of the variants in other examined candidate genes showed any significant association in these samples. The current study highlights a putative role for DLG4 in schizophrenia pathogenesis, evidenced by haplotype association, and warrants further dense screening for variants within these haplotypes.

  19. Population-Specific Haplotype Association of the Postsynaptic Density Gene DLG4 with Schizophrenia, in Family-Based Association Studies

    Science.gov (United States)

    Balan, Shabeesh; Yamada, Kazuo; Hattori, Eiji; Iwayama, Yoshimi; Toyota, Tomoko; Ohnishi, Tetsuo; Maekawa, Motoko; Toyoshima, Manabu; Iwata, Yasuhide; Suzuki, Katsuaki; Kikuchi, Mitsuru; Yoshikawa, Takeo

    2013-01-01

    The post-synaptic density (PSD) of glutamatergic synapses harbors a multitude of proteins critical for maintaining synaptic dynamics. Alteration of protein expression levels in this matrix is a marked phenomenon of neuropsychiatric disorders including schizophrenia, where cognitive functions are impaired. To investigate the genetic relationship of genes expressed in the PSD with schizophrenia, a family-based association analysis of genetic variants in PSD genes such as DLG4, DLG1, PICK1 and MDM2, was performed, using Japanese samples (124 pedigrees, n = 376 subjects). Results showed a significant association of the rs17203281 variant from the DLG4 gene, with preferential transmission of the C allele (p = 0.02), although significance disappeared after correction for multiple testing. Replication analysis of this variant, found no association in a Chinese schizophrenia cohort (293 pedigrees, n = 1163 subjects) or in a Japanese case-control sample (n = 4182 subjects). The DLG4 expression levels between postmortem brain samples from schizophrenia patients showed no significant changes from controls. Interestingly, a five marker haplotype in DLG4, involving rs2242449, rs17203281, rs390200, rs222853 and rs222837, was enriched in a population specific manner, where the sequences A-C-C-C-A and G-C-C-C-A accumulated in Japanese (p = 0.0009) and Chinese (p = 0.0007) schizophrenia pedigree samples, respectively. However, this could not be replicated in case-control samples. None of the variants in other examined candidate genes showed any significant association in these samples. The current study highlights a putative role for DLG4 in schizophrenia pathogenesis, evidenced by haplotype association, and warrants further dense screening for variants within these haplotypes. PMID:23936182

  20. Polymorphism of the low-density lipoprotein receptor-related protein 5 gene and fracture risk.

    Science.gov (United States)

    Wang, Chao; Zhang, Gang; Gu, Mingyong; Zhou, Zhenyu; Cao, Xuecheng

    2014-01-01

    Several molecular epidemiological studies have been conducted to examine the association between low-density lipoprotein receptor-related proteins (LRP5) Ala1330Val polymorphism and fracture; however, the conclusions remained controversial. We therefore performed an extensive meta-analysis on 10 published studies with 184479 subjects. Electronic databases, including PubMed, Excerpta Medica Database (EMBASE), Cochrane, Elsevier Science Direct and China National Knowledge Infrastructure (CNKI) databases were searched. Summary odds ratios (ORs) and corresponding 95% confidence intervals (CIs) were estimated using random-effects models. LRP5 Ala1330Val polymorphism was associated with a significantly increased risk of fracture (OR = 1.10; 95% CI, 1.06-1.14; I(2) = 29%). We also found that this polymorphism increased fracture risk in Caucasians. In the subgroup analysis according to gender, women was significantly associated with risk of fracture. In the subgroup analysis by type of fracture, LRP5 Ala1330Val polymorphism showed increased osteoporotic fracture risk. In conclusion, this meta-analysis suggested that an increased risk of fracture was associated with the LRP5 Ala1330Val polymorphism.

  1. Correlation of estrogen receptor alpha gene polymorphisms and bone mineral density in Chinese women with chronic periodontitis

    Institute of Scientific and Technical Information of China (English)

    ZHANG Xuan; DAI Juan; LONG Yin; WU Hao; LI Xiao-juan; DING Yin

    2010-01-01

    Background Periodontitis and osteoporosis aro one of the frequently encountered diseases in post-menopausal women. Estrogen receptors (ERs) regulated bone metabolism. To investigate the possible effect of ER-alpha (α) gene polymorphisms on bone mineral density (BMD) in pre- and post-menopausal Chinese women with chronic periodontitis (CP), we provided sufficient quantitative information concerning the correlation between ER gene polymorphisms and BMD in periodontitis.Methods Sixty-five post-menopausal and eighty pro-menopausal CP women, and sixty post-menopausal healthy individuals were recruited in this study. Genomic DNA was extracted from oral mucosa swab sample of each subject by the Chelex-100 method. Determination of the ER-α polymorphisms was performed by polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) technique with Xbal and Pvull enzyme. The index for periodontal examination includes clinical attachment loss (CAL) and probing pocket depth (PPD). BMD was measured by dual-energy X-ray absorptiometry (DEXA).Results There were no significant differences between the ER-(α genotypes of Pvull and Xbal and BMD in post-menopausal and pro-menopausal CP patients, respectively (P >0.05). However, there was association between preand post-menopausal CP patients at BMD of lumbar spine L2-L4 (P=0.027) and Ward's BMD (P=0.004). Furthermore, the post-menopausal CP women who carried Pvull ∏ genotype presented significantly lower Ward's BMD than the pre-menopausal CP women (P=0.007), meanwhile, the post-menopausal CP women who carried Xbal AA genotype presented significantly lower spine L2-L4 BMD than the pre-menopausal CP women (P=0.003).Conclusions ER-(α gene polymorphisms may be a susceptible indicator for BMD variation of lumbar spine L2-L4 and Ward in Chinese pre- and post-menopausal women patients with CP.

  2. Characterization of Novel Integrons, In1085 and In1086, and the Surrounding Genes in Plasmids from Enterobacteriaceae, and the Role for attCaadA16 Structural Features during attI1 × attC Integration

    Directory of Open Access Journals (Sweden)

    Dongguo Wang

    2017-06-01

    Full Text Available Novel class 1 integrons In1085 and In1086, containing the class D β-lactamase -encoding gene blaOXA, were identified in clinical enterobacterial strains. In this study, we aimed to characterize the genetic contexts of In1085 and In1086, with the goal of identifying putative mechanisms of integron mobilization. Four plasmids, approximately 5.3, 5.3, 5.7, and 6.6 kb, from 71 clinical Enterobacteriaceae strains were found to contain class 1 integrons (In37, In62, In1085, and In1086, respectively. Two of these plasmids, pEco336 and pNsa292, containing In1085 and In1086, respectively, were further characterized by antibiotic susceptibility testing, conjugation experiments, PCR, sequencing, and gene mapping. The OXA-type carbapenemase activities of the parental strains were also assessed. The results revealed that the novel integrons had different genetic environments, and therefore demonstrated diverse biochemical characteristics. Using evolutionary inferences based on the recombination of gene cassettes, we also identified a role for attCaadA16 structural features during attI1 × attC insertion reactions. Our analysis showed that gene cassette insertions in the bottom strand of attCaadA16 in the correct orientation lead to the expression the encoded genes from the Pc promoter. Our study suggests that the genetic features harbored within the integrons are inserted in a discernable pattern, involving the stepwise and parallel evolution of class 1 integron variations under antibiotic selection pressures in a clinical setting.

  3. A novel peroxisome proliferator response element modulates hepatic low-density lipoprotein receptor gene transcription in response to PPARδ activation.

    Science.gov (United States)

    Shende, Vikram R; Singh, Amar Bahadur; Liu, Jingwen

    2015-12-15

    The hepatic expression of low-density lipoprotein (LDL) receptor (LDLR) gene is regulated primarily at the transcriptional level by a sterol-regulatory element (SRE) in its proximal promoter region which is the site of action of SRE-binding protein 2 (SREBP2). However whether additional cis-regulatory elements contribute to LDLR transcription has not been fully explored. We investigated the function of a putative peroxisome proliferator-activated receptor (PPAR)-response element (PPRE) sequence motif located at -768 to -752 bases upstream of the transcription start site of human LDLR gene in response to PPARδ activation. Promoter luciferase reporter analyses showed that treating HepG2 cells with PPARδ agonist L165041 markedly increased the activity of a full-length LDLR promoter construct (pLDLR-1192) without any effects on the shorter promoter reporter pLDLR-234 that contains only the core regulatory elements SRE-1 and SP1 sites. Importantly, mutation of the PPRE sequence greatly attenuated the induction of the full-length LDLR promoter activity by L165041 without affecting rosuvastatin (RSV)-mediated transactivation. EMSA and ChIP assay further confirmed the binding of PPARδ to the LDLR-PPRE site. Treating HepG2 cells with L165041 elevated the mRNA and protein expressions of LDLR without affecting the LDLR mRNA decay rate. The induction of LDLR expression by PPARδ agonist was further observed in liver tissue of mice and hamsters treated with L165041. Altogether, our studies identify a novel PPRE-mediated regulatory mechanism for LDLR transcription and suggest that combined treatment of statin with PPARδ agonists may have advantageous effects on LDLR expression.

  4. Contour detection by surround suppression of texture

    NARCIS (Netherlands)

    Petkov, Nicolai; Tavares, JMRS; Jorge, RMN

    2007-01-01

    Based on a keynote lecture at Complmage 2006, Coimbra, Oct. 20-21, 2006, an overview is given of our activities in modelling and using surround inhibition for contour detection. The effect of suppression of a line or edge stimulus by similar surrounding stimuli is known from visual perception studie

  5. Different surrounding landscapes may result in different fish assemblages in East African seagrass beds

    NARCIS (Netherlands)

    Dorenbosch, M.; Grol, M.G.G.; Nagelkerken, I.; Velde, G. van der

    2006-01-01

    Few studies have considered how seagrass fish assemblages are influenced by surrounding habitats. This information is needed for a better understanding of the connectivity between tropical coastal ecosystems. To study the effects of surrounding habitats on the composition, diversity and densities of

  6. Genetic variation at the SLCO1B1 gene locus and low density lipoprotein cholesterol lowering response to pravastatin in the elderly

    Science.gov (United States)

    Our goal was to determine whether genetic variation at genes affecting statin metabolism or targets of statin therapy would influence low density lipoprotein (LDL) cholesterol lowering with pravastatin, baseline heart disease, or cardiac endpoints on trial. We examined associations of single nucleot...

  7. Polymorphisms of exon 5, exon 7 and intron 10 of MMP2 gene and their association with wool density in Rex rabbits

    Directory of Open Access Journals (Sweden)

    S.J. Chen

    2017-06-01

    Full Text Available Wool density is an important index that influences Rex rabbit fur quality. In our earlier studies, we found some important differentially expressed genes in different wool density of Rex rabbit by cDNA microarray. Based on the outcome, we conducted an association study to identify single nucleotide polymorphisms (SNPs of exon 1, 5, 7 and 10 of matrix metalloproteinase-2 (MMP2 gene and their ligands associated with wool density. The results showed that exon 1 and exon 10 of MMP2 gene did not occur mutation in 100 Rex rabbits, meanwhile 3 SNPs were identified in exon 5, exon 7 and intron 10 of MMP2 gene sequence respectively, the 3 mutation sites were as follows: MMP2-exon 5-26C/G, MMP2-exon 7-101C/T and MMP2-intron 10-6C/T. The 3 SNPs were all in Hardy-Weinberg equilibrium. Phenotypic correlation analysis results showed the 3 mutations lacked significant associations (P>0.05 with the wool density.

  8. Polymorphisms in the Low-Density Lipoprotein Receptor-Related Protein 5 (LRP5) Gene Are Associated with Peak Bone Mass in Non-sedentary Men

    DEFF Research Database (Denmark)

    Brixen, K; Beckers, S; Peeters, A

    2007-01-01

    PURPOSE: To investigate the impact of the Ala1330Val (rs3736228, exon 18) and Val667Met (rs4988321, exon 9) polymorphisms of the low-density lipoprotein receptor-related protein 5 (LRP5) gene on peak bone mass in young men. METHODS: The Odense Androgen Study (OAS) is a population-based study...

  9. Silent exonic mutations in the low-density lipoprotein receptor gene that cause familial hypercholesterolemia by affecting mRNA splicing.

    NARCIS (Netherlands)

    Defesche, J.C.; Schuurman, E.J.M.; Klaaijsen, L.N.; Khoo, K.L.; Wiegman, A.; Stalenhoef, A.F.H.

    2008-01-01

    In a large group of patients with the clinical phenotype of familial hypercholesterolemia, such as elevated low-density lipoprotein (LDL) cholesterol and premature atherosclerosis, but without functional mutations in the genes coding for the LDL receptor and apolipoprotein B, we examined the effect

  10. A large-scale population-based study of the association of vitamin D receptor gene polymorphisms with bone mineral density.

    NARCIS (Netherlands)

    P.L.A. van Dalen; C.M. van Duijn (Cock); J.C. Birkenhäger (Jan); J.P.T.M. van Leeuwen (Hans); H.A.P. Pols (Huib); A.G. Uitterlinden (André); A. Hofman (Albert)

    1996-01-01

    textabstractConflicting results have been reported on the association between restriction fragment length polymorphisms (RFLPs) at the vitamin D receptor (VDR) gene locus (i.e., for BsmI, ApaI, and TaqI) and bone mineral density (BMD). We analyzed this association in a large population-based sample

  11. Calcitonin Receptor AluI (rs1801197) and Taq1 Calcitonin Genes Polymorphism in 45-and Over 45-year-old Women and their Association with Bone Density

    Science.gov (United States)

    Dehghan, Morteza; Pourahmad-Jaktaji, Razieh; Farzaneh, Zarghampoor

    2016-01-01

    Purpose: Calcitonin receptor gene has also a polymorphism which is associated with bone mass density. This study evaluates the association between calcitonin receptor AluI (rs1801197) and Taq1 calcitonin genes polymorphism with bone density rate. Methods: In this descriptive-analytical study in 2013 in southwestern Iran, 200 blood samples, per the Cochran sample size formula, were taken from women aged 45 and older. DNA was extracted from the samples using the phenol– chloroform method and the genomic fragments in question were proliferated using the polymerase chain reaction (PCR) method. Results: The genotypic distribution of polymorphism AluI for TT, TC, and CC genotypes in control group was 31.4%, 38.6%, and 30% and in patients 25.4%, 55.4%, and 19.2%, respectively. There was no significant difference in polymorphism AluI between patients and control group and no significant association was found between this gene and bone density rate (P > 0.05). All patients and the individuals in the control group exhibited tt genotype for TaqI calcitonin gene and no significant association was found between these participants and osteoporosis. Conclusion: There was no association between two polymorphisms and osteoporosis, and between polymorphism of these two genes and osteoporosis development rate in the participants. PMID:27708484

  12. Two Rare Mutations in the COL1A2 Gene Associate With Low Bone Mineral Density and Fractures in Iceland.

    Science.gov (United States)

    Styrkarsdottir, Unnur; Thorleifsson, Gudmar; Eiriksdottir, Berglind; Gudjonsson, Sigurjon A; Ingvarsson, Thorvaldur; Center, Jacqueline R; Nguyen, Tuan V; Eisman, John A; Christiansen, Claus; Thorsteinsdottir, Unnur; Sigurdsson, Gunnar; Stefansson, Kari

    2016-01-01

    We conducted a genome-wide association study of low bone mineral density (BMD) at the hip and spine utilizing sequence variants found through whole-genome sequencing of 2636 Icelanders. We found two rare missense mutations, p.Gly496Ala and p.Gly703Ser, in the COL1A2 gene that associate with measures of osteoporosis in Icelanders. Mutations in COL1A2 are known to cause the autosomal dominant disorder osteogenesis imperfecta. Both variants associate with low BMD and with osteoporotic fractures. p.Gly496Ala (frequency of 0.105%) shows the strongest association with low BMD at the spine (p = 1.8 × 10(-7) , odds ratio [OR] = 4.61 [95% confidence interval (CI) 2.59, 8.18]), whereas p.Gly703Ser (frequency of 0.050%) is most strongly associated with low BMD at the hip (p = 1.9 × 10(-8) , OR = 9.34 [95% CI 4.28, 20.3]). Association with fractures was p = 2.2 × 10(-5) , OR = 3.75 (95% CI 2.03, 6.93) and p = 0.0023, OR = 4.32 (95% CI 1.69, 11.1), respectively. The carriers of these variants do not have signs of osteogenesis imperfecta other than low BMD, demonstrating that similar mutations in COL1A2 can affect skeletal phenotypes in more than one way.

  13. Agroforestry practice in villages surrounding Nyamure former ...

    African Journals Online (AJOL)

    cntaganda

    Key words: Agroforestry, fuel wood, tree products, woodlot, forest plantation. INTRODUCTION ... The study area included three administrative cells in the surroundings of Nyamure ..... Table 6: Distance and time spent on firewood collection.

  14. Explaining preferences for home surroundings and locations

    Directory of Open Access Journals (Sweden)

    Hans Skifter Andersen

    2011-01-01

    Full Text Available This article is based on a survey carried out in Denmark that asked a random sample of the population about their preferences for home surroundings and locations. It shows that the characteristics of social surroundings are very important and can be divided into three independent dimensions: avoiding social nuisances, preferring social homogeneity and living close to one’s social network and place of origin. The study shows that most people have many detailed preferences, whereas some have very few. This confirms an earlier theory that some people are very connected to certain places with given characteristics and thus do not have priorities regarding home surroundings and locations. For others, mostly young people and singles, home is just a place to sleep and relax, whereas life is lived elsewhere. For this group, there are only preferences for location and there are few specific preferences for surroundings.

  15. Surround-Masking Affects Visual Estimation Ability

    Science.gov (United States)

    Jastrzebski, Nicola R.; Hugrass, Laila E.; Crewther, Sheila G.; Crewther, David P.

    2017-01-01

    Visual estimation of numerosity involves the discrimination of magnitude between two distributions or perceptual sets that vary in number of elements. How performance on such estimation depends on peripheral sensory stimulation is unclear, even in typically developing adults. Here, we varied the central and surround contrast of stimuli that comprised a visual estimation task in order to determine whether mechanisms involved with the removal of unessential visual input functionally contributes toward number acuity. The visual estimation judgments of typically developed adults were significantly impaired for high but not low contrast surround stimulus conditions. The center and surround contrasts of the stimuli also differentially affected the accuracy of numerosity estimation depending on whether fewer or more dots were presented. Remarkably, observers demonstrated the highest mean percentage accuracy across stimulus conditions in the discrimination of more elements when the surround contrast was low and the background luminance of the central region containing the elements was dark (black center). Conversely, accuracy was severely impaired during the discrimination of fewer elements when the surround contrast was high and the background luminance of the central region was mid level (gray center). These findings suggest that estimation ability is functionally related to the quality of low-order filtration of unessential visual information. These surround masking results may help understanding of the poor visual estimation ability commonly observed in developmental dyscalculia.

  16. Clinical expression in heterozygotes of two frequent low density lipoprotein receptor gene mutations in the French Canadian population

    Energy Technology Data Exchange (ETDEWEB)

    Roy, M.; Minnich, A.; Davignon, J. [Clinical Research Institute of Montreal, Quebec (Canada)

    1994-09-01

    Five mutations in the low density lipoprotein (LDL) receptor (R) gene account for approximately 83% of cases of heterozygous familial hypercholesterolemia (hFH) in French Canadians in Quebec. The two most prevalent mutations are a >10kb deletion (10kb) of the promoter region resulting in a null allele (60.5% of cases) and a trp{sub 66}{r_arrow}gly missense mutation in exon 3 (ex3) resulting in a binding-defective R (11.7%). We have compared the phenotypic expression of these two mutations in 427 10kb hFH patients, 239 women (age 37.5 {plus_minus} 14.2 years) and 188 men (33.7 {plus_minus} 11.7) and 69 ex3 hFH patients, 42 women (40.6 {plus_minus} 14.3) and 27 men (36.8 {plus_minus}13.2). All data were analyzed separately for women and men. Tendon xanthomas were more prevalent in the 10kb (women 63%, men 68%) than in the ex3 patients (48%,48%). Total and LDL cholesterol were significantly higher in the 10kb patients with than without xanthomas but similar in ex3 patients. There were no significant differences in plasma lipoprotein concentrations between 10kb and ex3 patients with coronary artery disease (CAD) or between 10kb and ex3 patients without CAD. Among men with CAD, those with 10kb were significantly younger than those with ex3 (39.6 {plus_minus} 9.8, n=93 and 46.4 {plus_minus} 7.0, n=9, respectively). In both sexes, high plasma lipoprotein concentrations conferred an increased risk of CAD in 10kb but not in ex3 patients. Thus, as in homozygotes (previous study), the >10kb deletion is associated with more severe expression of FH than is the exon 3 mutation, although the plasma lipoprotein concentrations are not significantly different between the 10kb and ex3 heterozygotes. Since in homozygotes plasma cholesterol levels in 10kb are 60% higher than in ex3 patients, these observations suggest that the expression of the normal LDL-R allele compensates for the lack of a second allele in 10kb heterozygotes.

  17. Genetic analysis identifies DDR2 as a novel gene affecting bone mineral density and osteoporotic fractures in Chinese population.

    Directory of Open Access Journals (Sweden)

    Yan Guo

    Full Text Available DDR2 gene, playing an essential role in regulating osteoblast differentiation and chondrocyte maturation, may influence bone mineral density (BMD and osteoporosis, but the genetic variations actually leading to the association remain to be elucidated. Therefore, the aim of this study was to investigate whether the genetic variants in DDR2 are associated with BMD and fracture risk. This study was performed in three samples from two ethnicities, including 1,300 Chinese Han subjects, 700 Chinese Han subjects (350 with osteoporotic hip fractures and 350 healthy controls and 2,286 US white subjects. Twenty-eight SNPs in DDR2 were genotyped and tested for associations with hip BMD and fractures. We identified 3 SNPs in DDR2 significantly associated with hip BMD in the Chinese population after multiple testing adjustments, which were rs7521233 (P = 1.06×10-4, β: -0.018 for allele C, rs7553831 (P = 1.30×10-4, β: -0.018 for allele T, and rs6697469 (P = 1.59×10-3, β: -0.015 for allele C, separately. These three SNPs were in high linkage disequilibrium. Haplotype analyses detected two significantly associated haplotypes, including one haplotype in block 2 (P = 9.54×10-4, β: -0.016 where these three SNPs located. SNP rs6697469 was also associated with hip fractures (P = 0.043, OR: 1.42 in the Chinese population. The effect on fracture risk was consistent with its association with lower BMD. However, in the white population, we didn't observe significant associations with hip BMD. eQTL analyses revealed that SNPs associated with BMD also affected DDR2 mRNA expression levels in Chinese. Our findings, together with the prior biological evidence, suggest that DDR2 could be a new candidate for osteoporosis in Chinese population. Our results also reveal an ethnic difference, which highlights the need for further genetic studies in each ethnic group.

  18. Genetic analysis identifies DDR2 as a novel gene affecting bone mineral density and osteoporotic fractures in Chinese population.

    Science.gov (United States)

    Guo, Yan; Yang, Tie-Lin; Dong, Shan-Shan; Yan, Han; Hao, Ruo-Han; Chen, Xiao-Feng; Chen, Jia-Bin; Tian, Qing; Li, Jian; Shen, Hui; Deng, Hong-Wen

    2015-01-01

    DDR2 gene, playing an essential role in regulating osteoblast differentiation and chondrocyte maturation, may influence bone mineral density (BMD) and osteoporosis, but the genetic variations actually leading to the association remain to be elucidated. Therefore, the aim of this study was to investigate whether the genetic variants in DDR2 are associated with BMD and fracture risk. This study was performed in three samples from two ethnicities, including 1,300 Chinese Han subjects, 700 Chinese Han subjects (350 with osteoporotic hip fractures and 350 healthy controls) and 2,286 US white subjects. Twenty-eight SNPs in DDR2 were genotyped and tested for associations with hip BMD and fractures. We identified 3 SNPs in DDR2 significantly associated with hip BMD in the Chinese population after multiple testing adjustments, which were rs7521233 (P = 1.06×10-4, β: -0.018 for allele C), rs7553831 (P = 1.30×10-4, β: -0.018 for allele T), and rs6697469 (P = 1.59×10-3, β: -0.015 for allele C), separately. These three SNPs were in high linkage disequilibrium. Haplotype analyses detected two significantly associated haplotypes, including one haplotype in block 2 (P = 9.54×10-4, β: -0.016) where these three SNPs located. SNP rs6697469 was also associated with hip fractures (P = 0.043, OR: 1.42) in the Chinese population. The effect on fracture risk was consistent with its association with lower BMD. However, in the white population, we didn't observe significant associations with hip BMD. eQTL analyses revealed that SNPs associated with BMD also affected DDR2 mRNA expression levels in Chinese. Our findings, together with the prior biological evidence, suggest that DDR2 could be a new candidate for osteoporosis in Chinese population. Our results also reveal an ethnic difference, which highlights the need for further genetic studies in each ethnic group.

  19. Effects of charge density and hydrophobicity of poly(amido amine)s for non-viral gene delivery

    NARCIS (Netherlands)

    Piest, Martin; Engbersen, Johan F.J.

    2010-01-01

    High cationic charge densities in polymeric vectors result in tight DNA condensation, leading to small highly positively charged polyplexes which show generally high cellular uptake in vitro. However, high cationic charge densities also introduce membrane-disruptive properties to the polymers, there

  20. INTERACTIONS OF THE INFRARED BUBBLE N4 WITH ITS SURROUNDINGS

    Energy Technology Data Exchange (ETDEWEB)

    Liu, Hong-Li; Li, Jin-Zeng; Yuan, Jing-Hua; Huang, Maohai; Huang, Ya-Fang; Zhang, Si-Ju [National Astronomical Observatories, Chinese Academy of Sciences, 20A Datun Road, Chaoyang District, Beijing 100012 (China); Wu, Yuefang [Department of Astronomy, Peking University, 100871 Beijing (China); Liu, Tie [Korea Astronomy and Space Science Institute 776, Daedeokdae-ro, Yuseong-gu, Daejeon, 305-348 (Korea, Republic of); Dubner, G.; Paron, S.; Ortega, M. E. [1Instituto de Astronomía y Física del Espacio (IAFE, CONICET-UBA), CC 67, Suc. 28, 1428 Buenos Aires (Argentina); Molinari, Sergio [Istituto di Astrofisica e Planetologia Spaziali—IAPS, Istituto Nazionale di Astrofisica—INAF, via Fosso del Cavaliere 100, I-00133 Roma (Italy); Zavagno, Annie; Samal, Manash R., E-mail: hlliu@nao.cas.cn [Aix Marseille Universit, CNRS, LAM (Laboratoire d’Astrophysique de Marseille) UMR 7326, F-13388, Marseille (France)

    2016-02-10

    The physical mechanisms that induce the transformation of a certain mass of gas in new stars are far from being well understood. Infrared bubbles associated with H ii regions have been considered to be good samples for investigating triggered star formation. In this paper we report on the investigation of the dust properties of the infrared bubble N4 around the H ii region G11.898+0.747, analyzing its interaction with its surroundings and star formation histories therein, with the aim of determining the possibility of star formation triggered by the expansion of the bubble. Using Herschel PACS and SPIRE images with a wide wavelength coverage, we reveal the dust properties over the entire bubble. Meanwhile, we are able to identify six dust clumps surrounding the bubble, with a mean size of 0.50 pc, temperature of about 22 K, mean column density of 1.7 × 10{sup 22} cm{sup −2}, mean volume density of about 4.4 × 10{sup 4} cm{sup −3}, and a mean mass of 320 M{sub ⊙}. In addition, from PAH emission seen at 8 μm, free–free emission detected at 20 cm, and a probability density function in special regions, we could identify clear signatures of the influence of the H ii region on the surroundings. There are hints of star formation, though further investigation is required to demonstrate that N4 is the triggering source.

  1. Human synaptic plasticity gene expression profile and dendritic spine density changes in HIV-infected human CNS cells: role in HIV-associated neurocognitive disorders (HAND.

    Directory of Open Access Journals (Sweden)

    Venkata Subba Rao Atluri

    Full Text Available HIV-associated neurocognitive disorders (HAND is characterized by development of cognitive, behavioral and motor abnormalities, and occur in approximately 50% of HIV infected individuals. Our current understanding of HAND emanates mainly from HIV-1 subtype B (clade B, which is prevalent in USA and Western countries. However very little information is available on neuropathogenesis of HIV-1 subtype C (clade C that exists in Sub-Saharan Africa and Asia. Therefore, studies to identify specific neuropathogenic mechanisms associated with HAND are worth pursuing to dissect the mechanisms underlying this modulation and to prevent HAND particularly in clade B infection. In this study, we have investigated 84 key human synaptic plasticity genes differential expression profile in clade B and clade C infected primary human astrocytes by using RT(2 Profile PCR Array human Synaptic Plasticity kit. Among these, 31 and 21 synaptic genes were significantly (≥3 fold down-regulated and 5 genes were significantly (≥3 fold up-regulated in clade B and clade C infected cells, respectively compared to the uninfected control astrocytes. In flow-cytometry analysis, down-regulation of postsynaptic density and dendrite spine morphology regulatory proteins (ARC, NMDAR1 and GRM1 was confirmed in both clade B and C infected primary human astrocytes and SK-N-MC neuroblastoma cells. Further, spine density and dendrite morphology changes by confocal microscopic analysis indicates significantly decreased spine density, loss of spines and decreased dendrite diameter, total dendrite and spine area in clade B infected SK-N-MC neuroblastoma cells compared to uninfected and clade C infected cells. We have also observed that, in clade B infected astrocytes, induction of apoptosis was significantly higher than in the clade C infected astrocytes. In conclusion, this study suggests that down-regulation of synaptic plasticity genes, decreased dendritic spine density and induction of

  2. Association Between Polymorphisms of VDR, COL1A1, and LCT genes and bone mineral density in Belarusian women with severe postmenopausal osteoporosis.

    Science.gov (United States)

    Marozik, Pavel; Mosse, Irma; Alekna, Vidmantas; Rudenko, Ema; Tamulaitienė, Marija; Ramanau, Heorhi; Strazdienė, Vaidilė; Samokhovec, Volha; Ameliyanovich, Maxim; Byshnev, Nikita; Gonchar, Alexander; Kundas, Liubov; Zhur, Krystsina

    2013-01-01

    BACKGROUND AND OBJECTIVE. Variation of osteoporosis in the population is the result of an interaction between the genotype and the environment, and the genetic causes of osteoporosis are being widely investigated. The aim of this study was to analyze the association between the polymorphisms of the vitamin D receptor (VDR), type I collagen (COL1A1), and lactase (LCT) genes and severe postmenopausal osteoporosis as well as bone mineral density (BMD). MATERIAL AND METHODS. A total of 54 women with severe postmenopausal osteoporosis and 77 controls (mean age, 58.3 years [SD, 6.2] and 56.7 years [SD, 7.42], respectively) were included into the study. The subjects were recruited at the City Center for Osteoporosis Prevention (Minsk, Belarus). Dual-energy x-ray absorptiometry was used to measure bone mineral density at the lumbar spine and the femoral neck. Severe osteoporosis was diagnosed in the women with the clinical diagnosis of postmenopausal osteoporosis and at least 1 fragility fracture. The control group included women without osteoporosis. Polymorphic sites in osteoporosis predisposition genes (ApaI, BsmI, TaqI, and Cdx2 of the VDR gene, G2046T of the COL1A1 gene, and T-13910C of the LCT gene) were determined using the polymerase chain reaction on the deoxyribonucleic acid isolated from dried bloodspots. RESULTS. The data showed that the ApaI and BsmI polymorphisms of the VDR gene and T- 13910C of the LCT gene were associated with severe postmenopausal osteoporosis in the analyzed Belarusian women (Posteoporosis in our sample of the Belarusian women.

  3. Stocking density affects the growth performance and metabolism of Amur sturgeon by regulating expression of genes in the GH/IGF axis

    Science.gov (United States)

    Ren, Yuanyuan; Wen, Haishen; Li, Yun; Li, Jifang

    2017-07-01

    The effects of stocking density on the growth and metabolism of Amur sturgeon were assessed. Amur sturgeon were grown for 70 days at three different stocking densities (low stocking density, LSD: 5.5 kg/m3; medium stocking density, MSD: 8.0 kg/m3; and high stocking density, HSD: 11.0 kg/m3), and the biometric index, muscle composition, and serum biochemical parameters were evaluated. In addition, pituitary, liver, and muscle samples were collected for gene cloning and expression analyses. After 70 days of growth, the fish maintained at HSD had significantly lower final body weight and specific growth rate, and a higher feed conversion ratio than those of the fish in the MSD and LSD groups. The HSD group had the lowest lipid and protein concentrations in serum and muscle. The serum cortisol concentration increased significantly in the HSD group, indicating that the stress-response system was activated in these fish. There was no change in the concentration of serum insulin-like growth factor 2 (IGF-2), while the concentrations of serum growth hormone (GH) and insulin-like growth factor 1 (IGF-1) decreased in the HSD group. The full-length cDNAs of GH and IGF-2 genes (995-bp and 1 207-bp long, respectively), were cloned and analyzed. In the HSD group, the expressions of GH in the pituitary and growth hormone receptor (GHR) and IGF-1 in the liver were down-regulated at the end of the 70-day experiment. In the HSD group, the transcript level of IGF-2 significantly decreased in the liver, but did not change in muscle. Overall, our results indicated that a HSD negatively affects the growth performance and leads to changes in lipid and protein metabolism in Amur sturgeon. The down-regulated expression of genes related to the GH/IGF axis may be responsible for the poor growth performance of Amur sturgeon under crowding stress.

  4. Relation of androgen receptor gene polymorphism to bone mineral density and fracture risk in early postmenopausal women during a 5-year randomized hormone replacement therapy trial.

    Science.gov (United States)

    Salmén, Timo; Heikkinen, Anna-Mari; Mahonen, Anitta; Kröger, Heikki; Komulainen, Marja; Pallonen, Heli; Saarikoski, Seppo; Honkanen, Risto; Mäenpää, Pekka H

    2003-02-01

    In women, the influence of androgens on bone health is not clear. It has been suggested that the androgen receptor (AR) genotype is associated with bone mineral density and serum androgen levels in pre- and perimenopausal women, but the association between AR genotype, bone mineral density, and fracture risk has not been studied in postmenopausal women. Therefore, we studied whether AR polymorphism affects bone mineral density, bone mineral density change, or fracture risk in a 5-year randomized hormone replacement therapy (HRT) trial on 331 early postmenopausal women (mean baseline age, 52.7 +/- 2.3 years). The participants consisted of two treatment groups: the HRT group (n = 151) received a sequential combination of 2 mg estradiol valerate and 1 mg cyproterone acetate with or without vitamin D3, 100-300 IU + 93 mg calcium as lactate/day, and the non-HRT group (n = 180) received 93 mg calcium alone or in combination with vitamin D3, 100-300 IU/day for 5 years. Bone mineral density was measured from lumbar spine and proximal femur (DXA) before and after the 5-year trial. All new symptomatic, radiographically defined fractures were recorded during the follow-up. The length of CAG repeat in exon 1 of AR gene was evaluated after polymerase chain reaction (PCR) amplification. The subjects were divided into three repeat groups according to AR alleles. None of the baseline characteristics were associated with AR gene polymorphism and HRT treatment. The polymorphism did not influence the calculated annual changes of lumbar or femoral neck bone mineral density during the 5-year follow-up in the HRT (p = 0.926 and 0.146, respectively) or non-HRT (p = 0.818 and 0.917, respectively) groups. In all, 28 women sustained 33 fractures during the follow-up. Thus, the numbers of fractures were limited. The AR repeat length variation was not significantly associated with fracture risk in the HRT or non-HRT groups (p = 0.632 and 0.459, respectively; Cox proportional hazards model

  5. The Gustin (CA6) Gene Polymorphism, rs2274333 (A/G), as a Mechanistic Link between PROP Tasting and Fungiform Taste Papilla Density and Maintenance

    Science.gov (United States)

    Melis, Melania; Atzori, Elena; Cabras, Stefano; Zonza, Andrea; Calò, Carla; Muroni, Patrizia; Nieddu, Mariella; Padiglia, Alessandra; Sogos, Valeria; Tepper, Beverly J.; Tomassini Barbarossa, Iole

    2013-01-01

    Taste sensitivity to PROP varies greatly among individuals and is associated with polymorphisms in the bitter receptor gene TAS2R38, and with differences in fungiform papilla density on the anterior tongue surface. Recently we showed that the PROP non-taster phenotype is strongly associated with the G variant of polymorphism rs2274333 (A/G) of the gene that controls the salivary trophic factor, gustin. The aims of this study were 1) to investigate the role of gustin gene polymorphism rs2274333 (A/G), in PROP sensitivity and fungiform papilla density and morphology, and 2) to investigate the effect of this gustin gene polymorphism on cell proliferation and metabolic activity. Sixty-four subjects were genotyped for both genes by PCR techniques, their PROP sensitivity was assessed by scaling and threshold methods, and their fungiform papilla density, diameter and morphology were determined. In vitro experiments examined cell proliferation and metabolic activity, following treatment with saliva of individuals with and without the gustin gene mutation, and with isolated protein, in the two iso-forms. Gustin and TAS2R38 genotypes were associated with PROP threshold (p=0.0001 and p=0.0042), but bitterness intensity was mostly determined by TAS2R38 genotypes (p<0.000001). Fungiform papillae densities were associated with both genotypes (p<0.014) (with a stronger effect for gustin; p=0.0006), but papilla morphology was a function of gustin alone (p<0.0012). Treatment of isolated cells with saliva from individuals with the AA form of gustin or direct application of the active iso-form of gustin protein increased cell proliferation and metabolic activity (p<0.0135). These novel findings suggest that the rs2274333 polymorphism of the gustin gene affects PROP sensitivity by acting on fungiform papilla development and maintenance, and could provide the first mechanistic explanation for why PROP super-tasters are more responsive to a broad range of oral stimuli. PMID:24040192

  6. Uncovering genes and ploidy involved in the high diversity in root hair density, length and response to local scarce phosphate in Arabidopsis thaliana.

    Directory of Open Access Journals (Sweden)

    Markus G Stetter

    Full Text Available Plant root hairs increase the root surface to enhance the uptake of sparingly soluble and immobile nutrients, such as the essential nutrient phosphorus, from the soil. Here, root hair traits and the response to scarce local phosphorus concentration were studied in 166 accessions of Arabidopsis thaliana using split plates. Root hair density and length were correlated, but highly variable among accessions. Surprisingly, the well-known increase in root hair density under low phosphorus was mostly restricted to genotypes that had less and shorter root hairs under P sufficient conditions. By contrast, several accessions with dense and long root hairs even had lower hair density or shorter hairs in local scarce phosphorus. Furthermore, accessions with whole-genome duplications developed more dense but phosphorus-insensitive root hairs. The impact of genome duplication on root hair density was confirmed by comparing tetraploid accessions with their diploid ancestors. Genome-wide association mapping identified candidate genes potentially involved in root hair responses tp scarce local phosphate. Knock-out mutants in identified candidate genes (CYR1, At1g32360 and RLP48 were isolated and differences in root hair traits in the mutants were confirmed. The large diversity in root hair traits among accessions and the diverse response when local phosphorus is scarce is a rich resource for further functional analyses.

  7. Ubiquinol-induced gene expression signatures are translated into altered parameters of erythropoiesis and reduced low density lipoprotein cholesterol levels in humans.

    Science.gov (United States)

    Schmelzer, Constance; Niklowitz, Petra; Okun, Jürgen G; Haas, Dorothea; Menke, Thomas; Döring, Frank

    2011-01-01

    Studies in vitro and in mice indicate a role for Coenzyme Q(10) (CoQ(10) ) in gene expression. To determine this function in relationship to physiological readouts, a 2-week supplementation study with the reduced form of CoQ(10) (ubiquinol, Q(10) H(2) , 150 mg/d) was performed in 53 healthy males. Mean CoQ(10) plasma levels increased 4.8-fold after supplementation. Transcriptomic and bioinformatic approaches identified a gene-gene interaction network in CD14-positive monocytes, which functions in inflammation, cell differentiation, and peroxisome proliferator-activated receptor-signaling. These Q(10) H(2) -induced gene expression signatures were also described previously in liver tissues of SAMP1 mice. Biochemical and NMR-based analyses showed a reduction of low density lipoprotein (LDL) cholesterol plasma levels after Q(10) H(2) supplementation. This effect was especially pronounced in atherogenic small dense LDL particles (19-21 nm, 1.045 g/L). In agreement with gene expression signatures, Q(10) H(2) reduces the number of erythrocytes but increases the concentration of reticulocytes. In conclusion, Q(10) H(2) induces characteristic gene expression patterns, which are translated into reduced LDL cholesterol levels and altered parameters of erythropoiesis in humans. Copyright © 2011 Wiley Periodicals, Inc.

  8. Nodulation gene regulation and quorum sensing control density-dependent suppression and restriction of nodulation in the Bradyrhizobium japonicum-soybean symbiosis.

    Science.gov (United States)

    Jitacksorn, Siriluck; Sadowsky, Michael J

    2008-06-01

    The nodulation of Glycine max cv. Lambert and the nodulation-restricting plant introduction (PI) genotype PI 417566 by wild-type Bradyrhizobium japonicum USDA110 is regulated in a population-density-dependent manner. Nodulation on both plant genotypes was suppressed (inhibited) when plants received a high-density inoculum (10(9) cells/ml) of strain USDA110 grown in complex medium, and more nodules were produced on plants receiving a low-cell-density inoculum (10(5) cells/ml). Since cell-free supernatants from strain USDA110 grown to high cell density in complex medium decreased the expression of an nodY-lacZ fusion, this phenomenon was attributed to bradyoxetin-induced repression of nod gene expression. Inoculation of either the permissive soybean genotype (cv. Lambert) or PI 417566 with 10(9) cells/ml of the nodD2, nolA, nodW, and nwsB mutants of USDA110 enhanced nodulation (up to 24%) relative to that seen with inoculations done with 10(5) cells/ml of the mutants or the wild-type strain, indicating that these genes are involved in population-density-dependent nodulation of soybeans. In contrast, the number of nodules produced by an nodD1 mutant on either soybean genotype was less than those seen with the wild-type strain inoculated at a low inoculum density. The nodD2 mutant outcompeted B. japonicum strain USDA123 for nodulation of G. max cv. Lambert at a high or low inoculum density, and the results of root-tip-marking and time-to-nodulate studies indicated that the nolA and nodD2 mutants nodulated this soybean genotype faster than wild-type USDA110. Taken together, the results from these studies indicate that the nodD2 mutant of B. japonicum may be useful to enhance soybean nodulation at high inoculum densities and that NodD2 is a key repressor influencing host-controlled restriction of nodulation, density-dependent suppression of nodulation, perception of bradyoxetin, and competitiveness in the soybean-B. japonicum symbiosis.

  9. Effect of Selenium-Enriched Agaricus bisporus (Higher Basidiomycetes) Extracts, Obtained by Pressurized Water Extraction, on the Expression of Cholesterol Homeostasis Related Genes by Low-Density Array.

    Science.gov (United States)

    Gil-Ramírez, Alicia; Soler-Rivas, Cristina; Rodriguez-Casado, Arantxa; Ruiz-Rodríguez, Alejandro; Reglero, Guillermo; Marín, Francisco Ramón

    2015-01-01

    Culinary-medicinal mushrooms are able to lower blood cholesterol levels in animal models by different mechanisms. They might impair the endogenous cholesterol synthesis and exogenous cholesterol absorption during digestion. Mushroom extracts, obtained using pressurized water extractions (PWE) from Agaricus bisporus basidiomes, supplemented or not supplemented with selenium, were applied to HepG2 cell cultures to study the expression of 19 genes related to cholesterol homeostasis by low-density arrays (LDA). Only the PWE fractions obtained at 25°C showed 3-hydroxy-3-methylglutaryl-CoA reductase (HMGCR) inhibitory activity. Besides the enzymatic inhibition, PWE extracts may downregulate some of the key genes involved in the cholesterol homeostasis, such as the squalene synthase gene (FDFT1), since its mRNA expression falls by one third of its initial value. In summary, A. bisporus extracts may also modulate biological cholesterol levels by molecular mechanisms further than the enzymatic way previously reported.

  10. Smart Chips for Smart Surroundings - 4S

    NARCIS (Netherlands)

    Schuler, Eberhard; König, Ralf; Becker, Jürgen; Rauwerda, Gerard; Burgwal, van de Marcel; Smit, Gerard J.M.; Cardoso, João M.P.; Hübner, Michael

    2011-01-01

    The overall mission of the 4S project (Smart Chips for Smart Surroundings) was to define and develop efficient flexible, reconfigurable core building blocks, including the supporting tools, for future Ambient System Devices. Reconfigurability offers the needed flexibility and adaptability, it provid

  11. Familial hypercholesterolemia in St-Petersburg: the known and novel mutations found in the low density lipoprotein receptor gene in Russia.

    Science.gov (United States)

    Zakharova, Faina M; Damgaard, Dorte; Mandelshtam, Michail Y; Golubkov, Valery I; Nissen, Peter H; Nilsen, Gitte G; Stenderup, Anette; Lipovetsky, Boris M; Konstantinov, Vladimir O; Denisenko, Alexander D; Vasilyev, Vadim B; Faergeman, Ole

    2005-02-08

    Familial hypercholesterolemia is a human monogenic disease caused by population-specific mutations in the low density lipoprotein (LDL) receptor gene. Despite thirteen different mutations of the LDL receptor gene were reported from Russia prior to 2003, the whole spectrum of disease-causing gene alterations in this country is poorly known and requires further investigation provided by the current study. Forty-five patients with clinical diagnosis of FH were tested for the apolipoprotein B (apoB) mutation R3500Q by restriction fragment length analysis. After exclusion of R3500Q mutation high-sensitive fluorescent single-strand conformation polymorphism (SSCP) analysis and automatic DNA sequencing were used to search for mutations in the LDL receptor gene. We found twenty one rare sequence variations of the LDL receptor gene. Nineteen were probably pathogenic mutations, and two (P518P, T705I) were considered as neutral ones. Among the mutations likely to be pathogenic, eight were novel (c.670-671insG, C249X, c.936-940del5, c.1291-1331del41, W422X, c.1855-1856insA, D601N, C646S), and eleven (Q12X, IVS3+1G>A, c.651-653del3, E207X, c.925-931del7, C308Y, L380H, c.1302delG, IVS9+1G>A, V776M, V806I) have already been described in other populations. None of the patients had the R3500Q mutation in the apoB gene. Nineteen pathogenic mutations in the LDL receptor gene in 23 probands were identified. Two mutations c.925-931del7 and L380H are shared by St.-Petersburg population with neighbouring Finland and several other mutations with Norway, Sweden or Denmark, i.e. countries from the Baltic Sea region. Only four mutations (c.313+1G>A, c.651-653del3, C308Y and W422X) were recurrent as all those were found in two unrelated families. By this study the number of known mutations in the LDL receptor gene in St.-Petersburg area was increased nearly threefold. Analysis of all 34 low density lipoprotein receptor gene mutations found in St.-Petersburg argues against strong founder

  12. Familial hypercholesterolemia in St.-Petersburg: the known and novel mutations found in the low density lipoprotein receptor gene in Russia

    Directory of Open Access Journals (Sweden)

    Konstantinov Vladimir O

    2005-02-01

    Full Text Available Abstract Background Familial hypercholesterolemia is a human monogenic disease caused by population-specific mutations in the low density lipoprotein (LDL receptor gene. Despite thirteen different mutations of the LDL receptor gene were reported from Russia prior to 2003, the whole spectrum of disease-causing gene alterations in this country is poorly known and requires further investigation provided by the current study. Methods Forty-five patients with clinical diagnosis of FH were tested for the apolipoprotein B (apoB mutation R3500Q by restriction fragment length analysis. After exclusion of R3500Q mutation high-sensitive fluorescent single-strand conformation polymorphism (SSCP analysis and automatic DNA sequencing were used to search for mutations in the LDL receptor gene. Results We found twenty one rare sequence variations of the LDL receptor gene. Nineteen were probably pathogenic mutations, and two (P518P, T705I were considered as neutral ones. Among the mutations likely to be pathogenic, eight were novel (c.670-671insG, C249X, c.936-940del5, c.1291-1331del41, W422X, c.1855-1856insA, D601N, C646S, and eleven (Q12X, IVS3+1G>A, c.651-653del3, E207X, c.925-931del7, C308Y, L380H, c.1302delG, IVS9+1G>A, V776M, V806I have already been described in other populations. None of the patients had the R3500Q mutation in the apoB gene. Conclusions Nineteen pathogenic mutations in the LDL receptor gene in 23 probands were identified. Two mutations c.925-931del7 and L380H are shared by St.-Petersburg population with neighbouring Finland and several other mutations with Norway, Sweden or Denmark, i.e. countries from the Baltic Sea region. Only four mutations (c.313+1G>A, c.651-653del3, C308Y and W422X were recurrent as all those were found in two unrelated families. By this study the number of known mutations in the LDL receptor gene in St.-Petersburg area was increased nearly threefold. Analysis of all 34 low density lipoprotein receptor gene

  13. Interactions of the Infrared bubble N4 with the surroundings

    CERN Document Server

    Liu, Hong-Li; Wu, Yuefang; Yuan, Jing-Hua; Liu, Tie; Dubner, G; Paron, S; Ortega, M E; Molinari, Sergio; Huang, Maohai; Zavagno, Annie; Samal, Manash R; Huang, Ya-Fang; Zhang, Si-Ju

    2016-01-01

    The physical mechanisms that induce the transformation of a certain mass of gas in new stars are far from being well understood. Infrared bubbles associated with HII regions have been considered to be a good sample to investigate triggered star formation. In this paper we report on the investigation of the dust properties of the infrared bubble N4 around the HII region G11.898+0.747, analyzing its interaction with the surroundings and star formation histories therein, aiming at determining the possibility of star formation triggered by the expansion of the bubble. Using Herschel PACS and SPIRE images with a wide wavelength coverage, we reveal the dust properties over the entire bubble. Meanwhile, we are able to identify six dust clumps surrounding the bubble, with a mean size of 0.50 pc, temperature of about 22 K, mean column density of 1.7 $\\times10^{22}$ cm$^{-2}$, mean volume density of about 4.4 $\\times10^{4}$ cm$^{-3}$, and a mean mass of 320 $M_{\\odot}$. In addition, from PAH emission seen at 8 $\\mu$m, ...

  14. Cross-species hybridisation of human and bovine orthologous genes on high density cDNA microarrays

    OpenAIRE

    2004-01-01

    Abstract Background Cross-species gene-expression comparison is a powerful tool for the discovery of evolutionarily conserved mechanisms and pathways of expression control. The usefulness of cDNA microarrays in this context is that broad areas of homology are compared and hybridization probes are sufficiently large that small inter-species differences in nucleotide sequence would not affect the analytical results. This comparative genomics approach would allow a common set of genes within a s...

  15. Supplementing High-Density SNP Microarrays for Additional Coverage of Disease-Related Genes: Addiction as a Paradigm

    Energy Technology Data Exchange (ETDEWEB)

    SacconePhD, Scott F [Washington University, St. Louis; Chesler, Elissa J [ORNL; Bierut, Laura J [Washington University, St. Louis; Kalivas, Peter J [Medical College of South Carolina, Charleston; Lerman, Caryn [University of Pennsylvania; Saccone, Nancy L [Washington University, St. Louis; Uhl, George R [Johns Hopkins University; Li, Chuan-Yun [Peking University; Philip, Vivek M [ORNL; Edenberg, Howard [Indiana University; Sherry, Steven [National Center for Biotechnology Information; Feolo, Michael [National Center for Biotechnology Information; Moyzis, Robert K [Johns Hopkins University; Rutter, Joni L [National Institute of Drug Abuse

    2009-01-01

    Commercial SNP microarrays now provide comprehensive and affordable coverage of the human genome. However, some diseases have biologically relevant genomic regions that may require additional coverage. Addiction, for example, is thought to be influenced by complex interactions among many relevant genes and pathways. We have assembled a list of 486 biologically relevant genes nominated by a panel of experts on addiction. We then added 424 genes that showed evidence of association with addiction phenotypes through mouse QTL mappings and gene co-expression analysis. We demonstrate that there are a substantial number of SNPs in these genes that are not well represented by commercial SNP platforms. We address this problem by introducing a publicly available SNP database for addiction. The database is annotated using numeric prioritization scores indicating the extent of biological relevance. The scores incorporate a number of factors such as SNP/gene functional properties (including synonymy and promoter regions), data from mouse systems genetics and measures of human/mouse evolutionary conservation. We then used HapMap genotyping data to determine if a SNP is tagged by a commercial microarray through linkage disequilibrium. This combination of biological prioritization scores and LD tagging annotation will enable addiction researchers to supplement commercial SNP microarrays to ensure comprehensive coverage of biologically relevant regions.

  16. A Biomimic Reconstituted High-Density-Lipoprotein-Based Drug and p53 Gene Co-delivery System for Effective Antiangiogenesis Therapy of Bladder Cancer

    Science.gov (United States)

    Ouyang, Qiaohong; Duan, Zhongxiang; Jiao, Guangli; Lei, Jixiao

    2015-07-01

    A biomimic reconstituted high-density-lipoprotein-based drug and p53 gene co-delivery system (rHDL/CD-PEI/p53 complexes) was fabricated as a targeted co-delivery nanovector of drug and gene for potential bladder cancer therapy. Here, CD-PEI was utilized to effectively condense the p53 plasmid, to incorporate the plasmid into rHDL, and to act as an antitumor drug to suppress tumor angiogenesis. The rHDL/CD-PEI/p53 complexes exhibited desirable and homogenous particle size, neutral surface charge, and low cytotoxicity in vitro. The results of confocal laser scanning microscopy and flow cytometry confirmed that SR-BI-targeted function induced specific cytoplasmic delivery and high gene transfection efficiency in MBT-2 murine bladder cells. In addition, rHDL/CD-PEI/p53 complexes co-delivering CD and p53 gene achieved synergistic angiogenesis suppression by more effectively downregulating the expression of vascular endothelial growth factor (VEGF) messenger RNA (mRNA) and protein via different pathways in vitro. In vivo investigation on C3H/He mice bearing MBT-2 tumor xenografts revealed that rHDL/CD-PEI/p53 complexes possessed strong antitumor activity. These findings suggested that rHDL/CD-PEI/p53 complexes could be an ideal tumor-targeting system for simultaneous transfer of drug and gene, which might be a new promising strategy for effective bladder cancer therapy.

  17. Imaging brain gene expression profiles by antipsychotics: region-specific action of amisulpride on postsynaptic density transcripts compared to haloperidol.

    Science.gov (United States)

    de Bartolomeis, Andrea; Marmo, Federica; Buonaguro, Elisabetta Filomena; Rossi, Rodolfo; Tomasetti, Carmine; Iasevoli, Felice

    2013-11-01

    Induction of motor disorders is considered the clinical landmark differentiating typical from atypical antipsychotics, and has been mainly correlated to dopamine D2 receptors blockade in striatum. This view is challenged by benzamides, such as amisulpride, which display low liability for motor side effects despite being D2/D3 receptors high-affinity blocking agents. These effects have been explained with the prominent presynaptic action of amisulpride or with the fast dissociation at D2 receptors, but there is scarce information on the effects of amisulpride on postsynaptic signaling. We carried out a molecular imaging study of gene expression after acute administration of haloperidol (0.8 mg/kg), amisulpride (10 or 35 mg/kg), or vehicle, focusing on postsynaptic genes that are key regulators of synaptic plasticity, such as Arc, c-fos, Zif-268, Norbin, Homer. The last one has been associated to schizophrenia both in clinical and preclinical studies, and is differentially induced by antipsychotics with different D2 receptors affinity. Topography of gene expression revealed that amisulpride, unlike haloperidol, triggers transcripts expression peak in medial striatal regions. Correlation analysis of gene expression revealed a prevalent correlated gene induction within motor corticostriatal regions by haloperidol and a more balanced gene induction within limbic and motor corticostriatal regions by amisulpride. Despite the selective dopaminergic profile of both compounds, our results demonstrated a differential modulation of postsynaptic molecules by amisulpride and haloperidol, the former impacting preferentially medial regions of striatum whereas the latter inducing strong gene expression in lateral regions. Thus, we provided a possible molecular profile of amisulpride, putatively explaining its "atypical atypicality".

  18. Genome-wide association study using extreme truncate selection identifies novel genes affecting bone mineral density and fracture risk

    NARCIS (Netherlands)

    E.L. Duncan (Emma); P. Danoy (Patrick); J.P. Kemp (John); P.J. Leo (Paul); E. McCloskey (Eugene); G.C. Nicholson (Geoffrey); R. Eastell (Richard); R.L. Prince (Richard); J.A. Eisman (John); G. Jones (Graeme); P.N. Sambrook (Philip); I.R. Reid (Ian); E.M. Dennison (Elaine); J. Wark (John); J.B. Richards (Brent); A.G. Uitterlinden (André); T.D. Spector (Timothy); C. Esapa (Chris); R.D. Cox (Roger); S.D.M. Brown (Steve); R.V. Thakker (Rajesh); K.A. Addison (Kathryn); L.A. Bradbury (Linda); J.R. Center (Jacqueline); C. Cooper (Cyrus); C. Cremin (Catherine); K. Estrada Gil (Karol); D. Felsenberg (Dieter); C.-C. Glüer (Claus-); J. Hadler (Johanna); M.J. Henry (Margaret); A. Hofman (Albert); M.A. Kotowicz (Mark); J. Makovey (Joanna); S.C. Nguyen (Sing); J.A. Pasco (Julie); K. Pryce (Karena); F. Rivadeneira Ramirez (Fernando); C. Roux (Christian); K. Stefansson (Kari); U. Styrkarsdottir (Unnur); G. Thorleifsson (Gudmar); R. Tichawangana (Rumbidzai); D.M. Evans (David)

    2011-01-01

    textabstractOsteoporotic fracture is a major cause of morbidity and mortality worldwide. Low bone mineral density (BMD) is a major predisposing factor to fracture and is known to be highly heritable. Site-, gender-, and age-specific genetic effects on BMD are thought to be significant, but have larg

  19. Two forward genetic screens for vein density mutants in sorghum converge on a cytochrome P450 gene in the brassinosteroid pathway.

    Science.gov (United States)

    Rizal, Govinda; Thakur, Vivek; Dionora, Jacqueline; Karki, Shanta; Wanchana, Samart; Acebron, Kelvin; Larazo, Nikki; Garcia, Richard; Mabilangan, Abigail; Montecillo, Florencia; Danila, Florence; Mogul, Reychelle; Pablico, Paquito; Leung, Hei; Langdale, Jane A; Sheehy, John; Kelly, Steven; Quick, William Paul

    2015-10-01

    The specification of vascular patterning in plants has interested plant biologists for many years. In the last decade a new context has emerged for this interest. Specifically, recent proposals to engineer C(4) traits into C(3) plants such as rice require an understanding of how the distinctive venation pattern in the leaves of C(4) plants is determined. High vein density with Kranz anatomy, whereby photosynthetic cells are arranged in encircling layers around vascular bundles, is one of the major traits that differentiate C(4) species from C(3) species. To identify genetic factors that specify C(4) leaf anatomy, we generated ethyl methanesulfonate- and γ-ray-mutagenized populations of the C(4) species sorghum (Sorghum bicolor), and screened for lines with reduced vein density. Two mutations were identified that conferred low vein density. Both mutations segregated in backcrossed F(2) populations as homozygous recessive alleles. Bulk segregant analysis using next-generation sequencing revealed that, in both cases, the mutant phenotype was associated with mutations in the CYP90D2 gene, which encodes an enzyme in the brassinosteroid biosynthesis pathway. Lack of complementation in allelism tests confirmed this result. These data indicate that the brassinosteroid pathway promotes high vein density in the sorghum leaf, and suggest that differences between C(4) and C(3) leaf anatomy may arise in part through differential activity of this pathway in the two leaf types.

  20. Vorinostat positively regulates synaptic plasticity genes expression and spine density in HIV infected neurons: role of nicotine in progression of HIV-associated neurocognitive disorder

    Science.gov (United States)

    2014-01-01

    Background HIV-associated neurocognitive disorder (HAND) is characterized by development of cognitive, behavioral and motor abnormalities, and occurs in approximately 50% of HIV infected individuals. In the United States, the prevalence of cigarette smoking ranges from 35-70% in HIV-infected individuals compared to 20% in general population. Cognitive impairment in heavy cigarette smokers has been well reported. However, the synergistic effects of nicotine and HIV infection and the underlying mechanisms in the development of HAND are unknown. Results In this study, we explored the role of nicotine in the progression of HAND using SK-N-MC, a neuronal cell line. SK-N-MC cells were infected with HIV-1 in the presence or absence of nicotine for 7 days. We observed significant increase in HIV infectivity in SK-N-MC treated with nicotine compared to untreated HIV-infected neuronal cells. HIV and nicotine synergize to significantly dysregulate the expression of synaptic plasticity genes and spine density; with a concomitant increase of HDAC2 levels in SK-N-MC cells. In addition, inhibition of HDAC2 up-regulation with the use of vorinostat resulted in HIV latency breakdown and recovery of synaptic plasticity genes expression and spine density in nicotine/HIV alone and in co-treated SK-N-MC cells. Furthermore, increased eIF2 alpha phosphorylation, which negatively regulates eukaryotic translational process, was observed in HIV alone and in co-treatment with nicotine compared to untreated control and nicotine alone treated SK-N-MC cells. Conclusions These results suggest that nicotine and HIV synergize to negatively regulate the synaptic plasticity gene expression and spine density and this may contribute to the increased risk of HAND in HIV infected smokers. Apart from disrupting latency, vorinostat may be a useful therapeutic to inhibit the negative regulatory effects on synaptic plasticity in HIV infected nicotine abusers. PMID:24886748

  1. Association of 5' estrogen receptor alpha gene polymorphisms with bone mineral density, vertebral bone area and fracture risk

    NARCIS (Netherlands)

    J.B.J. van Meurs (Joyce); A.G. Uitterlinden (André); H.A.P. Pols (Huib); A.E.A.M. Weel (Angelique); M. van de Klift (Marjolein); A.P. Bergink (Arjan); P.P. Arp (Pascal); Y. Fang (Yue); C.M. van Duijn (Cock); J.P.T.M. van Leeuwen (Hans); S.C.E. Schuit (Stephanie); A. Hofman (Albert)

    2003-01-01

    textabstractThis study investigates the influence of genetic variation of the estrogen receptor alpha (ESR1) gene locus on several bone parameters in 2042 individuals of The Rotterdam Study, a prospective population-based cohort study of elderly subjects. We analysed three polymorphic sites in the 5

  2. Identification of -SiC surrounded by relatable surrounding diamond medium using weak Raman surface phonons

    Indian Academy of Sciences (India)

    Mohan Kumar Kuntumalla; Harish Ojha; Vadali Venkata Satya Siva Srikanth

    2013-11-01

    It is difficult to detect -SiC using micro-Raman scattering, if it is surrounded by carbon medium. Here, -SiC is identified in the presence of a relatable surrounding diamond medium using subtle, but discernible Raman surface phonons. In this study, diamond/-SiC nanocomposite thin film system is considered in which nanosized -SiC crystallites are surrounded by a relatable nanodiamond medium that leads to the appearance of a weak Raman surface phonon band at about 855 cm-1. Change in the nature of the surrounding material structure and its volume content when relatable, will affect the resultant Raman response of -SiC phase as seen in the present case of diamond/-SiC nanocomposite thin films.

  3. Analysis of immune system gene expression in small rheumatoid arthritis biopsies using a combination of subtractive hybridization and high-density cDNA arrays.

    Science.gov (United States)

    Zanders, E D; Goulden, M G; Kennedy, T C; Kempsell, K E

    2000-01-13

    Subtractive hybridization of cDNAs generated from synovial RNA which had been isolated from patients with rheumatoid arthritis (RA) or normal controls was used in conjunction with high-density array hybridization to identify genes of immunological interest. The method was designed to detect gene expression in small needle biopsy specimens by means of a prior amplification of nanogram amounts of total RNA to full-length cDNA using PCR. The latter was cut with Rsa I, ligated with adapters, hybridized with unmodified driver cDNA, and subjected to suppression subtraction PCR. Differentially expressed products were cloned into E. coli and picked into 384 well plates. Inserts were obtained by PCR across the multiple cloning site, and the products arrayed at high density on nylon filters. The subtracted cDNAs were also labelled by random priming for use as probes for library screening. The libraries chosen were the subtracted one described above and a set of 45,000 ESTs from the I.M. A.G.E consortium. Clones showing positive hybridization were identified by sequence analysis and homology searching. The results showed that the subtracted hybridization approach could identify many gene fragments expressed at different levels, the most abundant being immunoglobulins and HLA-DR. The expression profile was characteristic of macrophage, B cell and plasma cell infiltration with evidence of interferon induction. In addition, a significant number of sequences without matches in the nucleotide databases were obtained, this demonstrates the utility of the method in finding novel gene fragments for further characterisation as potential members of the immune system. Although RA was studied here, the technology is applicable to any disease process even in cases where amounts of tissue may be limited.

  4. Different Effects of Homocysteine and Oxidized Low Density Lipoprotein on Methylation Status in the Promoter Region of the Estrogen Receptor α Gene

    Institute of Scientific and Technical Information of China (English)

    Yushan HUANG; Kejun PENG; Juan SU; Yuping HUANG; Yizhou XU; Shuren WANG

    2007-01-01

    We investigated the effects of homocysteine (Hcy) and oxidized low density lipoprotein (oxLDL) on DNA methylation in the promoter region of the estrogen receptor α (ERα) gene, and its potential mechanism in the pathogenesis of atherosclerosis. Cultured smooth muscle cells (SMCs) of humans were treated by Hcy and ox-LDL with different concentrations for different periods of time. The DNA methylation status was assayed by nested methylation-specific polymerase chain reaction, the lipids that accumulated in the SMCs and foam cell formations were examined with Oil red O staining. The proliferation of SMCs was assayed by the 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide method. The results showed that ox-LDL in moderate concentrations (10-40 mg/L) induced de novo methylation in the promoter region of the ERα gene of SMCs. However, high concentrations (50 mg/L) of ox-LDL, resulted in demethylation of ERα. The Hcy treatment resulted in de novo methylation in the promoter region of the ERα gene with a concentration- and treating time-dependent manner, and a dose-dependent promoting effect on SMC proliferation. These data indicated that the two risk factors for atherosclerosis had the function of inducing de novo methylation in the promoter region of the ERα gene of SMCs. However, high concentrations (50mg/L) of ox-LDL induced demethylation, indicating that different risk factors of atherosclerosis with different potency might cause different aberrant methylation patterns in the promoter region of the ERα gene. The atherogenic mechanism of Hcy might involve the hypermethylation of the ERα gene, leading to the proliferation of SMCs in atherosclerotic lesions.

  5. Contribution of genotype and ethnicity to bone mineral density variation in Caucasians and Chinese:a test for five candidate genes for bone mass

    Institute of Scientific and Technical Information of China (English)

    Volodymyr Dvornyk; LIU Peng-yuan; LONG Ji-rong; ZHANG Yuan-yuan; LEI Shu-feng; Robert R Recker; DENG Hong-wen

    2005-01-01

    Background Ethnicity is shown to be one of important factors affacting bone mineral density (BMD).The present study was performed to compare the association of six markers for five candidate genes with BMD variation in two populations of different ethnicity, Caucasian and Chinese, and the contribution of genotype and ethnicity to this variation in the populations.Methods The studied restriction fragment length polymorphisms were BsaH Ⅰ of the calcium-sensing receptor gene, SacⅠ of the α2HS-glycoprotein (AHSG) gene, PvuⅡ and XbaⅠ of the oestrogen receptor α gene, ApaⅠ of the vitamin D receptor (VDR) gene and BstBⅠ of the parathyroid hormone gene.The association of these markers with BMD was analysed by one-way and two-way ANOVA with adjustment for covariates.Results Two polymorphisms, AHSG-SacⅠ and VDR-ApaⅠ, showed no association with BMD, while the others were associated with BMD variation at some skeletal sites in either males or females.The polymorphisms indicated clear distinctions between the associations depending on ethnicity, gender and skeletal site.Similar patterns were observed in their contribution to the total population BMD variation.Ethnicity appears to have a larger effect on the total population BMD variation in females than in males.It may account, on the average, for about 2% total population BMD variation at the spine of females and about 1% at the hip of males and females.Conclusion The results of the present study suggest that significant interethnic differentiation at some loci may contribute to the significant interethnic difference in BMD.However, this contribution apparently is not large.

  6. Lipoprotein Lipase and PPAR Alpha Gene Polymorphisms, Increased Very-Low-Density Lipoprotein Levels, and Decreased High-Density Lipoprotein Levels as Risk Markers for the Development of Visceral Leishmaniasis by Leishmania infantum

    Directory of Open Access Journals (Sweden)

    Márcia Dias Teixeira Carvalho

    2014-01-01

    Full Text Available In visceral leishmaniasis (VL endemic areas, a minority of infected individuals progress to disease since most of them develop protective immunity. Therefore, we investigated the risk markers of VL within nonimmune sector. Analyzing infected symptomatic and, asymptomatic, and noninfected individuals, VL patients presented with reduced high-density lipoprotein cholesterol (HDL-C, elevated triacylglycerol (TAG, and elevated very-low-density lipoprotein cholesterol (VLDL-C levels. A polymorphism analysis of the lipoprotein lipase (LPL gene using HindIII restriction digestion (N = 156 samples (H+ = the presence and H− = the absence of mutation revealed an increased adjusted odds ratio (OR of VL versus noninfected individuals when the H+/H+ was compared with the H−/H− genotype (OR = 21.3; 95% CI = 2.32–3335.3; P = 0.003. The H+/H+ genotype and the H+ allele were associated with elevated VLDL-C and TAG levels (P < 0.05 and reduced HDL-C levels (P < 0.05. An analysis of the L162V polymorphism in the peroxisome proliferator-activated receptor alpha (PPARα gene (n = 248 revealed an increased adjusted OR when the Leu/Val was compared with the Leu/Leu genotype (OR = 8.77; 95% CI = 1.41–78.70; P = 0.014. High TAG (P = 0.021 and VLDL-C (P = 0.023 levels were associated with susceptibility to VL, whereas low HDL (P = 0.006 levels with resistance to infection. The mutated LPL and the PPARα Leu/Val genotypes may be considered risk markers for the development of VL.

  7. Exploration of the Relationship between Phlegm-Dampness Constitution and Polymorphism of Low Density Lipoprotein Receptor Genes Pvu Ⅱ and Ava Ⅱ

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Objective: To explore the polymorphism of low density lipoprotein receptor (LDL-R) genes Pvu Ⅱ and Ava Ⅱ in a population with phlegm-dampness constitution (PDC). Methods:Polymorphism of LDL-R genes at Pvu Ⅱ and Ava Ⅱ of 48 persons with gentle constitution (GC) and 61 with PDC were analyzed with PCR-RELP technique, and their serum contents of lipids and glucose were determined and compared as well. Results: The A+ allelic and P- allelic frequency were higher and the P+ allelic frequency was lower in subjects with PDC than those in subjects with GC, which were 0.3083 vs 0.1771, 0.9098 vs 0.7708 and 0.0902 vs 0.2292, respectively, all showing significant difference between the two groups (P<0.05). Comparison of the two groups in serum levels of triglyceride (TG), fasting blood glucose, 2 h postprandial blood glucose, and 2 h postprandial insulin showed that all the parameters were higher in subjects with PDC than in subjects with GC respectively,showing significant difference (P<0.05). Conclusion: PDC is related with the P- and A+ allelic frequency of higher LDL-R genes at Pvu Ⅱ and AvaⅡ, therefore, the polymorphism of LDL-R genes could be taken as one of the genetic markers for PDC, and humans with PDC are more liable to suffer from blood lipids and glucose disorder than those with GC.

  8. Congenital syndactyly in cattle: four novel mutations in the low density lipoprotein receptor-related protein 4 gene (LRP4

    Directory of Open Access Journals (Sweden)

    Höltershinken Martin

    2007-02-01

    Full Text Available Abstract Background Isolated syndactyly in cattle, also known as mulefoot, is inherited as an autosomal recessive trait with variable penetrance in different cattle breeds. Recently, two independent mutations in the bovine LRP4 gene have been reported as the primary cause of syndactyly in the Holstein and Angus cattle breeds. Results We confirmed the previously described LRP4 exon 33 two nucleotide substitution in most of the affected Holstein calves and revealed additional evidence for allelic heterogeneity by the identification of four new LRP4 non-synonymous point mutations co-segregating in Holstein, German Simmental and Simmental-Charolais families. Conclusion We confirmed a significant role of LRP4 mutations in the pathogenesis of congenital syndactyly in cattle. The newly detected missense mutations in the LRP4 gene represent independent mutations affecting different conserved protein domains. However, the four newly described LRP4 mutations do still not explain all analyzed cases of syndactyly.

  9. Explaining preferences for home surroundings and locations

    DEFF Research Database (Denmark)

    Andersen, Hans Skifter

    2011-01-01

    : avoiding social nuisances, preferring social homogeneity and living close to one’s social network and place of origin. The study shows that most people have many detailed preferences, whereas some have very few. This confirms an earlier theory that some people are very connected to certain places...... with given characteristics and thus do not have priorities regarding home surroundings and locations. For others, mostly young people and singles, home is just a place to sleep and relax, whereas life is lived elsewhere. For this group, there are only preferences for location and there are few specific...

  10. Triggered Star Formation Surrounding Wolf-Rayet Star HD 211853

    Science.gov (United States)

    Liu, Tie; Wu, Yuefang; Zhang, Huawei; Qin, Sheng-Li

    2012-05-01

    The environment surrounding Wolf-Rayet (W-R) star HD 211853 is studied in molecular, infrared, as well as radio, and H I emission. The molecular ring consists of well-separated cores, which have a volume density of 103 cm-3 and kinematic temperature ~20 K. Most of the cores are under gravitational collapse due to external pressure from the surrounding ionized gas. From the spectral energy distribution modeling toward the young stellar objects, the sequential star formation is revealed on a large scale in space spreading from the W-R star to the molecular ring. A small-scale sequential star formation is revealed toward core "A," which harbors a very young star cluster. Triggered star formations are thus suggested. The presence of the photodissociation region, the fragmentation of the molecular ring, the collapse of the cores, and the large-scale sequential star formation indicate that the "collect and collapse" process functions in this region. The star-forming activities in core "A" seem to be affected by the "radiation-driven implosion" process.

  11. Triggered star formation surrounding Wolf-Rayet star HD 211853

    CERN Document Server

    Liu, Tie; Zhang, Huawei; Qin, Sheng-Li

    2012-01-01

    The environment surrounding Wolf-Rayet star HD 211853 is studied in molecular emission, infrared emission, as well as radio and HI emission. The molecular ring consists of well-separated cores, which have a volume density of 10$^{3}$ cm$^{-3}$ and kinematic temperature $\\sim$20 K. Most of the cores are under gravitational collapse due to external pressure from the surrounding ionized gas. From SED modeling towards the young stellar objects (YSOs), sequential star formation is revealed on a large scale in space spreading from the Wolf-Rayet star to the molecular ring. A small scale sequential star formation is revealed towards core A, which harbors a very young star cluster. Triggered star formations is thus suggested. The presence of PDR, the fragmentation of the molecular ring, the collapse of the cores, the large scale sequential star formation indicate the "Collect and Collapse" process functions in this region. The star forming activities in core A seem to be affected by the "Radiation-Driven Implosion" (...

  12. TRIGGERED STAR FORMATION SURROUNDING WOLF-RAYET STAR HD 211853

    Energy Technology Data Exchange (ETDEWEB)

    Liu Tie; Wu Yuefang; Zhang Huawei [Department of Astronomy, Peking University, 100871 Beijing (China); Qin Shengli, E-mail: liutiepku@gmail.com [I. Physikalisches Institut, Universitaet zu Koeln, Zuelpicher Str. 77, 50937 Koeln (Germany)

    2012-05-20

    The environment surrounding Wolf-Rayet (W-R) star HD 211853 is studied in molecular, infrared, as well as radio, and H I emission. The molecular ring consists of well-separated cores, which have a volume density of 10{sup 3} cm{sup -3} and kinematic temperature {approx}20 K. Most of the cores are under gravitational collapse due to external pressure from the surrounding ionized gas. From the spectral energy distribution modeling toward the young stellar objects, the sequential star formation is revealed on a large scale in space spreading from the W-R star to the molecular ring. A small-scale sequential star formation is revealed toward core 'A', which harbors a very young star cluster. Triggered star formations are thus suggested. The presence of the photodissociation region, the fragmentation of the molecular ring, the collapse of the cores, and the large-scale sequential star formation indicate that the 'collect and collapse' process functions in this region. The star-forming activities in core 'A' seem to be affected by the 'radiation-driven implosion' process.

  13. Microarray analysis of ox-LDL (oxidized low-density lipoprotein)-regulated genes in human coronary artery smooth muscle cells.

    Science.gov (United States)

    Minta, Joe; Jungwon Yun, James; St Bernard, Rosanne

    2010-01-01

    Recent studies suggest that circulating LDL (low-density lipoproteins) play a central role in the pathogenesis of atherosclerosis, and the oxidized form (ox-LDL) is highly atherogenic. Deposits of ox-LDL have been found in atherosclerotic plaques, and ox-LDL has been shown to promote monocyte recruitment, foam cell formation and the transition of quiescent and contractile vascular SMCs (smooth muscle cells) to the migratory and proliferative phenotype. SMC phenotype transition and hyperplasia are the pivotal events in the pathogenesis of atherosclerosis. To comprehend the complex molecular mechanisms involved in ox-LDL-mediated SMC phenotype transition, we have compared the differential gene expression profiles of cultured quiescent human coronary artery SMCs with cells induced with ox-LDL for 3 and 21 h using Affymetrix HG-133UA cDNA microarray chips. Assignment of the regulated genes into functional groups indicated that several genes involved in metabolism, membrane transport, cell-cell interactions, signal transduction, transcription, translation, cell migration, proliferation and apoptosis were differentially expressed. Our data suggests that the interaction of ox-LDL with its cognate receptors on SMCs modulates the induction of several growth factors and cytokines, which activate a variety of intracellular signalling mechanisms (including PI3K, MAPK, Jak/STAT, sphingosine, Rho kinase pathways) that contribute to SMC transition from the quiescent and contractile phenotype to the proliferative and migratory phenotype. Our study has also identified several genes (including CDC27, cyclin A1, cyclin G2, glypican 1, MINOR, p15 and apolipoprotein) not previously implicated in ox-LDL-induced SMC phenotype transition and substantially extends the list of potential candidate genes involved in atherogenesis.

  14. Chemiluminescent detection of sequential DNA hybridizations to high-density, filter-arrayed cDNA libraries: a subtraction method for novel gene discovery.

    Science.gov (United States)

    Guiliano, D; Ganatra, M; Ware, J; Parrot, J; Daub, J; Moran, L; Brennecke, H; Foster, J M; Supali, T; Blaxter, M; Scott, A L; Williams, S A; Slatko, B E

    1999-07-01

    A chemiluminescent approach for sequential DNA hybridizations to high-density filter arrays of cDNAs, using a biotin-based random priming method followed by a streptavidin/alkaline phosphatase/CDP-Star detection protocol, is presented. The method has been applied to the Brugia malayi genome project, wherein cDNA libraries, cosmid and bacterial artificial chromosome (BAC) libraries have been gridded at high density onto nylon filters for subsequent analysis by hybridization. Individual probes and pools of rRNA probes, ribosomal protein probes and expressed sequence tag probes show correct specificity and high signal-to-noise ratios even after ten rounds of hybridization, detection, stripping of the probes from the membranes and rehybridization with additional probe sets. This approach provides a subtraction method that leads to a reduction in redundant DNA sequencing, thus increasing the rate of novel gene discovery. The method is also applicable for detecting target sequences, which are present in one or only a few copies per cell; it has proven useful for physical mapping of BAC and cosmid high-density filter arrays, wherein multiple probes have been hybridized at one time (multiplexed) and subsequently "deplexed" into individual components for specific probe localizations.

  15. Reduced retinal microvascular density, improved forepaw reach, comparative microarray and gene set enrichment analysis with c-jun targeting DNA enzyme.

    Directory of Open Access Journals (Sweden)

    Cecilia W S Chan

    Full Text Available Retinal neovascularization is a critical component in the pathogenesis of common ocular disorders that cause blindness, and treatment options are limited. We evaluated the therapeutic effect of a DNA enzyme targeting c-jun mRNA in mice with pre-existing retinal neovascularization. A single injection of Dz13 in a lipid formulation containing N-[1-(2,3-dioleoyloxypropyl]-N,N,N-trimethylammonium methyl-sulfate and 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine inhibited c-Jun expression and reduced retinal microvascular density. The DNAzyme inhibited retinal microvascular density as effectively as VEGF-A antibodies. Comparative microarray and gene expression analysis determined that Dz13 suppressed not only c-jun but a range of growth factors and matrix-degrading enzymes. Dz13 in this formulation inhibited microvascular endothelial cell proliferation, migration and tubule formation in vitro. Moreover, animals treated with Dz13 sensed the top of the cage in a modified forepaw reach model, unlike mice given a DNAzyme with scrambled RNA-binding arms that did not affect c-Jun expression. These findings demonstrate reduction of microvascular density and improvement in forepaw reach in mice administered catalytic DNA.

  16. A 500 Parsec Halo Surrounding the Galactic Globular NGC 1851

    CERN Document Server

    Olszewski, Edward W; Knezek, Patricia; Subramaniam, Annapurni; de Boer, Thomas; Seitzer, Patrick

    2009-01-01

    Using imaging that shows four magnitudes of main sequence stars, we have discovered that the Galactic globular cluster NGC 1851 is surrounded by a halo that is visible from the tidal radius of 700 arcsec (41 pc) to more than 4500 arcsec (>250 pc). This halo is symmetric and falls in density as a power law of $r^{-1.24}$. It contains approximately 0.1% of the dynamical mass of NGC 1851. There is no evidence for tidal tails. Current models of globular cluster evolution do not explain this feature, although simulations of tidal influences on dwarf spheroidal galaxies qualitatively mimic these results. Given the state of published models it is not possible to decide between creation of this halo from isolated cluster evaporation, or from tidal or disk shocking, or from destruction of a dwarf galaxy in which this object may have once been embedded.

  17. Impact-Generated Dust Clouds Surrounding the Galilean Moons

    CERN Document Server

    Krüger, H; Grün, E; Kr\\"uger, Harald~; Krivov, Alexander V.; Gr\\"un, Eberhard

    2003-01-01

    Tenuous dust clouds of Jupiter's Galilean moons Io, Europa, Ganymede and Callisto have been detected with the in-situ dust detector on board the Galileo spacecraft. The majority of the dust particles have been sensed at altitudes below five radii of these lunar-sized satellites. We identify the particles in the dust clouds surrounding the moons by their impact direction, impact velocity, and mass distribution. Average particle sizes are 0.5 to $\\rm 1 \\mu m$, just above the detector threshold, indicating a size distribution with decreasing numbers towards bigger particles. Our results imply that the particles have been kicked up by hypervelocity impacts of micrometeoroids onto the satellites' surfaces. The measured radial dust density profiles are consistent with predictions by dynamical modeling for satellite ejecta produced by interplanetary impactors (Krivov et al., PSS, 2003, 51, 251--269), assuming yield, mass and velocity distributions of the ejecta from laboratory measurements. The dust clouds of the th...

  18. High cell density and latent membrane protein 1 expression induce cleavage of the mixed lineage leukemia gene at 11q23 in nasopharyngeal carcinoma cell line

    Directory of Open Access Journals (Sweden)

    Sim Sai-Peng

    2010-09-01

    Full Text Available Abstract Background Nasopharyngeal carcinoma (NPC is commonly found in Southern China and South East Asia. Epstein-Barr virus (EBV infection is well associated with NPC and has been implicated in its pathogenesis. Moreover, various chromosome rearrangements were reported in NPC. However, the underlying mechanism of chromosome rearrangement remains unclear. Furthermore, the relationship between EBV and chromosome rearrangement with respect to the pathogenesis of NPC has not been established. We hypothesize that during virus- or stress-induced apoptosis, chromosomes are initially cleaved at the base of the chromatin loop domain structure. Upon DNA repair, cell may survive with rearranged chromosomes. Methods In this study, cells were seeded at various densities to induce apoptosis. Genomic DNA extracted was processed for Southern hybridization. In order to investigate the role of EBV, especially the latent membrane protein 1 (LMP1, LMP1 gene was overexpressed in NPC cells and chromosome breaks were analyzed by inverse polymerase chain (IPCR reaction. Results Southern analysis revealed that high cell density resulted in cleavage of the mixed lineage leukemia (MLL gene within the breakpoint cluster region (bcr. This high cell density-induced cleavage was significantly reduced by caspase inhibitor, Z-DEVD-FMK. Similarly, IPCR analysis showed that LMP1 expression enhanced cleavage of the MLL bcr. Breakpoint analysis revealed that these breaks occurred within the matrix attachment region/scaffold attachment region (MAR/SAR. Conclusions Since MLL locates at 11q23, a common deletion site in NPC, our results suggest a possibility of stress- or virus-induced apoptosis in the initiation of chromosome rearrangements at 11q23. The breakpoint analysis results also support the role of chromatin structure in defining the site of chromosome rearrangement.

  19. 天津及周边地区苯丙氨酸羟化酶基因突变谱和新突变分析%Mutation spectrum of phenylalanine hydroxylase gene in patients with phenylketonuria in Tianjin and surrounding areas of Northern China

    Institute of Scientific and Technical Information of China (English)

    宋力; 党利亨; 孟英韬; 付伯津

    2010-01-01

    目的 分析天津地区人苯丙氨酸羟化酶(phenylalanine hydroxylase gene,PAH)基因突变谱,明确本地区该基因突变类型和特点,为遗传咨询和产前基因诊断提供科学依据.方法 用聚合酶链反应-单链构象多态、变性高效液相色谱法和DNA测序法对天津及河北等地99例已确诊各种类型苯丙酮尿症患儿基因组DNA进行PAH全基因13个外显子分析.结果 全基因共检出41种突变,含错义突变22种、无义突变7种、剪接位点突变9种和缺失突变3种.其中新突变6种(IVS3nt+1g→a、A165D、Q301X、G344D、P362L和R413G).198个PAH等位基因突变总检出率为93.94%.结论 天津及周边地区PAH基因突变谱广、遗传异质性高,一些常见突变的发生频率与以往报道的地域分布略不同.%Objective To investigate the characteristics of the phenylalanine hydroxylase (PAH)gene mutations in patients with phenylketonuria (PKU) in Tianjin and surrounding area, in order to provide basic information for genetic counseling and prenatal gene diagnosis. Methods All of the 13 exons and flanking introns of the PAH gene from 99 patients with PKU were amplified by polymerase chain reaction and analyzed by single strand conformation polymorphism (SSCP), denaturing high performance liquid chromatography (DHPLC) and DNA sequencing. Results Mutations were found in all exons or flanking introns of the PAH gene except for exons 9 and 13. A total of 41 different mutations were identified which corresponded to 93. 94% (186/198) of the PAH alleles, including 22 missense mutations (53. 6%), 7nonsense mutations (17.1%), 9 splicing junction mutations(22.0%), and 3 deletion mutations (7.3%).Six novel mutations (IVS3nt+1g→a, A165D, Q301X, G344D, P362L and R413G) were identified and another 6 mutations (S16fsdelCT, R71H, IVS5nt+1g→a, G239S, R243X and R261X) were reported in Chinese population for the first time according to the databases from http://www. pahdb. mcgill. ca. The most

  20. Decreased Bone Volume and Bone Mineral Density in the Tibial Trabecular Bone Is Associated with Per2 Gene by 405 nm Laser Stimulation

    Directory of Open Access Journals (Sweden)

    Yeong-Min Yoo

    2015-11-01

    Full Text Available Low-level laser therapy/treatment (LLLT using a minimally invasive laser needle system (MILNS might enhance bone formation and suppress bone resorption. In this study, the use of 405 nm LLLT led to decreases in bone volume and bone mineral density (BMD of tibial trabecular bone in wild-type (WT and Per2 knockout (KO mice. Bone volume and bone mineral density of tibial trabecular bone was decreased by 405 nm LLLT in Per2 KO compared to WT mice at two and four weeks. To determine the reduction in tibial bone, mRNA expressions of alkaline phosphatase (ALP and Per2 were investigated at four weeks after 405 nm laser stimulation using MILNS. ALP gene expression was significantly reduced in the LLLT-stimulated right tibial bone of WT and Per2 KO mice compared to the non-irradiated left tibia (p < 0.001. Per2 mRNA expression in WT mice was significantly reduced in the LLLT-stimulated right tibial bone compared to the non-irradiated left tibia (p < 0.001. To identify the decrease in tibial bone mediated by the Per2 gene, levels of runt-related transcription factor 2 (Runx2 and ALP mRNAs were determined in non-irradiated WT and Per2 KO mice. These results demonstrated significant downregulation of Runx2 and ALP mRNA levels in Per2 KO mice (p < 0.001. Therefore, the reduction in tibial trabecular bone resulting from 405 nm LLLT using MILNS might be associated with Per2 gene expression.

  1. Association between Vitamin D Receptor Gene BsmI Polymorphism and Bone Mineral Density in A Population of 146 Iranian Women

    Directory of Open Access Journals (Sweden)

    Eznollah Azargashb

    2013-01-01

    Full Text Available Objective: Osteoporosis is a bone disorder that reduces bone mineral density (BMD and leads to bone fracture. In addition to different factors, gene polymorphisms have been revealed to be associated with osteoporosis. In this study, we investigated the association between the BsmI polymorphism of vitamin D receptor (VDR gene (rs1544410 and BMD in a population of Iranian women.Materials and Methods: In this case control study, clinical risk factors for osteoporosis were obtained from the participants through a questionnaire for a case-control study. The World Health Organisation (WHO criteria were applied for the diagnosis of the disease. Peripheral blood samples were obtained from 146 pre- and or postmenopausal Iranian women aged between 35 and 71 years (53.53 ± 9.8. The study population was classified for BMD into normal and osteoporotic groups, who matched for age, pregnancy status, menstrual condition, and body mass index (BMI. The BMD of the lumbar spine (L1-4 and femoral neck was measured. Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP was performed to detect and analyze the genotype.Results: The frequencies of AA and GG were significantly different between the two groups (p value0.05.Conclusion: BsmI polymorphism of VDR gene has a significant association with BMD in the lumbar spine and may have a minor effect on the proximal femur BMD in Iranian women.

  2. The Hypocholesterolemic Effect of Germinated Brown Rice Involves the Upregulation of the Apolipoprotein A1 and Low-Density Lipoprotein Receptor Genes

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    Mustapha Umar Imam

    2013-01-01

    Full Text Available Germinated brown rice (GBR is rich in bioactive compounds, which confer GBR with many functional properties. Evidence of its hypocholesterolemic effects is emerging, but the exact mechanisms of action and bioactive compounds involved have not been fully documented. Using type 2 diabetic rats, we studied the effects of white rice, GBR, and brown rice (BR on lipid profile and on the regulation of selected genes involved in cholesterol metabolism. Our results showed that the upregulation of apolipoprotein A1 and low-density lipoprotein receptor genes was involved in the hypocholesterolemic effects of GBR. Additionally, in vitro studies using HEPG2 cells showed that acylated steryl glycoside, gamma amino butyric acid, and oryzanol and phenolic extracts of GBR contribute to the nutrigenomic regulation of these genes. Transcriptional and nontranscriptional mechanisms are likely involved in the overall hypocholesterolemic effects of GBR suggesting that it may have an impact on the prevention and/or management of hypercholesterolemia due to a wide variety of metabolic perturbations. However, there is need to conduct long-term clinical trials to determine the clinical relevance of the hypocholesterolemic effects of GBR determined through animal studies.

  3. Effects of High Fat Feeding and Diabetes on Regression of Atherosclerosis Induced by Low-Density Lipoprotein Receptor Gene Therapy in LDL Receptor-Deficient Mice.

    Directory of Open Access Journals (Sweden)

    Florian Willecke

    Full Text Available We tested whether a high fat diet (HFD containing the inflammatory dietary fatty acid palmitate or insulin deficient diabetes altered the remodeling of atherosclerotic plaques in LDL receptor knockout (Ldlr-/- mice. Cholesterol reduction was achieved by using a helper-dependent adenovirus (HDAd carrying the gene for the low-density lipoprotein receptor (Ldlr; HDAd-LDLR. After injection of the HDAd-LDLR, mice consuming either HFD, which led to insulin resistance but not hyperglycemia, or low fat diet (LFD, showed regression compared to baseline. However there was no difference between the two groups in terms of atherosclerotic lesion size, or CD68+ cell and lipid content. Because of the lack of effects of these two diets, we then tested whether viral-mediated cholesterol reduction would lead to defective regression in mice with greater hyperglycemia. In both normoglycemic and streptozotocin (STZ-treated hyperglycemic mice, HDAd-LDLR significantly reduced plasma cholesterol levels, decreased atherosclerotic lesion size, reduced macrophage area and lipid content, and increased collagen content of plaque in the aortic sinus. However, reductions in anti-inflammatory and ER stress-related genes were less pronounced in STZ-diabetic mice compared to non-diabetic mice. In conclusion, HDAd-mediated Ldlr gene therapy is an effective and simple method to induce atherosclerosis regression in Ldlr-/- mice in different metabolic states.

  4. Silent exonic mutations in the low-density lipoprotein receptor gene that cause familial hypercholesterolemia by affecting mRNA splicing.

    Science.gov (United States)

    Defesche, J C; Schuurman, E J M; Klaaijsen, L N; Khoo, K L; Wiegman, A; Stalenhoef, A F H

    2008-06-01

    In a large group of patients with the clinical phenotype of familial hypercholesterolemia, such as elevated low-density lipoprotein (LDL) cholesterol and premature atherosclerosis, but without functional mutations in the genes coding for the LDL receptor and apolipoprotein B, we examined the effect of 128 seemingly neutral exonic and intronic DNA variants, discovered by routine sequencing of these genes. Two variants, G186G and R385R, were found to be associated with altered splicing. The nucleotide change leading to G186G resulted in the generation of new 3'-splice donor site in exon 4 and R385R was associated with a new 5'-splice acceptor site in exon 9 of the LDL receptor gene. Splicing of these alternate splice sites leads to an in-frame 75-base pair deletion in a stable mRNA of exon 4 in case of G186G and R385R resulted in a 31-base pair frame-shift deletion in exon 9 and non-sense-mediated mRNA decay.

  5. Increased expression of X-linked genes in mammals is associated with a higher stability of transcripts and an increased ribosome density.

    Science.gov (United States)

    Faucillion, Marie-Line; Larsson, Jan

    2015-03-18

    Mammalian sex chromosomes evolved from the degeneration of one homolog of a pair of ancestral autosomes, the proto-Y. This resulted in a gene dose imbalance that is believed to be restored (partially or fully) through upregulation of gene expression from the single active X-chromosome in both sexes by a dosage compensatory mechanism. We analyzed multiple genome-wide RNA stability data sets and found significantly longer average half-lives for X-chromosome transcripts than for autosomal transcripts in various human cell lines, both male and female, and in mice. Analysis of ribosome profiling data shows that ribosome density is higher on X-chromosome transcripts than on autosomal transcripts in both humans and mice, suggesting that the higher stability is causally linked to a higher translation rate. Our results and observations are in accordance with a dosage compensatory upregulation of expressed X-linked genes. We therefore propose that differential mRNA stability and translation rates of the autosomes and sex chromosomes contribute to an evolutionarily conserved dosage compensation mechanism in mammals.

  6. Polymorphisms at cholesterol 7α-hydroxylase, apolipoproteins B and E and low density lipoprotein receptor genes in patients with gallbladder stone disease

    Institute of Scientific and Technical Information of China (English)

    Zhao-Yan Jiang; Yu Jiang; Sheng-Dao Zhang; Tian-Quan Han; Guang-Jun Suo; Dian-Xu Feng; Sheng Chen; Xing-Xing Cai; Zhi-Hong Jiang; Jun Shang; Yi Zhang

    2004-01-01

    AIM: To investigate the relationship between gallbladder stone disease (GSD) and single nucleotide polymorphisms of cholesterol 7α-hydroxylase (CYP7A) gene promoter,apolipoprotein (4PO) B gene exon 26, 4POEgene exon 4 or microsatellite polymorphism of low density lipoprotein receptor (LDLR) gene exon 18.METHODS: Genotypes of CYP7A, APOB, APOE and LDLR genes were determined in 105 patients with GSD diagnosed by B-mode ultrasonography and 274 control subjects.Serum lipids were analyzed with HITACHI 7060 automaiC biochemical analyzer.RESULTS: Body mass index (BMI) was significantly higher in patients with GSD (24.47±3.09) than in controls (23.50±2.16).Plasma total cholesterol was lower in patients with GSD (4.66±0.92 mmol/L) than in controls (4.91±0.96 mmol/L),P<0.01 after adjusted for age, sex and BMI. The significantly higher frequency of A allele of CYP7,4 gene polymorphism and X+ allele of APOBgene polymorphism was seen in GSD patients. Percentages of A allele in patients and controls were 62.86% and 54.38% (P <0.05) and those of X+ allele 8.57% and 4.01% (P<0.01). Subjects with A allele had significantly lower plasma total cholesterol and LDL cholesterol than subjects with CC homozygote. In a multiple variable logistic regression model, the BMI (OR=1.13, 95% CI: 1.05-1.22), A allele (OR=1.48, 95% CI: 1.05-2.09) and X+ allele (OR=2.28, 95% CI: 1.14-4.59) were positively associated with GSD (P <0.05). Plasma total cholesterol (OR=0.69, 95% CI: 0.64-0.74) was negatively related to SSD (P<0.05).CONCLUSION: With an association analysis, it was determined that A allele of CYP74 gene and X+ allele of 4POBgene might be considered as risk genes for GSD. These alleles are related with differences of serum lipids among subjects.Multiple-variable logistic regression model analysis showed that besides BMI, GSD was affected by polygenetic factors.But the mechanism for these two alleles responsible for GSD requires further investigations.

  7. Characterizing the Microenvironment Surrounding Phosphorylated Protein Sites

    Institute of Scientific and Technical Information of China (English)

    Shi-Cai Fan; Xue-Gong Zhang

    2005-01-01

    Protein phosphorylation plays an important role in various cellular processes. Due to its high complexity, the mechanism needs to be further studied. In the last few years, many methods have been contributed to this field, but almost all of them investigated the mechanism based on protein sequences around protein sites. In this study, we implement an exploration by characterizing the microenvironment surrounding phosphorylated protein sites with a modified shell model, and obtain some significant properties by the rank-sum test, such as the lack of some classes of residues, atoms, and secondary structures. Furthermore, we find that the depletion of some properties affects protein phosphorylation remarkably. Our results suggest that it is a meaningful direction to explore the mechanism of protein phosphorylation from microenvironment and we expect further findings along with the increasing size of phosphorylation and protein structure data.

  8. Opportunity's Surroundings After Sol 1820 Drive

    Science.gov (United States)

    2009-01-01

    NASA's Mars Exploration Rover Opportunity used its navigation camera to take the images combined into this full-circle view of the rover's surroundings during the 1,820th to 1,822nd Martian days, or sols, of Opportunity's surface mission (March 7 to 9, 2009). South is at the center; north at both ends. The rover had driven 20.6 meters toward the northwest on Sol 1820 before beginning to take the frames in this view. Tracks from that drive recede southwestward. For scale, the distance between the parallel wheel tracks is about 1 meter (about 40 inches). The terrain in this portion of Mars' Meridiani Planum region includes dark-toned sand ripples and small exposures of lighter-toned bedrock. This view is presented as a cylindrical projection with geometric seam correction.

  9. Exploiting Surrounding Text for Retrieving Web Images

    Directory of Open Access Journals (Sweden)

    S. A. Noah

    2008-01-01

    Full Text Available Web documents contain useful textual information that can be exploited for describing images. Research had been focused on representing images by means of its content (low level description such as color, shape and texture, little research had been directed to exploiting such textual information. The aim of this research was to systematically exploit the textual content of HTML documents for automatically indexing and ranking of images embedded in web documents. A heuristic approach for locating and assigning weight surrounding web images and a modified tf.idf weighting scheme was proposed. Precision-recall measures of evaluation had been conducted for ten queries and promising results had been achieved. The proposed approach showed slightly better precision measure as compared to a popular search engine with an average of 0.63 and 0.55 relative precision measures respectively.

  10. A Novel Peroxisome Proliferator Response Element Modulates Hepatic Low Density Lipoprotein Receptor Gene Transcription in Response to PPARδ Activation

    Science.gov (United States)

    Shende, Vikram R.; Singh, Amar Bahadur; Liu, Jingwen

    2016-01-01

    The hepatic expression of LDLR gene is regulated primarily at the transcriptional level by a sterol-regulatory element (SRE) in its proximal promoter region which is the site of action of SRE-binding protein 2 (SREBP2). However whether additional cis-regulatory elements contribute to LDLR transcription has not been fully explored. We investigated the function of a putative PPAR-response element (PPRE) sequence motif located at −768 to −752 bases upstream of the transcription start site of human LDLR gene in response to PPARδ activation. Promoter luciferase reporter analyses showed that treating HepG2 cells with PPARδ agonist L165041 markedly increased the activity of a full-length LDLR promoter construct (pLDLR-1192) without any effects on the shorter promoter reporter pLDLR-234 that contains only the core regulatory elements SRE-1 and SP1 sites. Importantly, mutation of the PPRE sequence greatly attenuated the induction of the full-length LDLR promoter activity by L165041 without affecting rosuvastatin mediated transactivation. Electrophoretic mobility shift and chromatin immunoprecipitation assays further confirmed the binding of PPARδ to the LDLR-PPRE site. Treating HepG2 cells with L165041 elevated the mRNA and protein expressions of LDLR without affecting the LDLR mRNA decay rate. The induction of LDLR expression by PPARδ agonist was further observed in liver tissue of mice and hamsters treated with L165041. Altogether, our studies identify a novel PPRE-mediated regulatory mechanism for LDLR transcription and suggest that combined treatment of statin with PPARδ agonists may have advantageous effects on LDLR expression. PMID:26443862

  11. β3-adrenergic receptor gene, body mass index, bone mineral density and fracture risk in elderly men and women: the Dubbo Osteoporosis Epidemiology Study (DOES

    Directory of Open Access Journals (Sweden)

    Center Jacqueline R

    2006-07-01

    Full Text Available Abstract Background Recent studies have suggested that the Arg allele of β3-adrenergic receptor (ADRB3 gene is associated with body mass index (BMI, which is an important predictor of bone mineral density (BMD and fracture risk. However, whether the ADRB3 gene polymorphism is associated with fracture risk has not been investigated. The aim of study was to examine the inter-relationships between ADRB3 gene polymorphisms, BMI, BMD and fracture risk in elderly Caucasians. Methods Genotypes of the ADRB3 gene were determined in 265 men and 446 women aged 60+ in 1989 at entry into the study, whose BMD were measured by DXA (GE Lunar, WI USA at baseline. During the follow-up period (between 1989 and 2004, fractures were ascertained by reviewing radiography reports and personal interviews. Results The allelic frequencies of the Trp and the Arg alleles were 0.925 and 0.075 respectively, and the relative frequencies of genotypes Trp/Trp, Trp/Arg and Arg/Arg 0.857, 0.138 and 0.006 respectively. There was no significant association between BMI and ADRB3 genotypes (p = 0.10 in women and p = 0.68 in men. There was also no significant association between ADRB3 genotypes and lumbar spine or femoral neck BMD in either men and women. Furthermore, there were no significant association between ADRB3 genotypes and fracture risk in both women and men, either before or after adjusting for and, BMD and BMI. Conclusion The present data suggested that in Caucasian population the contribution of ADRB3 genotypes to the prediction of BMI, BMD and fracture risk is limited.

  12. Generation of genome-scale gene-associated SNPs in catfish for the construction of a high-density SNP array

    Directory of Open Access Journals (Sweden)

    Kaltenboeck Ludmilla

    2011-01-01

    Full Text Available Abstract Background Single nucleotide polymorphisms (SNPs have become the marker of choice for genome-wide association studies. In order to provide the best genome coverage for the analysis of performance and production traits, a large number of relatively evenly distributed SNPs are needed. Gene-associated SNPs may fulfill these requirements of large numbers and genome wide distribution. In addition, gene-associated SNPs could themselves be causative SNPs for traits. The objective of this project was to identify large numbers of gene-associated SNPs using high-throughput next generation sequencing. Results Transcriptome sequencing was conducted for channel catfish and blue catfish using Illumina next generation sequencing technology. Approximately 220 million reads (15.6 Gb for channel catfish and 280 million reads (19.6 Gb for blue catfish were obtained by sequencing gene transcripts derived from various tissues of multiple individuals from a diverse genetic background. A total of over 35 billion base pairs of expressed short read sequences were generated. Over two million putative SNPs were identified from channel catfish and almost 2.5 million putative SNPs were identified from blue catfish. Of these putative SNPs, a set of filtered SNPs were identified including 342,104 intra-specific SNPs for channel catfish, 366,269 intra-specific SNPs for blue catfish, and 420,727 inter-specific SNPs between channel catfish and blue catfish. These filtered SNPs are distributed within 16,562 unique genes in channel catfish and 17,423 unique genes in blue catfish. Conclusions For aquaculture species, transcriptome analysis of pooled RNA samples from multiple individuals using Illumina sequencing technology is both technically efficient and cost-effective for generating expressed sequences. Such an approach is most effective when coupled to existing EST resources generated using traditional sequencing approaches because the reference ESTs facilitate

  13. "Single nucleotide polymorphisms of the OPG/RANKL system genes in primary hyperparathyroidism and their relationship with bone mineral density"

    Directory of Open Access Journals (Sweden)

    Piedra María

    2011-12-01

    Full Text Available Abstract Background Primary hyperparathyroidism (PHPT affects mainly cortical bone. It is thought that parathyroid hormone (PTH indirectly regulates the activity of osteoclasts by means of the osteoprotegerin/ligand of the receptor activator of nuclear factor-κβ (OPG/RANKL system. Several studies have confirmed that OPG (osteoprotegerin and RANKL (ligand of the receptor activator of nuclear factor-κβ loci are determinants of bone mineral density (BMD in the general population. The aim of this study is to analyze the relationship between fractures and BMD and the rs3102735 (163 A/G, rs3134070 (245 T/G and rs2073618 (1181 G/C SNPs of the OPG and the rs2277438 SNP of the RANKL, in patients with sporadic PHPT. Methods We enrolled 298 Caucasian patients with PHPT and 328 healthy volunteers in a cross-sectional study. We analyzed anthropometric data, history of fractures or renal lithiasis, biochemical determinants including markers for bone remodelling, BMD measurements in the lumbar spine, total hip, femoral neck and distal radius, and genotyping for the SNPs to be studied. Results Regarding the age of diagnosis, BMI, menopause status, frequency of fractures or renal lithiasis, we found no differences between genotypes in any of the SNPs studied in the PHPT group. Significant lower BMD in the distal radius with similar PTH levels was found in the minor allele homozygotes (GG compared to heterozygotes and major allele homozygotes in both OPG rs3102735 (163 A/G and OPG rs3134070 (245 T/G SNPs in those with PHPT compared to control subjects. We found no differences between genotypes of the OPG rs2073618 (1181 G/C SNP with regard to BMD in the PHPT subjects. In the evaluation of rs2277438 SNP of the RANKL in PHPT patients, we found a non significant trend towards lower BMD in the 1/3 distal radius and at total hip in the minor allele homocygotes (GG genotype group versus heterocygotes and major allele homocygotes (AA. Conclusions Our study provides

  14. High Density of Aligned Nanowire Treated with Polydopamine for Efficient Gene Silencing by siRNA According to Cell Membrane Perturbation.

    Science.gov (United States)

    Nair, Baiju G; Hagiwara, Kyoji; Ueda, Motoki; Yu, Hsiao-Hua; Tseng, Hsian-Rong; Ito, Yoshihiro

    2016-07-27

    High aspect ratio nanomaterials, such as vertically aligned silicon nanowire (SiNW) substrates, are three-dimensional topological features for cell manipulations. A high density of SiNWs significantly affects not only cell adhesion and proliferation but also the delivery of biomolecules to cells. Here, we used polydopamine (PD) that simply formed a thin coating on various material surfaces by the action of dopamine as a bioinspired approach. The PD coating not only enhanced cell adhesion, spreading, and growth but also anchored more siRNA by adsorption and provided more surface concentration for substrate-mediated delivery. By comparing plain and SiNW surfaces with the same amount of loaded siRNA, we quantitatively found that PD coating efficiently anchored siRNA on the surface, which knocked down the expression of a specific gene by RNA interference. It was also found that the interaction of SiNWs with the cell membrane perturbed the lateral diffusion of lipids in the membrane by fluorescence recovery after photobleaching. The perturbation was considered to induce the effective delivery of siRNA into cells and allow the cells to carry out their biological functions. These results suggest promising applications of PD-coated, high-density SiNWs as simple, fast, and versatile platforms for transmembrane delivery of biomolecules.

  15. The lithosphere-asthenosphere Italy and surroundings

    CERN Document Server

    Panza, G F; Chimera, G; Pontevivo, A; Raykova, R

    2003-01-01

    The velocity-depth distribution of the lithosphere-asthenosphere in the Italian region and surroundings is imaged, with a lateral resolution of about 100 km, by surface wave velocity tomography and non-linear inversion. Maps of the Moho depth, of the thickness of the lithosphere and of the shear-wave velocities, down to depths of 200 km and more, are constructed. A mantle wedge, identified in the uppermost mantle along the Apennines and the Calabrian Arc, underlies the principal recent volcanoes, and partial melting can be relevant in this part of the uppermost mantle. In Calabria a lithospheric doubling is seen, in connection with the subduction of the Ionian lithosphere. The asthenosphere is shallow in the Southern Tyrrhenian Sea. High velocity bodies, cutting the asthenosphere, outline the Adria-lonian subduction in the Tyrrhenian Sea and the deep-reaching lithospheric root in the Western Alps. Less deep lithospheric roots are seen in the Central Apennines. The lithosphere-asthenosphere properties delineat...

  16. The lithosphere-asthenosphere: Italy and surroundings

    Institute of Scientific and Technical Information of China (English)

    GiulianoF.Panza; AntonellaPontevivo; GiordanoChimera; RenetaRaykova; AbdelkrimAoudia

    2003-01-01

    The velocity-depth distribution of the lithosphere-asthenosphere in the Italian region and surroundings is imaged, with a lateral resolution of about 100 km, by sur-face wave velocity tomography and non-linear inversion.Maps of the Moho depth, of the thickness of the lithos-phere and of the shear-wave velocities, down to depths of 200 km and more, are constructed. A mantle wedge, iden-tified in the uppermost mantle along the Apennines and the Calabrian Arc, underlies the prmctpat recent votca-noes, and partial melting can be relevant in this part of the uppermost mantle. In Calabria, a lithospheric dou-bling is seen, in connection with the subduction of the Ionian lithosphere. The asthenosphere is shallow in the Southern Tyrrhenian Sea. High velocity bodies, cutting the asthenosphere, outline the Adria-lonian subduction in the Tyrrhenian Sea and the deep-reaching lithospheric root in the Western Alps. Less deep lithospheric roots are seen in the Central Apennines. The lithosphere-asthenos-phere properties delineate a differentiation between the northern and the southern sectors of the Adriatic Sea,likely attesting the fragmentation of Adria.

  17. High-density SNP association study of the 17q21 chromosomal region linked to autism identifies CACNA1G as a novel candidate gene.

    Science.gov (United States)

    Strom, S P; Stone, J L; Ten Bosch, J R; Merriman, B; Cantor, R M; Geschwind, D H; Nelson, S F

    2010-10-01

    Chromosome 17q11-q21 is a region of the genome likely to harbor susceptibility to autism (MIM(209850)) based on earlier evidence of linkage to the disorder. This linkage is specific to multiplex pedigrees containing only male probands (MO) within the Autism Genetic Resource Exchange (AGRE). Earlier, Stone et al.(1) completed a high-density single nucleotide polymorphism association study of 13.7 Mb within this interval, but common variant association was not sufficient to account for the linkage signal. Here, we extend this single nucleotide polymorphism-based association study to complete the coverage of the two-LOD support interval around the chromosome 17q linkage peak by testing the majority of common alleles in 284 MO trios. Markers within an interval containing the gene, CACNA1G, were found to be associated with Autism Spectrum Disorder at a locally significant level (P=1.9 × 10(-5)). While establishing CACNA1G as a novel candidate gene for autism, these alleles do not contribute a sufficient genetic effect to explain the observed linkage, indicating that there is substantial genetic heterogeneity despite the clear linkage signal. The region thus likely harbors a combination of multiple common and rare alleles contributing to the genetic risk. These data, along with earlier studies of chromosomes 5 and 7q3, suggest few if any major common risk alleles account for Autism Spectrum Disorder risk under major linkage peaks in the AGRE sample. This provides important evidence for strategies to identify Autism Spectrum Disorder genes, suggesting that they should focus on identifying rare variants and common variants of small effect.

  18. Cassini's Cameras Catch Delightful Dynamics Surrounding Saturn

    Science.gov (United States)

    Burns, J. A.; Cassini Imaging Team

    2005-05-01

    Saturn's rings and satellites delight DDA members because of the baroque variety of their extant features and the pivotal role played by resonances. I will review some of the highlights imaged by Cassini during the first nine months of its mission. Numerous density waves, mainly in the outer A ring, were identified with unprecedented accuracy from high-resolution approach images. These include waves initiated by the classically known perturbing satellites, but also by tiny (though nearby) Atlas and Pan, the latter embedded within the A ring. Wavelet analyses have eased identification of waves, allowing estimates of the ring's areal mass density and viscosity, and the perturber's mass. The latter, when combined with satellite images, indicate that low satellite densities (ρ ˜ 0.5 g-cm-3) are the norm. Pan pries open the Encke gap, producing edge waves and imposing numerous (kinematic) gravity wakes. A narrow ringlet within that gap, coincident with Pan's orbit, shows clumps and wiggles that march along relative to Pan, presumably horseshoeing particles. All aspects of the narrow Keeler gap still await explanation. Several previously unknown structures may result from collective effects or non-linear instabilities as particles are driven together. The F ring's structure is beautifully complex but can be mostly understood as resulting from Prometheus's tugs. A few isolated narrow ringlets have been found, occasionally sharing the paths of known satellites. Some parts of the rings show time variability already. We eagerly await the switch of co-orbital Janus/Epimetheus in 2006, and again in 2010, and the plunge of Prometheus into the F ring in 2010. To date, three new satellites have been discovered: two orbit between the classical moons Mimas and Enceladus, while the third is a trailing Lagrangian of Dione. Several other objects, probably temporary clumps of material, were sighted near the F ring.

  19. Gene

    Data.gov (United States)

    U.S. Department of Health & Human Services — Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes,...

  20. Impacts of Artificial Reefs on Surrounding Ecosystems

    Science.gov (United States)

    Manoukian, Sarine

    Artificial reefs are becoming a popular biological and management component in shallow water environments characterized by soft seabed, representing both important marine habitats and tools to manage coastal fisheries and resources. An artificial reef in the marine environment acts as an open system with exchange of material and energy, altering the physical and biological characteristics of the surrounding area. Reef stability will depend on the balance of scour, settlement, and burial resulting from ocean conditions over time. Because of the unstable nature of sediments, they require a detailed and systematic investigation. Acoustic systems like high-frequency multibeam sonar are efficient tools in monitoring the environmental evolution around artificial reefs, whereas water turbidity can limit visual dive and ROV inspections. A high-frequency multibeam echo sounder offers the potential of detecting fine-scale distribution of reef units, providing an unprecedented level of resolution, coverage, and spatial definition. How do artificial reefs change over time in relation to the coastal processes? How accurately does multibeam technology map different typologies of artificial modules of known size and shape? How do artificial reefs affect fish school behavior? What are the limitations of multibeam technology for investigating fish school distribution as well as spatial and temporal changes? This study addresses the above questions and presents results of a new approach for artificial reef seafloor mapping over time, based upon an integrated analysis of multibeam swath bathymetry data and geoscientific information (backscatter data analysis, SCUBA observations, physical oceanographic data, and previous findings on the geology and sedimentation processes, integrated with unpublished data) from Senigallia artificial reef, northwestern Adriatic Sea (Italy) and St. Petersburg Beach Reef, west-central Florida continental shelf. A new approach for observation of fish

  1. Identification of Sequence Variation in the Apolipoprotein A2 Gene and Their Relationship with Serum High-Density Lipoprotein Cholesterol Levels

    Science.gov (United States)

    Bandarian, Fatemeh; Daneshpour, Maryam Sadat; Hedayati, Mehdi; Naseri, Mohsen; Azizi, Fereidoun

    2016-01-01

    Background: Apolipoprotein A2 (APOA2) is the second major apolipoprotein of the high-density lipoprotein cholesterol (HDL-C). The study aim was to identify APOA2 gene variation in individuals within two extreme tails of HDL-C levels and its relationship with HDL-C level. Methods: This cross-sectional survey was conducted on participants from Tehran Glucose and Lipid Study (TLGS) at Research Institute for Endocrine Sciences, Tehran, Iran from April 2012 to February 2013. In total, 79 individuals with extreme low HDL-C levels (≤5th percentile for age and gender) and 63 individuals with extreme high HDL-C levels (≥95th percentile for age and gender) were selected. Variants were identified using DNA amplification and direct sequencing. Results: Screen of all exons and the core promoter region of APOA2 gene identified nine single nucleotide substitutions and one microsatellite; five of which were known and four were new variants. Of these nine variants, two were common tag single nucleotide polymorphisms (SNPs) and seven were rare SNPs. Both exonic substitutions were missense mutations and caused an amino acid change. There was a significant association between the new missense mutation (variant Chr.1:16119226, Ala98Pro) and HDL-C level. Conclusion: None of two common tag SNPs of rs6413453 and rs5082 contributes to the HDL-C trait in Iranian population, but a new missense mutation in APOA2 in our population has a significant association with HDL-C. PMID:26590203

  2. Status of 25-hydroxyvitamin D deficiency and effect of vitamin D receptor gene polymorphisms on bone mineral density in thalassemia patients of North India.

    Science.gov (United States)

    Singh, Kritanjali; Kumar, Ravindra; Shukla, Anju; Phadke, Shubha R; Agarwal, Sarita

    2012-09-01

    Bone disease comprising of low bone mineral density (BMD), bone pain, and fractures is a characteristic feature of thalassemia. Vitamin D receptors (VDRs - FokI, TaqI, and Bsml) polymorphisms are closely related to low BMD at the lumbar spine and hips which can be used as a useful genetic marker in predicting bone disease in these patients. To find out the status of VDRs gene polymorphisms and its effect on osteoporosis in thalassemia patients of North Indian origin. BMD was measured in 40 beta-thalassemia major patients by dual-energy X-ray densitometry (DXA). Serum vitamin D levels were estimated by enzyme linked immunosorbant assay. VDR gene polymorphisms (FokI, TaqI, and BsmI) were analyzed by polymerase chain reaction restriction fragment length polymorphism (PCR-RFLP) method. About 80.6% cases were found to be vitamin D deficient. Z score of BMD of lumbar spine and hips were -2.31 ± 1.18 and -2.09 ± 0.89. Osteoporotic lumbar spine was observed in 42.5% cases of thalassemia. A positive correlation of vitamin D level was found with Z score of BMD of lumbar spine (r = 0.398, P value = 0.027). Polymorphisms of FokI and BsmI were found significantly correlated with BMD of lumbar spine. However, no association of BMD was observed with TaqI polymorphism. The present study showed a high prevalence of low BMD in thalassemia, suggesting that they should be targeted for DXA screening and osteoporosis prevention before permanent end organ bone damage occurs. The VDR genotyping can be used as additional test in individuals who are susceptible to osteoporosis so that early preventive measurements can be taken.

  3. Detection of a novel mutation Y468X in exon 10 of the low-density lipoprotein receptor gene causing heterozygous familial hypercholesterolemia among French Canadians

    Energy Technology Data Exchange (ETDEWEB)

    Couture, P.; Simard, J.; Moorjani, S. [Laval Univ., Quebec (Canada)

    1994-09-01

    Familial hypercholesterolemia (FH) is caused by mutations in the low-density lipoprotein (LDL) receptor gene and characterized by raised plasma LDL-cholesterol (C) and premature coronary heart disease. FH has higher frequency among French Canadians (FC) in northeastern Quebec than in most other populations, 1:154 vs. 1:500. In FC, five mutations account for all the mutant alleles in homozygous FH and 81% in heterozygous FH; thus 19% are uncharacterized at the molecular level. We investigated the possibility of additional mutations(s), and direct sequencing of asymmetric PCR fragments showed a novel mutation (468 stop-codon) in the heterozygous form in exon 10 of the LDL receptor gene. This mutation results from cytosine to guanine transversion, converting codon 468 (TAC) encoding tyrosine into TAG stop-codon (Y468X). This nonsense mutation will result in a truncated protein shortened by 371 amino acids which will be rapidly degraded. However, we did not ascertain the functional aspects. We rather assessed its effects on the extent of elevation of LDL-C in heterozygous FH children. The Y468X mutation resulted in raised LDL-C levels which were comparable to subjects with a non-functional `null` allele due to deletion of the promoter region and exon 1 (237{plus_minus}49 vs. 248 {plus_minus}41 mg/dl; mean{plus_minus}SD, p<0.05). The relative frequency of the Y468X mutation in a cohort of 343 children suspected for FH is 4.1% and it ranks number 4 in term of its prevalence. High frequency of FH among FC is attributed to a founder effect due to a high prevalence of one mutation; it is suggested that this novel mutation with low prevalence may be of later entry in this population.

  4. Molecular gas and triggered star formation surrounding Wolf-Rayet stars

    CERN Document Server

    Liu, Tie; Zhang, Huawei

    2012-01-01

    The environments surrounding nine Wolf-Rayet stars were studied in molecular emission. Expanding shells were detected surrounding these WR stars (see left panels of Figure 1). The average masses and radii of the molecular cores surrounding these WR stars anti-correlate with the WR stellar wind velocities (middle panels of Figure 1), indicating the WR stars has great impact on their environments. The number density of Young Stellar Objects (YSOs) is enhanced in the molecular shells at $\\sim$5 arcmin from the central WR star (lower-right panel of Figure 1). Through detailed studies of the molecular shells and YSOs, we find strong evidences of triggered star formation in the fragmented molecular shells (\\cite[Liu et al. 2010]{liu_etal12}

  5. Polymorphisms in genes involved in the NF-κB signalling pathway are associated with bone mineral density, geometry and turnover in men.

    Directory of Open Access Journals (Sweden)

    Delnaz Roshandel

    Full Text Available INTRODUCTION: In this study, we aimed to investigate the association between single nucleotide polymorphisms (SNPs within two genes involved in the NF-κB cascade (GPR177 and MAP3K14 and bone mineral density (BMD assessed at different skeletal sites, radial geometric parameters and bone turnover. METHODS: Ten GPR177 SNPs previously associated with BMD with genome-wide significance and twelve tag SNPs (r(2≥0.8 within MAP3K14 (±10 kb were genotyped in 2359 men aged 40-79 years recruited from 8 centres for participation in the European Male Aging Study (EMAS. Measurement of bone turnover markers (PINP and CTX-I in the serum and quantitative ultrasound (QUS at the calcaneus were performed in all centres. Dual energy X-ray absorptiometry (DXA, at the lumbar spine and hip, and peripheral quantitative computed tomography (pQCT, at the distal and midshaft radius, were performed in a subsample (2 centres. Linear regression was used to test for association between the SNPs and bone measures under an additive genetic model adjusting for study centre. RESULTS: We validated the associations between SNPs in GPR177 and BMD(a previously reported and also observed evidence of pleiotrophic effects on density and geometry. Rs2772300 in GPR177 was associated with increased total hip and LS BMD(a, increased total and cortical vBMD at the radius and increased cortical area, thickness and stress strain index. We also found evidence of association with BMD(a, vBMD, geometric parameters and CTX-I for SNPs in MAP3K14. None of the GPR177 and MAP3K14 SNPs were associated with calcaneal estimated BMD measured by QUS. CONCLUSION: Our findings suggest that SNPs in GPR177 and MAP3K14 involved in the NF-κB signalling pathway influence bone mineral density, geometry and turnover in a population-based cohort of middle aged and elderly men. This adds to the understanding of the role of genetic variation in this pathway in determining bone health.

  6. Physiological conditions conducive to high cell density and high cyanophycin content in Ralstonia eutropha strain H16 possessing a KDPG aldolase gene-dependent addiction system.

    Science.gov (United States)

    Lin, Kaichien; Elbahloul, Yasser; Steinbüchel, Alexander

    2012-03-01

    The recombinant strain of Ralstonia eutropha H16-PHB(-)4-∆eda (pBBR1MCS-2::cphA (6308)/eda (H16)) presenting a 2-keto-3-desoxy-phosphogluconate (KDPG) aldolase (eda) gene-dependent catabolic addiction system for plasmid maintenance when using gluconate or fructose as sole carbon source was used in this study. The effects of the initial pH, the nitrogen-to-carbon ratio, the inorganic components of medium, the oxygen supply, and the different carbon and nitrogen sources on the cell dry matter (CDM) and the cyanophycin granule polypeptide (CGP) content of the cells were studied in a mineral salts medium (MSM) without any additional amino acids or CGP precursor substrates. The experiments were designed to systematically find out the optimal conditions for growth of cells to high densities and for high CGP contents of the cells. Maximum contents of water-insoluble CGP and water-soluble CGP, contributing to 47.5% and 5.8% (w/w) of CDM, respectively, were obtained at the 30-L scale cultivation when cells were cultivated in MSM medium containing sufficient supplements of fructose, NH(3), K(2)SO(4), MgSO(4)[Symbol: see text]7H(2)O, Fe(Ш)NH(4)-citrate, CaCl(2)[Symbol: see text]2H(2)O, and trace elements (SL6). The molecular masses of water-insoluble and water-soluble CGP ranged from 25 to 31 kDa and from 15 to 21 kDa, respectively. High cell densities of up to 82.8 g CDM/L containing up to 37.8% (w/w) water-insoluble CGP at the 30-L scale cultivation were also obtained. This is by far the best combination of high cell density and high cellular CGP contents ever reported, and it showed that efficient production of CGP at the industrial scale in white biotechnology could be achieved.

  7. The Val432Leu polymorphism of the CYP1B1 gene is associated with differences in estrogen metabolism and bone density.

    Science.gov (United States)

    Napoli, Nicola; Rini, Giovam Battista; Serber, Daniel; Giri, Tusar; Yarramaneni, Jayasree; Bucchieri, Salvatore; Camarda, Lawrence; Di Fede, Gaetana; Camarda, Marcello Rosolino; Jain, Sudahansu; Mumm, Steven; Armamento-Villareal, Reina

    2009-03-01

    Polymorphisms of the CYP450 genes that encode for the enzymes that metabolize estrogen are linked to hormone-related cancers. We investigated the impact of two polymorphisms of the CYP1B1 gene previously reported to be associated with hormone-related disorders on estrogen metabolism and bone mineral density (BMD), another hormone-dependent condition, in women from different ethnic backgrounds. Four hundred sixty-eight postmenopausal Caucasian women, 220 from St. Louis, MO, USA (mean age=63.5+/-0.53 years) and 248 from Palermo, Italy (mean age=72.9+/-0.44 years) participated in the study. Measurements of urinary estrogen metabolites by enzyme-linked immunoassay, serum estradiol by ultrasensitive radioimmnunoassay, and serum sex hormone-binding globulin by immunoradiometric assay were performed only in the American women, while BMD by dual energy X-ray absorptiometry and genotyping by pyrosequencing were performed in both American and Italian women. Differences in the levels of metabolites, free estradiol index and BMD were analyzed by analysis of covariance. Analysis among the American participants for the Valine432Leucine polymorphism showed that, compared to women with the Val/Val genotype, women with the Leu allele (Val/Leu and Leu/Leu) had significantly higher log-transformed values of total urinary estrogen metabolite (ng/mg-creatinine) levels (1.23+/-0.04, 1.35+/-0.02, and 1.34+/-0.03; p=0.03), and significantly lower BMD (gm/cm(2)) in the lumbar spine (1.009+/-0.02, 0.955+/-0.01 and 0.931+/-0.02; p=0.03) and the femoral neck (0.748+/-0.02, 0.717+/-0.01 and 0.693+/-001, p=0.03) for the Val/Val, Val/Leu and Leu/Leu genotypes respectively. There were no significant differences in the urinary metabolites and BMD in the different genotypes for the Alanine119Serine polymorphism among the American women. Meanwhile, a separate analysis among the Italian women revealed no significant differences in BMD among the different genotypes for the two polymorphisms

  8. The association of very low-density lipoprotein receptor (VLDLR haplotypes with egg production indicates VLDLR is a candidate gene for modulating egg production

    Directory of Open Access Journals (Sweden)

    ZhePeng Wang

    Full Text Available Abstract The very low-density lipoprotein receptor (VLDLR transports egg yolk precursors into oocytes. However, our knowledge of the distribution patterns of VLDLR variants among breeds and their relationship to egg production is still incomplete. In this study, eight single nucleotide polymorphisms (SNPs that account for 87% of all VLDLR variants were genotyped in Nick Chick (NC, n=91, Lohmann Brown (LohB, n=50 and Lueyang (LY, n=381 chickens, the latter being an Chinese indigenous breed. Egg production by NC and LY chickens was recorded from 17 to 50 weeks. Only four similar haplotypes were found in NC and LohB, of which two accounted for 100% of all NC haplotypes and 92.5% of LohB haplotypes. In contrast, there was considerable haplotypic diversity in LY. Comparison of egg production in LY showed that hens with NC-like haplotypes had a significantly higher production (p < 0.05 than those without the haplotypes. However, VLDLR expression was not significantly different between the haplotypes. These findings indicate a divergence in the distribution of VLDLR haplotypes between selected and non-selected breeds and suggest that the near fixation of VLDLR variants in NC and LohB is compatible with signature of selection. These data also support VLDLR as a candidate gene for modulating egg production.

  9. Association of Sp1 Collagen Type Iα1 Gene Polymorphisms with Bone Mineral Density in Bulgarian Women Referred for Bone Densitometry

    Directory of Open Access Journals (Sweden)

    Andon K. Toshev

    2011-09-01

    Full Text Available Objectives: To investigate the association between bone mineral density (BMD and collagen type Iα1 (COLIA1 gene polymorphisms in a case-control study.Materials and Methods: 400 unrelated postmenopausal Bulgarian women participated - 180 with normal BMD and 220 with low BMD. BMD was measured at the forearm, lumbar spine and femoral neck by X-ray absorptiometry. A PCR product of 261 bp was digested and electrophoresed. The prevalence of S and s alleles as well as the different genotypes was determined. All analyses were tested for statistical significance (c2-test.Results: 408 s and 392 S alleles were found. Of the 220 women with low BMD, 20 had the SS genotype, 94 – the Ss genotype, and 106 – the ss genotype. Among the 180 controls with normal BMD, 93 had the SS genotype, 76 - the Ss, and 11 – the ss genotype. The SS genotype was associated with higher BMD and the ss – with lower BMD at all sites. The odds ratio for low BMD in the presence of the ss genotype was 10.69.Conclusion: In our study sample, the COLIA1 polymorphism was associated with low BMD. This particular genetic polymorphism may become a useful genetic screening tool for osteoporosis. Türk Jem 2011; 15: 66-70

  10. Expression of zebrafish nos2b surrounds oral cavity.

    Science.gov (United States)

    Poon, Kar-Lai; Richardson, Michael; Korzh, Vladimir

    2008-06-01

    Inducible nitric oxide synthase (NOS2) catalyzes the production of nitric oxide (NO), and is one of the factors establishing innate immunity. In zebrafish, Nos2 is represented by nos2a and nos2b. Here, we report the cloning and expression pattern of the zebrafish nos2b gene, which does not seem to participate in induced immune response. nos2b was mapped to zebrafish linkage group 15. The spatial and temporal expression pattern of nos2b in embryonic zebrafish was analyzed by whole-mount in situ hybridization. nos2b is expressed constitutively in two primordia located along the ventral midline. The first group of cells contributes to the neurohypophysis. Initially at the level of the ventral hindbrain, the second group of cells migrates closely with the thyroid primordium to its final position at the basihyal by 3 dpf. Thus, the analysis of expression pattern of nos2b reveals complex morphogenetic movements resulting in its expression surrounding the oral cavity.

  11. An increased coronary risk is paradoxically associated with common cholesteryl ester transfer protein gene variations that relate to higher high-density lipoprotein cholesterol: A population-based study

    NARCIS (Netherlands)

    S.E. Borggreve (Susanna); H.L. Hillege (Hans); B.H.R. Wolffenbuttel (Bruce); P. de Jong (Paul); M.W. Zuurman (Mike); G. van der Steege (Gerrit); A. van Tol (Arie); R.P.F. Dullaart (Robin)

    2006-01-01

    textabstractBackground: Several cholesteryl ester transfer protein (CETP) polymorphisms affect high-density lipoprotein (HDL) cholesterol, but the impact of CETP gene variants on incident coronary disease in the general population is uncertain after correction for their effect on HDL cholesterol. De

  12. Common Genetic Variation in the DKK1 Gene is Associated with Hip Axis Length but not with Bone Mineral Density and Bone Turnover Markers in Young Adult Men: Results from the Odense Androgen Study

    DEFF Research Database (Denmark)

    Piters, Elke; Balemans, Wendy; Nielsen, Torben Leo

    2010-01-01

    LRP5 was recently confirmed as an important susceptibility gene for osteoporosis. Our objective was to evaluate the effect of DKK1 polymorphisms on bone mineral density (BMD), hip geometry, and bone turnover. DKK1 is a secreted protein that binds to LRP5/6 receptors and inhibits canonical Wnt...

  13. High-density lipoprotein cholesterol is related to the TaqIB cholesteryl ester transfer protein gene polymorphism and smoking, but not to moderate alcohol consumption in insulin-dependent diabetic men

    NARCIS (Netherlands)

    Dullaart, RPF; Beusekamp, BJ; Riemens, SC; Hoogenberg, K; Stulp, BK; Van Tol, A; Sluiter, WJ

    1998-01-01

    In non-diabetic subjects, the high-density lipoprotein (HDL) cholesterol level is increased by alcohol and decreased by smoking. The biallelic B1B2 polymorphism of the cholesteryl ester transfer protein (CETP) gene is a genetic determinant of HDL cholesterol. We evaluated the effect of moderate alco

  14. Highly Enriched Uranium Metal Cylinders Surrounded by Various Reflector Materials

    Energy Technology Data Exchange (ETDEWEB)

    Bernard Jones; J. Blair Briggs; Leland Monteirth

    2007-05-01

    A series of experiments was performed at Los Alamos Scientific Laboratory in 1958 to determine critical masses of cylinders of Oralloy (Oy) reflected by a number of materials. The experiments were all performed on the Comet Universal Critical Assembly Machine, and consisted of discs of highly enriched uranium (93.3 wt.% 235U) reflected by half-inch and one-inch-thick cylindrical shells of various reflector materials. The experiments were performed by members of Group N-2, particularly K. W. Gallup, G. E. Hansen, H. C. Paxton, and R. H. White. This experiment was intended to ascertain critical masses for criticality safety purposes, as well as to compare neutron transport cross sections to those obtained from danger coefficient measurements with the Topsy Oralloy-Tuballoy reflected and Godiva unreflected critical assemblies. The reflector materials examined in this series of experiments are as follows: magnesium, titanium, aluminum, graphite, mild steel, nickel, copper, cobalt, molybdenum, natural uranium, tungsten, beryllium, aluminum oxide, molybdenum carbide, and polythene (polyethylene). Also included are two special configurations of composite beryllium and iron reflectors. Analyses were performed in which uncertainty associated with six different parameters was evaluated; namely, extrapolation to the uranium critical mass, uranium density, 235U enrichment, reflector density, reflector thickness, and reflector impurities. In addition to the idealizations made by the experimenters (removal of the platen and diaphragm), two simplifications were also made to the benchmark models that resulted in a small bias and additional uncertainty. First of all, since impurities in core and reflector materials are only estimated, they are not included in the benchmark models. Secondly, the room, support structure, and other possible surrounding equipment were not included in the model. Bias values that result from these two simplifications were determined and associated

  15. Thermodynamics and Phase transition of the Reissner-Nordstr\\"om Black Hole surrounded by quintessence

    CERN Document Server

    Saleh, Mahamat; Crepin, Kofane Timoleon

    2016-01-01

    We investigate thermodynamics and Phase transition of the Reissner-Nordstr\\"om black hole surrounded by quintessence. Using thermodynamical laws of black holes, we derive the expressions of some thermodynamics quantities for the Reissner-Nordstr\\"om black hole surrounded by quintessence. The variations of the temperature and heat capacity with the entropy were plotted for different values of the state parameter related to the quintessence, $\\omega_{q}$, and the normalization constant related to the density of quintessence $c$. We show that when varying the entropy of the black hole a phase transition is observed in the black hole. Moreover, when increasing the density of quintessence, the transition point is shifted to lower entropy and the temperature of the black hole decreases.

  16. Tomography images of the Alpine roots and surrounding upper mantle

    Science.gov (United States)

    Plomerova, Jaroslava; Babuska, Vladislav

    2017-04-01

    Teleseismic body-wave tomography represents powerful tool to study regional velocity structure of the upper mantle and to image velocity anomalies, such as subducted lithosphere plates in collisional zones. In this contribution, we recapitulate 3D models of the upper mantle beneath the Alps, which developed at a collision zone of the Eurasian and African plates. Seismic tomography studies indicate a leading role of the rigid mantle lithosphere that functioned as a major stress guide during the plate collisions. Interactions of the European lithosphere with several micro-plates in the south resulted in an arcuate shape of this mountain range on the surface and in a complicated geometry of the Alpine subductions in the mantle. Early models with one bended lithosphere root have been replaced with more advanced models showing two separate lithosphere roots beneath the Western and Eastern Alps (Babuska et al., Tectonophysics 1990; Lippitsch et al., JGR 2003). The standard isotropic velocity tomography, based on pre-AlpArray data (the currently performed passive seismic experiment in the Alps and surroundings) images the south-eastward dipping curved slab of the Eurasian lithosphere in the Western Alps. On the contrary, beneath the Eastern Alps the results indicate a very steep northward dipping root that resulted from the collision of the European plate with the Adriatic microplate. Dando et al. (2011) interpret high-velocity heterogeneities at the bottom of their regional tomographic model as a graveyard of old subducted lithospheres. High density of stations, large amount of rays and dense ray-coverage of the volume studied are not the only essential pre-requisites for reliable tomography results. A compromise between the amount of pre-processed data and the high-quality of the tomography input (travel-time residuals) is of the high importance as well. For the first time, the existence of two separate roots beneath the Alps has been revealed from carefully pre

  17. Expression of the human apolipoprotein A-I gene in transgenic mice alters high density lipoprotein (HDL) particle size distribution and diminishes selective uptake of HDL cholesteryl esters

    Energy Technology Data Exchange (ETDEWEB)

    Chajekshaul, T.; Hayek, T.; Walsh, A.; Breslow, J.L. (Rockefeller University, New York, NY (USA))

    1991-08-01

    Transgenic mice carrying the human apolipoprotein (apo) A-I gene (HuAITg mice) were used to examine the effects of overexpression of the human gene on high density lipoprotein (HDL) particle size distribution and metabolism. On a chow diet, control mice had HDL cholesterol and apo A-I levels of 49 {plus minus} 2 and 137 {plus minus} 12 mg/dl of plasma, respectively. HuAITg mice had HDL cholesterol, human apo A-I, and mouse apo A-I levels of 88 {plus minus} 2, 255 {plus minus} 19, and 16 {plus minus} 2 mg/dl, respectively. Nondenaturing gradient gel electrophoresis revealed control mouse plasma HDL to be primarily monodisperse with a particle diameter of 10.2 nm, whereas HuAITg mouse plasma HDL was polydisperse with particles of diameter 11.4, 10.2, and 8.7 nm, which correspond in size to human HDL1, HDL2, and HDL3, respectively. In vivo turnover studies of HDL labeled with (3H)cholesteryl linoleyl ether and 125I-apo A-I were performed. In control animals, the fractional catabolic rate (FCR) for HDL cholesteryl ester was significantly more than the apo A-I FCR. In the HuAITg mice, the HDL cholesteryl ester FCR was the same as the apo A-I FCR. There were no significant differences between control and HuAITg animals in the sites of tissue removal of HDL cholesteryl ester, with the liver extracting most of the injected radioactivity. Control and HuAITg animals had comparable liver and intestinal cholesterol synthesis and LDL FCR. In conclusion, HuAITg mice have principally human and not mouse apo A-I in their plasma. This apparently causes a change in HDL particle size distribution in the transgenic mice to one resembling the human pattern. The replacement of mouse by human apo A-I also apparently causes the loss of the selective uptake pathway of HDL cholesteryl esters present in control mice.

  18. Electromagnetic effects on the biological tissue surrounding a transcutaneous transformer for an artificial anal sphincter system*

    Science.gov (United States)

    Zan, Peng; Yang, Bang-hua; Shao, Yong; Yan, Guo-zheng; Liu, Hua

    2010-01-01

    This paper reports on the electromagnetic effects on the biological tissue surrounding a transcutaneous transformer for an artificial anal sphincter. The coupling coils and human tissues, including the skin, fat, muscle, liver, and blood, were considered. Specific absorption rate (SAR) and current density were analyzed by a finite-length solenoid model. First, SAR and current density as a function of frequency (10–107 Hz) for an emission current of 1.5 A were calculated under different tissue thickness. Then relations between SAR, current density, and five types of tissues under each frequency were deduced. As a result, both the SAR and current density were below the basic restrictions of the International Commission on Non-Ionizing Radiation Protection (ICNIRP). The results show that the analysis of these data is very important for developing the artificial anal sphincter system. PMID:21121071

  19. Road density

    Data.gov (United States)

    U.S. Environmental Protection Agency — Road density is generally highly correlated with amount of developed land cover. High road densities usually indicate high levels of ecological disturbance. More...

  20. Association of genetic variations of genes encoding thrombospondin, type 1, domain-containing 4 and 7A with low bone mineral density in Japanese women with osteoporosis.

    Science.gov (United States)

    Mori, Seijiro; Kou, Ikuyo; Sato, Hidenori; Emi, Mitsuru; Ito, Hideki; Hosoi, Takayuki; Ikegawa, Shiro

    2008-01-01

    Twins and family studies have shown that genetic factors are important determinants of bone mass. Important aspects of bone mineral density (BMD) regulation are endocrine systems, notably hormonal regulation of adrenal corticoids, as indicated by clinical knowledge of glucocorticoid-induced osteoporosis. Glucocorticoid is known to negatively regulate bone mass in vivo, and glucocorticoid increases thrombospondin messenger ribonucleic acid (mRNA) levels. We studied single nucleotide polymorphisms (SNPs) in genes encoding thrombospondin, type 1, domain-containing 4 and 7A (THSD4 and THSD7A) for possible association with lumbar and femoral BMD among 337 Japanese women with osteoporosis who participated in the BioBank Japan project. Genetic variations of THSD4 and THSD7A loci displayed significant association with lumbar and femoral BMD. Most significant correlation was observed for THSD7A SNP rs12673692 with lumbar BMD (P = 0.00017). Homozygous carriers of the major (G) allele had the highest BMD [0.886 +/- 0.011 g/cm2, mean +/- standard deviation (SD)], whereas heterozygous carriers were intermediate (0.872 +/- 0.013 g/cm2) and homozygous A-allele carriers had the lowest (0.753 +/- 0.023 g/cm2). THSD4 SNP rs10851839 also displayed strong association with lumbar BMD (P = 0.0092). In addition, both THSD7A and THSD4 displayed significant association with femoral BMD in a recessive model (P = 0.036 and P = 0.0046, respectively). Results suggest that variations of THSD7A and THSD4 loci may be important determinants of osteoporosis in Japanese women.

  1. No association of the polymorphisms of the frizzled-related protein gene with peak bone mineral density in Chinese nuclear families

    Directory of Open Access Journals (Sweden)

    Yue Hua

    2010-01-01

    Full Text Available Abstract Background The Wnt/beta-catenin signaling pathway plays an important role in skeletal development. Polymorphisms of frizzled-related protein (FRZB, an antagonist of this pathway, may generate variations in bone mineral density (BMD. In this study, we analyzed the association between FRZB genotypes and peak BMD variation in the spines and hips of two relatively large samples of Chinese female-offspring and male-offspring nuclear families. Methods We recruited 1,260 subjects from 401 female-offspring nuclear families and 1,296 subjects from 427 male-offspring nuclear families and genotyped four tagging single nucleotide polymorphisms (tagSNPs (rs6433993, rs409238, rs288324, and rs4666865 spanning the entire FRZB gene. The SNPs rs288326 and rs7775, which are associated with hip osteoarthritis, were not selected in this study because of their low minor allele frequencies (MAFs in Chinese people. The quantitative transmission disequilibrium test (QTDT was used to analyze the association between each SNP and haplotype with peak BMD in female- and male-offspring nuclear families. Results In the female-offspring nuclear families, we found no evidence of an association between either single SNPs or haplotypes and peak BMD in the spine or hip. In the male-offspring nuclear families, no within-family association was observed for either SNPs or haplotypes, although a significant total association was found between rs4666865 and spine BMD (P = 0.0299. Conclusion Our results suggest that natural variation in FRZB is not a major contributor to the observed variability in peak BMD in either Chinese females or males. Because ethnic differences in the FRZB genotypes may exist, other studies in different population are required to confirm such results.

  2. Genetic dissection of yield and its component traits using high-density composite map of wheat chromosome 3A: bridging gaps between QTLs and underlying genes.

    Directory of Open Access Journals (Sweden)

    Sachin Rustgi

    Full Text Available Earlier we identified wheat (Triticum aestivum L. chromosome 3A as a major determinant of grain yield and its component traits. In the present study, a high-density genetic linkage map of 81 chromosome 3A-specific markers was developed to increase the precision of previously identified yield component QTLs, and to map QTLs for biomass-related traits. Many of the previously identified QTLs for yield and its component traits were confirmed and were localized to narrower intervals. Four novel QTLs one each for shoot biomass (Xcfa2262-Xbcd366, total biomass (wPt2740-Xcfa2076, kernels/spike (KPS (Xwmc664-Xbarc67, and Pseudocercosporella induced lodging (PsIL were also detected. The major QTLs identified for grain yield (GY, KPS, grain volume weight (GVWT and spikes per square meter (SPSM respectively explained 23.2%, 24.2%, 20.5% and 20.2% of the phenotypic variation. Comparison of the genetic map with the integrated physical map allowed estimation of recombination frequency in the regions of interest and suggested that QTLs for grain yield detected in the marker intervals Xcdo549-Xbarc310 and Xpsp3047-Xbarc356 reside in the high-recombination regions, thus should be amenable to map-based cloning. On the other hand, QTLs for KPS and SPSM flanked by markers Xwmc664 and Xwmc489 mapped in the low-recombination region thus are not suitable for map-based cloning. Comparisons with the rice (Oryza sativa L. genomic DNA sequence identified 11 candidate genes (CGs for yield and yield related QTLs of which chromosomal location of two (CKX2 and GID2-like was confirmed using wheat aneuploids. This study provides necessary information to perform high-resolution mapping for map-based cloning and for CG-based cloning of yield QTLs.

  3. Coordinate up-regulation of low-density lipoprotein receptor and cyclo-oxygenase-2 gene expression in human colorectal cells and in colorectal adenocarcinoma biopsies

    Science.gov (United States)

    Lum, D. F.; McQuaid, K. R.; Gilbertson, V. L.; Hughes-Fulford, M.

    1999-01-01

    Many colorectal cancers have high levels of cyclo-oxygenase 2 (COX-2), an enzyme that metabolizes the essential fatty acids into prostaglandins. Since the low-density lipoprotein receptor (LDLr) is involved in the uptake of essential fatty acids, we studied the effect of LDL on growth and gene regulation in colorectal cancer cells. DiFi cells grown in lipoprotein-deficient sera (LPDS) grew more slowly than cells with LDL. LDLr antibody caused significant inhibition of tumor cell growth but did not affect controls. In addition, LDL uptake did not change in the presence of excess LDL, suggesting that ldlr mRNA lacks normal feedback regulation in some colorectal cancers. Analysis of the ldlr mRNA showed that excess LDL in the medium did not cause down-regulation of the message even after 24 hr. The second portion of the study examined the mRNA expression of ldlr and its co-regulation with cox-2 in normal and tumor specimens from patients with colorectal adenocarcinomas. The ratio of tumor:paired normal mucosa of mRNA expression of ldlr and of cox-2 was measured in specimens taken during colonoscopy. ldlr and cox-2 transcripts were apparent in 11 of 11 carcinomas. There was significant coordinate up-regulation both of ldlr and of cox-2 in 6 of 11 (55%) tumors compared with normal colonic mucosa. There was no up-regulation of cox-2 without concomitant up-regulation of ldlr. These data suggest that the LDLr is abnormally regulated in some colorectal tumors and may play a role in the up-regulation of cox-2. Copyright 1999 Wiley-Liss, Inc.

  4. THE CLASSIFICATION OF THE SURROUNDINGS OF COAL MINING ROADWAYS

    Institute of Scientific and Technical Information of China (English)

    邹喜正; 侯朝炯; 李华祥

    1996-01-01

    This introduces the calculation of opaper the deformationg .the Surroundings of coaowaysand the divisi of surroundings into 5 levels by means or !fuzzy integral assess mairrx, wnlcnserves-asthe scientific basis for selecting supporting pattern of roadways and determining the, pa-rameters of support.

  5. The Effects of GH Transgenic Goats on the Microflora of the Intestine, Feces and Surrounding Soil.

    Directory of Open Access Journals (Sweden)

    Zekun Bao

    Full Text Available The development of genetically engineered animals has brought with it increasing concerns about biosafety issues. We therefore evaluated the risks of growth hormone from transgenic goats, including the probability of horizontal gene transfer and the impact on the microbial community of the goats' gastrointestinal tracts, feces and the surrounding soil. The results showed that neither the GH nor the neoR gene could be detected in the samples. Moreover, there was no significant change in the microbial community of the gastrointestinal tracts, feces and soil, as tested with PCR-denaturing gradient gel electrophoresis and 16S rDNA sequencing. Finally, phylogenetic analysis showed that the intestinal content, feces and soil samples all contained the same dominant group of bacteria. These results demonstrated that expression of goat growth hormone in the mammary of GH transgenic goat does not influence the microflora of the intestine, feces and surrounding soil.

  6. The Effects of GH Transgenic Goats on the Microflora of the Intestine, Feces and Surrounding Soil.

    Science.gov (United States)

    Bao, Zekun; Gao, Xue; Zhang, Qiang; Lin, Jian; Hu, Weiwei; Yu, Huiqing; Chen, Jianquan; Yang, Qian; Yu, Qinghua

    2015-01-01

    The development of genetically engineered animals has brought with it increasing concerns about biosafety issues. We therefore evaluated the risks of growth hormone from transgenic goats, including the probability of horizontal gene transfer and the impact on the microbial community of the goats' gastrointestinal tracts, feces and the surrounding soil. The results showed that neither the GH nor the neoR gene could be detected in the samples. Moreover, there was no significant change in the microbial community of the gastrointestinal tracts, feces and soil, as tested with PCR-denaturing gradient gel electrophoresis and 16S rDNA sequencing. Finally, phylogenetic analysis showed that the intestinal content, feces and soil samples all contained the same dominant group of bacteria. These results demonstrated that expression of goat growth hormone in the mammary of GH transgenic goat does not influence the microflora of the intestine, feces and surrounding soil.

  7. The interstellar cloud surrounding the Sun: a new perspective

    Science.gov (United States)

    Gry, Cécile; Jenkins, Edward B.

    2014-07-01

    Aims: We offer a new, simpler picture of the local interstellar medium, made of a single continuous cloud enveloping the Sun. This new outlook enables the description of a diffuse cloud from within and brings to light some unexpected properties. Methods: We re-examine the kinematics and abundances of the local interstellar gas, as revealed by the published results for the ultraviolet absorption lines of Mg II, Fe II, and H I. Results: In contrast to previous representations, our new picture of the local interstellar medium consists of a single, monolithic cloud that surrounds the Sun in all directions and accounts for most of the matter present in the first 50 parsecs around the Sun. The cloud fills the space around us out to about 9 pc in most directions, although its boundary is very irregular with possibly a few extensions up to 20 pc. The cloud does not behave like a rigid body: gas within the cloud is being differentially decelerated in the direction of motion, and the cloud is expanding in directions perpendicular to this flow, much like a squashed balloon. Average H I volume densities inside the cloud vary between 0.03 and 0.1 cm-3 over different directions. Metals appear to be significantly depleted onto grains, and there is a steady increase in depletion from the rear of the cloud to the apex of motion. There is no evidence that changes in the ionizing radiation influence the apparent abundances. Secondary absorption components are detected in 60% of the sight lines. Almost all of them appear to be interior to the volume occupied by the main cloud. Half of the sight lines exhibit a secondary component moving at about -7.2 km s-1 with respect to the main component, which may be the signature of a shock propagating toward the cloud's interior.

  8. Black hole solutions surrounded by perfect fluid in Rastall theory

    Science.gov (United States)

    Heydarzade, Y.; Darabi, F.

    2017-08-01

    In this work, we obtain uncharged∖charged Kiselev-like black holes as a new class of black hole solutions surrounded by perfect fluid in the context of Rastall theory. Then, we study the specific cases of the uncharged∖charged black holes surrounded by regular matter like dust and radiation, or exotic matter like quintessence, cosmological constant and phantom fields. By comparing the Kiselev-like black hole solutions in Rastall theory with the Kiselev black hole solutions in GR, we find an effective perfect fluid behavior for the black hole's surrounding field. It is shown that the corresponding effective perfect fluid has interesting characteristic features depending on the different ranges of the parameters in Rastall theory. For instance, Kiselev-like black holes surrounded by regular matter in Rastall theory may be considered as Kiselev black holes surrounded by exotic matter in GR, or Kiselev-like black holes surrounded by exotic matter in Rastall theory may be considered as Kiselev black holes surrounded by regular matter in GR.

  9. Surround suppression and sparse coding in visual and barrel cortices

    Directory of Open Access Journals (Sweden)

    Robert N S Sachdev

    2012-07-01

    Full Text Available During natural vision the entire retina is stimulated. Likewise, during natural tactile behaviors, spatially extensive regions of the somatosensory surface are co-activated. The large spatial extent of naturalistic stimulation means that surround suppression, a phenomenon whose neural mechanisms remain a matter of debate, must arise during natural behavior. To identify common neural motifs that might instantiate surround suppression across modalities, we review models of surround suppression and compare the evidence supporting the competing ideas that surround suppression has either cortical or sub-cortical origins in visual and barrel cortex. In the visual system there is general agreement lateral inhibitory mechanisms contribute to surround suppression, but little direct experimental evidence that intracortical inhibition plays a major role. Two intracellular recording studies of V1, one using naturalistic stimuli (Haider et al., 2010, the other sinusoidal gratings (Ozeki et al., 2009, sought to identify the causes of reduced activity in V1 with increasing stimulus size, a hallmark of surround suppression. The former attributed this effect to increased inhibition, the latter to largely balanced withdrawal of excitation and inhibition. In rodent primary somatosensory barrel cortex, multi-whisker responses are generally weaker than single whisker responses, suggesting multi-whisker stimulation engages similar surround suppressive mechanisms. The origins of suppression in S1 remain elusive: studies have implicated brainstem lateral/internuclear interactions and both thalamic and cortical inhibition. Although the anatomical organization and instantiation of surround suppression in the visual and somatosensory systems differ, we consider the idea that one common function of surround suppression, in both modalities, is to remove the statistical redundancies associated with natural stimuli by increasing the sparseness or selectivity of sensory

  10. Lung density

    DEFF Research Database (Denmark)

    Garnett, E S; Webber, C E; Coates, G

    1977-01-01

    The density of a defined volume of the human lung can be measured in vivo by a new noninvasive technique. A beam of gamma-rays is directed at the lung and, by measuring the scattered gamma-rays, lung density is calculated. The density in the lower lobe of the right lung in normal man during quiet...... breathing in the sitting position ranged from 0.25 to 0.37 g.cm-3. Subnormal values were found in patients with emphsema. In patients with pulmonary congestion and edema, lung density values ranged from 0.33 to 0.93 g.cm-3. The lung density measurement correlated well with the findings in chest radiographs...... but the lung density values were more sensitive indices. This was particularly evident in serial observations of individual patients....

  11. Transcriptome-Wide High-Density Microarray Analysis Reveals Differential Gene Transcription in Periprosthetic Tissue From Hips With Chronic Periprosthetic Joint Infection vs Aseptic Loosening.

    Science.gov (United States)

    Omar, Mohamed; Klawonn, Frank; Brand, Stephan; Stiesch, Meike; Krettek, Christian; Eberhard, Jörg

    2017-01-01

    Differentiating between periprosthetic hip infection and aseptic hip prosthesis loosening can be challenging, especially in patients with chronic infections. This study used whole-genome microarray analysis to investigate the transcriptomes of periprosthetic hip tissues to identify genes that are differentially transcripted between chronic periprosthetic hip infection and aseptic hip prosthesis loosening. In this pilot study, a total of 24 patients with either chronic periprosthetic hip infection (n = 12) or aseptic hip prosthesis loosening (n = 12) were analyzed. Periprosthetic hip infection was diagnosed based on modified criteria of the Musculoskeletal Infection Society. To evaluate differences in gene transcription, whole-genome microarray analysis was performed on the mRNA of periprosthetic tissue. Microarray analysis revealed differential gene transcription in periprosthetic hip tissue affected by chronic hip infection vs aseptic hip prosthesis loosening. A total of 39 genes had area under the curve values greater than 0.9 for diagnosing chronic periprosthetic hip infection; 5 genes had annotations relevant to infection and metabolism. The 39 genes also included 7 genes that were differentially transcribed but that have no apparent connection to immune response processes plus 27 genes with unknown function. Differences in gene transcription profiles might represent novel diagnostic targets that can be used to differentiate between chronic periprosthetic hip infections and aseptic hip prosthesis loosening. Secondary metabolites of differentially transcripted genes might serve as easily accessible markers for detecting chronic periprosthetic joint infection in future. Copyright © 2016 Elsevier Inc. All rights reserved.

  12. Mammary cell turnover and expression of lipogenic genes in response to silage induced CLA and diet energy density in lactating cows

    DEFF Research Database (Denmark)

    Nørgaard, J V; Baumgard, L H; Nielsen, T Skau

    2008-01-01

    The objective of this experiment was to investigate possible effects of silage induced differences in milk conjugated linoleic acids (CLA) and diet energy density on cell turnover and production capacity in the mammary gland. Cows were given high levels of canola fat and fed either grass or maize...... silage at either a high or a low diet energy density....

  13. Cadmium triggers Elodea canadensis to change the surrounding water pH and thereby Cd uptake.

    Science.gov (United States)

    Javed, M Tariq; Greger, Maria

    2011-01-01

    This study was aimed to investigate the influence of Elodea canadensis shoots on surrounding water pH in the presence of cadmium and the effect of plant-induced pH on cadmium uptake. The pH change in the surrounding nutrient solution and Cd uptake by Elodea shoots were investigated after cultivation of various plant densities (1, 3, 6 plants per 500 ml) in hydroponics at a starting pH of 4.0 and in the presence of different concentrations of cadmium (0, 0.1, 0.5 microM). Cadmium uptake was also investigated at different constant pH (4.0, 4.5, 5.5 and 6.5). To investigate if the pH change arose from photosynthetic activities, plants were grown under light, darkness or in the presence of a photosynthetic inhibitor, 3-(3,4-dichlorophenyl)-1,1-dimethylurea (DCMU), and 0.5 microM cadmium in the solution. Elodea had an ability to increase the surrounding water pH, when the initial pH was low, which resulted in increased accumulation of Cd. The higher the plant density, the more pronounced was the pH change. The pH increase was not due to the photosynthetic activity since the pH rise was more pronounced under darkness and in the presence of DCMU. The pH increase by Elodea was triggered by cadmium.

  14. Surrounding Moving Obstacle Detection for Autonomous Driving Using Stereo Vision

    Directory of Open Access Journals (Sweden)

    Hao Sun

    2013-06-01

    Full Text Available Detection and tracking surrounding moving obstacles such as vehicles and pedestrians are crucial for the safety of mobile robotics and autonomous vehicles. This is especially the case in urban driving scenarios. This paper presents a novel framework for surrounding moving obstacles detection using binocular stereo vision. The contributions of our work are threefold. Firstly, a multiview feature matching scheme is presented for simultaneous stereo correspondence and motion correspondence searching. Secondly, the multiview geometry constraint derived from the relative camera positions in pairs of consecutive stereo views is exploited for surrounding moving obstacles detection. Thirdly, an adaptive particle filter is proposed for tracking of multiple moving obstacles in surrounding areas. Experimental results from real‐world driving sequences demonstrate the effectiveness and robustness of the proposed framework.

  15. Surrounding Moving Obstacle Detection for Autonomous Driving Using Stereo Vision

    Directory of Open Access Journals (Sweden)

    Hao Sun

    2013-06-01

    Full Text Available Detection and tracking surrounding moving obstacles such as vehicles and pedestrians are crucial for the safety of mobile robotics and autonomous vehicles. This is especially the case in urban driving scenarios. This paper presents a novel framework for surrounding moving obstacles detection using binocular stereo vision. The contributions of our work are threefold. Firstly, a multiview feature matching scheme is presented for simultaneous stereo correspondence and motion correspondence searching. Secondly, the multiview geometry constraint derived from the relative camera positions in pairs of consecutive stereo views is exploited for surrounding moving obstacles detection. Thirdly, an adaptive particle filter is proposed for tracking of multiple moving obstacles in surrounding areas. Experimental results from real-world driving sequences demonstrate the effectiveness and robustness of the proposed framework.

  16. Traditional Indian custOInS surrounding birth

    African Journals Online (AJOL)

    traditional custOIns surrounding birth in Indian culture. ... conception, pregnancy, birth and the early months ofparenthood. .... house attended by a traditional birth attendant of a ..... Spiritual components play a dominant role in traditional.

  17. Glow phenomenon surrounding the vertical stabilizer and OMS pods

    Science.gov (United States)

    1994-01-01

    This 35mm frame, photographed as the Space Shuttle Columbia was orbiting Earth during a 'night' pass, documents the glow phenomenon surrounding the vertical stabilizer and the Orbital Maneuvering System (OMS) pods of the spacecraft.

  18. Prevention of hyperglycemia in Zucker diabetic fatty rats by exercise training: effects on gene expression in insulin-sensitive tissues determined by high-density oligonucleotide microarray analysis

    DEFF Research Database (Denmark)

    Colombo, Michele; Gregersen, Soeren; Kruhoeffer, Mogens;

    2005-01-01

    , blood samples, soleus muscle, liver, visceral fat (epididymal fat pads), and islet tissue were collected. Gene expression was quantified with Affymetrix RG-U34A array (16 chips). Exercise training ameliorates the development of hyperglycemia and reduces plasma free fatty acid and the level of glucagon......, and pancreatic islets after ET in male Zucker diabetic fatty (ZDF) rats. Eighteen ZDF rats (7 weeks old) were divided in a control and ET group. Exercise was performed using a motorized treadmill (20 m/min 1 hour daily for 6 days a week). Blood glucose, weight, and food intake were measured weekly. After 5 weeks...... as genes with unknown functions (expressed sequence tags). In the liver, expression of 148 genes increased, whereas that of 199 genes decreased. These were primarily genes involved in lipogenesis and detoxification. Genes coding for transcription factors were changed in parallel in skeletal muscle...

  19. Surrounding Moving Obstacle Detection for Autonomous Driving Using Stereo Vision

    OpenAIRE

    Hao Sun; Huanxin Zou; Shilin Zhou; Cheng Wang; Naser El-Sheimy

    2013-01-01

    Detection and tracking surrounding moving obstacles such as vehicles and pedestrians are crucial for the safety of mobile robotics and autonomous vehicles. This is especially the case in urban driving scenarios. This paper presents a novel framework for surrounding moving obstacles detection using binocular stereo vision. The contributions of our work are threefold. Firstly, a multiview feature matching scheme is presented for simultaneous stereo correspondence and motion correspondence searc...

  20. "Tilt" in color space: Hue changes induced by chromatic surrounds.

    Science.gov (United States)

    Klauke, Susanne; Wachtler, Thomas

    2015-01-01

    The perceived color of a chromatic stimulus is influenced by the chromaticity of its surround. To investigate these influences along the dimension of hue, we measured hue changes induced in stimuli of different hues by isoluminant chromatic surrounds. Generally, induced hue changes were directed in color space away from the hue of the inducing surround and depended on the magnitude on the hue difference between stimulus and surround. With increasing difference in hue between stimulus and surround, induced hue changes increased up to a maximum and then decreased for larger differences. This qualitative pattern was similar for different inducers, but quantitatively, induction was weaker along some directions in cone-opponent color space than along other directions. The strongest induction effects were found along an oblique, blue-yellow axis that corresponds to the daylight axis. The overall pattern of the induction effect shows similarities to the well-known tilt effect, where shifts in perceived angle of oriented stimuli are induced by oriented surrounds. This suggests analogous neural representations and similar mechanisms of contextual processing for different visual features such as orientation and color.

  1. Control of Formation of Lithological Reservoirs by Surrounding Mudstone

    Institute of Scientific and Technical Information of China (English)

    2006-01-01

    Taking the Jiyang depression as an example, this paper discusses the control of the formation of lithological reservoir by surrounding rocks by integrated application of geological analysis, physical simulation, and the analysis of oil & gas accumulation mechanism. Geological statistical shows that the major burial depth and interval of lithological reservoirs in the Jiyang depression are related to the hydrocarbon generation in and expulsion from the Lower Tertiary source rocks and the time of the formation of most lithological reservoirs coincides with the peak of hydrocarbon generation and expulsion. The lithological traps located in the center of effective source rocks are propitious to high oil saturation than those located on the margin of effective source rocks. The hydrocarbon charge degree of the lithological reservoir has a positive correlation with the intensity of hydrocarbon expulsion from surrounding source rocks.Geological analyses and NMR experiments also show that the oil saturation of surrounding source rocks control the hydrocarbon potential of lithological traps, and a critical value for oil saturation of surrounding mudstone is required, that is, when the oil saturation of surrounding mudstone is lower than this critical value, no oil and gas accumulate in the lithological trap. The control of surrounding mudstone on the oil-bearing properties of lithological reservoirs is also analyzed by the mechanisms of hydrocarbon generation and expulsion as well as accumulation.

  2. Maternal factors required for oocyte developmental competence in mice: transcriptome analysis of non-surrounded nucleolus (NSN) and surrounded nucleolus (SN) oocytes.

    Science.gov (United States)

    Ma, Jun-Yu; Li, Mo; Luo, Yi-Bo; Song, Shuhui; Tian, Dongmei; Yang, Jin; Zhang, Bing; Hou, Yi; Schatten, Heide; Liu, Zhonghua; Sun, Qing-Yuan

    2013-06-15

    During mouse antral follicle development, the oocyte chromatin gradually transforms from a less condensed state with no Hoechst-positive rim surrounding the nucleolus (NSN) to a fully condensed chromatin state with a Hoechst-positive rim surrounding the nucleolus (SN). Compared with SN oocytes, NSN oocytes display a higher gene transcription activity and a lower rate of meiosis resumption (G2/M transition), and they are mostly arrested at the two-cell stage after in vitro fertilization. To explore the differences between NSN and SN oocytes, and the maternal factors required for oocyte developmental competence, we compared the whole-transcriptome profiles between NSN and SN oocytes. First, we found that the NSN and SN oocytes were different in their metabolic pathways. In the phosphatidylinositol signaling pathway, the SN oocytes tend to produce diacylglycerol, whereas the NSN oocytes tend to produce phosphatidylinositol (3,4,5)-trisphosphate. For energy production, the SN oocytes and NSN oocytes differed in the gluconeogenesis and in the synthesis processes. Second, we also found that the key genes associated with oocyte meiosis and/or preimplantation embryo development were differently expressed in the NSN and SN oocytes. Our results illustrate that during the NSN-SN transition, the oocytes change their metabolic activities and accumulate maternal factors for further oocyte maturation and post-fertilization embryo development.

  3. Forest Fragments Surrounded by Sugar Cane Are More Inhospitable to Terrestrial Amphibian Abundance Than Fragments Surrounded by Pasture

    Directory of Open Access Journals (Sweden)

    Paula Eveline Ribeiro D’Anunciação

    2013-01-01

    Full Text Available In recent years, there has been increasing interest in matrix-type influence on forest fragments. Terrestrial amphibians are good bioindicators for this kind of research because of low vagility and high philopatry. This study compared richness, abundance, and species composition of terrestrial amphibians through pitfall traps in two sets of semideciduous seasonal forest fragments in southeastern Brazil, according to the predominant surrounding matrix (sugar cane and pasture. There were no differences in richness, but fragments surrounded by sugar cane had the lowest abundance of amphibians, whereas fragments surrounded by pastures had greater abundance. The most abundant species, Rhinella ornata, showed no biometric differences between fragment groups but like many other amphibians sampled showed very low numbers of individuals in fragments dominated by sugar cane fields. Our data indicate that the sugar cane matrix negatively influences the community of amphibians present in fragments surrounded by this type of land use.

  4. MicroCT Bone Densitometry: Context Sensitivity, Beam Hardening Correction and the Effect of Surrounding Media

    Directory of Open Access Journals (Sweden)

    Philip L. Salmon

    2014-12-01

    Full Text Available The context-sensitivity of microCT bone densitometry due to beam hardening artefacts was assessed. Bones and teeth are scanned with varying thickness of surrounding media (water, alcohol, biological tissue and it is important to understand how this affects reconstructed attenuation (“density” of the mineralized tissue. Aluminium tubes and rods with thickness 0.127mm–5mm were scanned both in air or surrounded by up to 2cm of water. Scans were performed with different energy filters and degrees of software beam hardening correction (BHC. Also tested were the effects of signal-to-noise ratio, magnification and truncation. The thickness of an aluminium tube significantly affected its mean reconstructed attenuation. This effect of thickness could be reduced substantially by BHC for scans in air, but not for scans in water. Varying thickness of surrounding water also changed the mean attenuation of an aluminium tube. This artefact could be almost eliminated by an optimal BHC value. The “cupping” artefact of heterogeneous attenuation (elevated at outer surfaces could be corrected if aluminium was scanned in air, but in water BHC was much less effective. Scan truncation, changes to magnification and signal-to-noise ratio also caused artificial changes to measured attenuation. Measurement of bone mineral density by microCT is highly context sensitive. A surrounding layer of liquid or biological tissue reduces the ability of software BHC to remove bone density artefacts. Sample thickness, truncation, magnification and signal to noise ratio also affect reconstructed attenuation. Thus it is important for densitometry that sample and calibration phantom dimensions and mounting materials are standardised.

  5. HAM56 and CD68 antigen presenting cells surrounding a sarcoidal granulomatous tattoo

    Directory of Open Access Journals (Sweden)

    Ana Maria Abreu Velez

    2011-01-01

    Full Text Available Context : Tattoos are produced by introducing colorants of various compositions into the skin, either accidentally or for cosmetic purposes. Case Report: A 62-year-old male presented with a cosmetic tattoo and requested a total excision of the lesion. Dermatopathologic analysis of the excised tissue with hematoxylin and eosin examination, as well as immunohistochemistry was performed. H&E staining demonstrated classic histologic features of a tattoo. Utilizing immunohistochemistry, dermal histiocytic antigen presenting cells stained with HAM56 and CD68 antibodies; the staining was present surrounding the tattoo pigment. Conclusions : We identified two macrophage markers (HAM56 and CD68 surrounding dermal tattoo pigment. A minimal dermal inflammatory immune was noted to the tattoo pigment. Moreover, the immune response and/or tolerance to tattoos is not well characterized. We suggest that tattoo materials and techniques could be utilized in therapeutic delivery for diseases such recessive dystrophic epidermolysis bullosa, potentially preventing immune rejection of gene therapy agents.

  6. A 1. 8-Mb YAC contig in Xp11. 23: Identification of Cpg islands and physical mapping of CA repeats in a region of high gene density

    Energy Technology Data Exchange (ETDEWEB)

    Coleman, M.P.; Nemeth, A.H.; Campbell, L.; Raut, C.P.; Davies, K.E. (Institute of Molecular Medicine, Oxford (United Kingdom)); Weissenbach, J. (Unite de Genetique Moleculaire Humaine, Paris (France))

    1994-05-15

    The genes ARAF1, SYN1, TIMP, and PFC are clustered within 70 kb of one another, and, as reported in the accompanying paper, at least four more genes map within 400 kb: a cluster of Krueppel-type zinc finger genes (including ZNF21, ZNF41, and ZNF81) and ELK-1, a member of the ets oncogene superfamily. This gene-rich region is of particular interest because of the large number of disease genes mapping to Xp11.23: At least three eye diseases (retinitis pigmentosa type 2, congenital stationary night blindness CSNB1, and Aland Island eye disease), Wiskott-Aldrich syndrome, X-linked nephrolithiasis, and a translocation breakpoint associated with synovial sarcoma. The authors have constructed a 1.8-Mb YAC contig in this region, confirming the link between TIMP and OATL1 reported by Knight et al. (1994) and extending the map in the distal direction. To investigate the likelihood that more genes are located within this region, they have carried out detailed mapping of rare-cutter restriction sites in these YACs and identified seven CpG islands. At least six of these islands are located over 50 kb from any known gene locations, suggesting that the region contains at least this many as yet unidentified genes. They have also mapped the physical locations of six highly polymorphic CA repeats within the contig, thus integrating the physical, genetic, and transcriptional maps of the region and facilitating the mapping and identification of disease genes. Together with the report by Knight et al., these data indicate the following order of loci: Xpter-DXS1264-DXS1055-DXS1003-DXS1146-DXS1266-(ZNF41, ARAF1)-SYN1 CA repeat-SYN1 (3[prime] end)-TIMP-SYN1 (5[prime] end)-PFC CA repeat-PFC-(DXS426, ELK1)-(DXS1265, ZNF81)-ZNF21-DXS1267-OATL1-Xcen. 40 refs., 4 figs., 3 tabs.

  7. Migraine increases centre-surround suppression for drifting visual stimuli.

    Directory of Open Access Journals (Sweden)

    Josephine Battista

    Full Text Available BACKGROUND: The pathophysiology of migraine is incompletely understood, but evidence points to hyper-responsivity of cortical neurons being a key feature. The basis of hyper-responsiveness is not clear, with an excitability imbalance potentially arising from either reduced inhibition or increased excitation. In this study, we measure centre-surround contrast suppression in people with migraine as a perceptual analogue of the interplay between inhibition and excitation in cortical areas responsible for vision. We predicted that reduced inhibitory function in migraine would reduce perceptual surround suppression. Recent models of neuronal surround suppression incorporate excitatory feedback that drives surround inhibition. Consequently, an increase in excitation predicts an increase in perceptual surround suppression. METHODS AND FINDINGS: Twenty-six people with migraine and twenty approximately age- and gender-matched non-headache controls participated. The perceived contrast of a central sinusoidal grating patch (4 c/deg stationary grating, or 2 c/deg drifting at 2 deg/sec, 40% contrast was measured in the presence and absence of a 95% contrast annular grating (same orientation, spatial frequency, and drift rate. For the static grating, similar surround suppression strength was present in control and migraine groups with the presence of the surround resulting in the central patch appearing to be 72% and 65% of its true contrast for control and migraine groups respectively (t(44 = 0.81, p = 0.42. For the drifting stimulus, the migraine group showed significantly increased surround suppression (t(44 = 2.86, p<0.01, with perceived contrast being on average 53% of actual contrast for the migraine group and 68% for non-headache controls. CONCLUSIONS: In between migraines, when asymptomatic, visual surround suppression for drifting stimuli is greater in individuals with migraine than in controls. The data provides evidence for a

  8. Quasi-Local Energy Distribution and Thermodynamics of Reissner-Nordstrom Black Hole Surrounded by Quintessence

    Institute of Scientific and Technical Information of China (English)

    Mahamat Saleh; Bouetou Bouetou Thomas; Timoleon Crepin Kofane

    2011-01-01

    We investigate quasi-local energy distribution and thermodynamics of the Reissner-Nordstrom black hole space-time surrounded by quintessence.We use the quasi-local energy distribution from Einstein energy-momentum complex.We plot the variation of the energies, temperature and heat capacity with the state parameter related to the quintessence ωq.We show that due to the presence of quintessence, the total energy of the outer region as well as the temperature and heat capacity decreases with the increase of the density of quintessence, while the total energy of the black hole region increases.

  9. 6.1 channel general planar surround sound system

    Institute of Scientific and Technical Information of China (English)

    XIE Bosun

    2001-01-01

    A new 6.1 channel surround sound system and its two signal mixing methods are proposed. Theoretical and experimental results show that the system is able to recreate 360°sound image in horizontal plane. Especially, compared with current 5.1 channel system, lateral and rear image of the new system is improved obviously. Therefore it is suitable to be used as a general surround sound system. It is also proved that, the new system is fully compatible with 5.1 channel system, and current methods are available to record 6.1 channel signals.

  10. Linking disadvantaged housing areas to the surrounding city

    DEFF Research Database (Denmark)

    Stender, Marie

    Several disadvantaged social housing areas in Denmark are currently undergo-ing thorough physical refurbishments, aiming to integrate them better with the surrounding city. The ambition is to attract new users and residents by opening up the borders of the area and establish attractive, new...... that especially eve-ryday-route strategies adding new public functions within the area can pave the way for integration with the surroundings. The applicability of such strategies is however highly dependent on the context, location and existing image of the ar-ea. Social distance may sustain though physical...

  11. Linkage of the cholesterol 7α-hydroxylase gene and low-density lipoprotein cholesterol conditional on apolipoprotein E association: the National Heart, Lung, and Blood Institute Family Heart Study

    Institute of Scientific and Technical Information of China (English)

    Jing-Ping Lin; Richard H. Myers; Laura Almasy; Hilary H. Coon; Donna K. Arnett; Yuling Hong; Steven C. Hunt

    2005-01-01

    Background Genetic factors account for approximately 50% of the individual variation in plasma low-density lipoprotein cholesterol (LDL-C) concentrations in the general population. Several candidate genes have been proposed but their relative contributions to the variance in LDL-C are not known, except for apolipoprotein E (apoE). We report here an investigation of the relationship between LDL-C and cholesterol 7α-hydroxylase (CYP7), as well as apoE and low-density lipoprotein receptor (LDLR), three pivotal genes in LDL metabolism. Methods Our study population included more than 200 nuclear families with increased coronary heart disease (CHD) risk from the National Heart, Lung, and Blood Institute (NHLBI) Family Heart Study. Variance-component linkage methods, a measured genotype approach, and a variance-component linkage analysis conditional on a measured genotype association were used. Results The results showed significant linkage between a genetic determinant of plasma LDL-C concentrations and a polymorphism near CYP7 with its allelic variation accounting for 27% of the total LDL-C variation. There is significant association between plasma LDL-C concentrations and apoE genotypes. Conditional on the apoE association, the total LDL-C variation accounted by allelic variation of a polymorphism near CYP7 was increased significantly.Conclusion Our results suggest the apoE and CYP7 may be two important genes accounting for the genetic variation of plasma LDL-C concentrations in a population with cardiovascular diseases.

  12. Genetic dissection of yield and its component traits using high-density composite map of wheat chromosome 3A: bridging gaps between QTLs and underlying genes

    Science.gov (United States)

    Earlier we identified wheat (Triticum aestivum L.) chromosome 3A as a major determinant of grain yield and its component traits. In the present study, a high-density genetic linkage map of 81 chromosome 3A-specific markers was developed to increase the precision of previously identified yield compon...

  13. 1,25-dihydroxyvitamin D and the vitamin D receptor gene polymorphism Apa1 influence bone mineral density in primary hyperparathyroidism.

    Directory of Open Access Journals (Sweden)

    Monika H E Christensen

    Full Text Available OBJECTIVE: Parathyroid hormone (PTH and vitamin D are the most important hormones regulating calcium metabolism. In primary hyperparathyroidism (PHPT excessive amounts of PTH are produced. Bone turnover is enhanced, leading to reduced bone mineral density and elevated levels of serum calcium. The aim of this study was to investigate relations between serum levels of 25-hydroxyvitamin D (25(OHD, 1,25-dihydroxyvitamin D (1,25(OH(2D and bone mineral density, as well as known genetic polymorphisms in the vitamin D receptor and enzymes metabolising vitamin D in patients with PHPT. DESIGN/SUBJECTS: We conducted a cross-sectional study of 52 patients with PHPT. RESULTS: Mean level of 25(OHD was 58.2 nmol/L and median 1,25(OH(2D level was 157 pmol/L. Among our patients with PHPT 36.5% had 25(OHD levels below 50 nmol/L. Serum 1,25(OH(2D was inversely correlated to bone mineral density in distal radius (p = 0.002, but not to bone mineral density at lumbar spine or femoral neck. The vitamin D receptor polymorphism Apa1 (rs7975232 was associated with bone mineral density in the lumbar spine. CONCLUSIONS: The results suggest that PHPT patients with high blood concentrations of 1,25(OH(2D may have the most deleterious skeletal effects. Randomized, prospective studies are necessary to elucidate whether vitamin D supplementation additionally increases serum 1,25(OH(2D and possibly enhances the adverse effects on the skeleton in patients with PHPT.

  14. VITAMIN-D RECEPTOR GENE POLYMORPHISM AND ITS RELATIONSHIP WITH BONE MINERAL DENSITY IN POST-MENOPAUSAL OSTEOPOROTIC WOMEN IN SHANGHAI

    Institute of Scientific and Technical Information of China (English)

    王卫庆; 高国峰; 宁光; 王曙; 罗邦尧

    2002-01-01

    Objective To examine the relationship between the vitamin D receptor(VDR) gene polymorphism and osteoporosis in postmenopausal women in Shanghai. Methods 102 postmenopausal women recruited from Ruijin Hospital were osteoporotic. We measured the lumbar vertebrae and femur of all patients with a modal dual-energy X-ray absorptionmetry, and also the serum osteocalcin by ELISA. The VDR gene was amplified using a polymerase chain reaction (PCR). The VDR genotypes were determined by the PCR-RFLP.Results bb, aa and TT genotype were found mainly in these osteoporosis patients, only one BB and two tt were found among these patients. No significant association was observed among three subgroups of bb, Bb and BB. Conclusion The rareness of B and t alleles suggested that it is unlikely that they are important factors for the heredity of osteoporosis in Chinese women. Thus VDR gene typing may be of little value in assessing the osteoporosis risk in Chinese population.

  15. Metagenomic analysis of bacterial and archaeal assemblages in the soil-mousse surrounding a geothermal spring.

    Science.gov (United States)

    Bhatia, Sonu; Batra, Navneet; Pathak, Ashish; Joshi, Amit; Souza, Leila; Almeida, Paulo; Chauhan, Ashvini

    2015-09-01

    The soil-mousse surrounding a geothermal spring was analyzed for bacterial and archaeal diversity using 16S rRNA gene amplicon metagenomic sequencing which revealed the presence of 18 bacterial phyla distributed across 109 families and 219 genera. Firmicutes, Actinobacteria, and the Deinococcus-Thermus group were the predominant bacterial assemblages with Crenarchaeota and Thaumarchaeota as the main archaeal assemblages in this largely understudied geothermal habitat. Several metagenome sequences remained taxonomically unassigned suggesting the presence of a repertoire of hitherto undescribed microbes in this geothermal soil-mousse econiche.

  16. Metagenomic analysis of bacterial and archaeal assemblages in the soil-mousse surrounding a geothermal spring

    Directory of Open Access Journals (Sweden)

    Sonu Bhatia

    2015-09-01

    Full Text Available The soil-mousse surrounding a geothermal spring was analyzed for bacterial and archaeal diversity using 16S rRNA gene amplicon metagenomic sequencing which revealed the presence of 18 bacterial phyla distributed across 109 families and 219 genera. Firmicutes, Actinobacteria, and the Deinococcus-Thermus group were the predominant bacterial assemblages with Crenarchaeota and Thaumarchaeota as the main archaeal assemblages in this largely understudied geothermal habitat. Several metagenome sequences remained taxonomically unassigned suggesting the presence of a repertoire of hitherto undescribed microbes in this geothermal soil-mousse econiche.

  17. Ecological mechanisms linking protected areas to surrounding lands.

    Science.gov (United States)

    Hansen, Andrew J; DeFries, Ruth

    2007-06-01

    Land use is expanding and intensifying in the unprotected lands surrounding many of the world's protected areas. The influence of this land use change on ecological processes is poorly understood. The goal of this paper is to draw on ecological theory to provide a synthetic framework for understanding how land use change around protected areas may alter ecological processes and biodiversity within protected areas and to provide a basis for identifying scientifically based management alternatives. We first present a conceptual model of protected areas embedded within larger ecosystems that often include surrounding human land use. Drawing on case studies in this Invited Feature, we then explore a comprehensive set of ecological mechanisms by which land use on surrounding lands may influence ecological processes and biodiversity within reserves. These mechanisms involve changes in ecosystem size, with implications for minimum dynamic area, species-area effect, and trophic structure; altered flows of materials and disturbances into and out of reserves; effects on crucial habitats for seasonal and migration movements and population source/sink dynamics; and exposure to humans through hunting, poaching, exotics species, and disease. These ecological mechanisms provide a basis for assessing the vulnerability of protected areas to land use. They also suggest criteria for designing regional management to sustain protected areas in the context of surrounding human land use. These design criteria include maximizing the area of functional habitats, identifying and maintaining ecological process zones, maintaining key migration and source habitats, and managing human proximity and edge effects.

  18. Metrizamide demonstration of the subarachnoid space surrounding the Gasserian ganglion

    Energy Technology Data Exchange (ETDEWEB)

    Christmann, D.; Babin, E.

    1980-05-01

    The chance opacification of the subarachnoid space surrounding the Gasserian ganglion, observed during metrizamide basal cisternography, is reported. This is compared to similar demonstrations of the optic subarachnoid space. Such infrequently observed images should be known because they may be related to the occurrence of trigeminal neuralgia.

  19. Orientation-tuned surround suppression in mouse visual cortex

    NARCIS (Netherlands)

    Self, Matthew W; Lorteije, Jeannette A M; Vangeneugden, Joris; van Beest, Enny H; Grigore, Mihaela E; Levelt, Christiaan N; Heimel, J.A.; Roelfsema, Pieter R

    2014-01-01

    The firing rates of neurons in primary visual cortex (V1) are suppressed by large stimuli, an effect known as surround suppression. In cats and monkeys, the strength of suppression is sensitive to orientation; responses to regions containing uniform orientations are more suppressed than those contai

  20. Challenges Surrounding the Education of Children with Chronic Diseases

    Science.gov (United States)

    Gordon, Maria, Ed.

    2016-01-01

    While governing bodies have mandated that all students have the right to an education, with disabled students treated to the same rights and opportunities as non-disabled students, policymakers do not always agree on what all-inclusive education should look like. "Challenges Surrounding the Education of Children with Chronic Diseases"…

  1. 与栽培密度相关的水稻形态基因研究进展%RESEARCH PROGRESS ON PLANT MORPHOLOGICAL GENES RELATED TO PLANTING DENSITY IN RICE(Oryza sativa L.)

    Institute of Scientific and Technical Information of China (English)

    王寅; 徐建伟; 张丹丹; 舒小丽; 吴殿星

    2011-01-01

    The yield of rice is closely related with the density of planting.Compared with traditional hand transplanting,high-density cultivation is more convenient for efficient agricultural production by the novel cultivation methods such as direct seeding,throwing rice seedlings and machine transplanting.In this paper,the relationship of planting density with grain yield was briefly summarized,and the research progress on plant morphological genes related to planting density,i.e.ideal plant architecture,tiller controlling,tiller angle,erected leaves,rolled leaves and narrow leaves were reviewed.%水稻产量与栽培密度密切相关,在直播、抛秧和机插秧等有别于传统手插秧的新型栽培模式下,高密度栽培更加便于农业的高效生产。本文简述了水稻不同栽培密度与产量间的关系,综述了与水稻栽培密度相关的理想株型、分蘖角度控制、分蘖数控制、直立叶、卷叶及窄叶等形态基因的研究及其进展。

  2. Military installation sequestered more carbon than surrounding areas

    Science.gov (United States)

    Zhao, S.; Liu, S.; Li, Z.; Sohl, T.

    2008-12-01

    Land use activities greatly affect the temporal trends and spatial patterns of regional land-atmospheric exchange of carbon. Military installations generally have drastically different land management strategies from surrounding areas, and the carbon consequences have never been quantified and assessed. Here, we used the General Ensemble Biogeochemical Modeling System (GEMS) to simulate and compare ecosystem carbon dynamics between Fort Benning and surrounding areas from 1992 to 2050. GEMS was driven by unique combinations of spatial and temporal dynamics of major driving forces, such as climate, soil properties, nitrogen deposition, and land use and land cover changes (predicted by FOREcasting SCEnarios of land cover change (FORE-SCE)). Our results indicated that the military installation sequestered more carbon than surrounding areas (0.77 vs. 0.16 Mg C ha-1 y-1 averaged from 1992 to 2007). Differences in land use activities were the primary cause behind the difference in carbon sequestration rates. From 1992 to 2007, no urban/residential expansion occurred at the installation, and transitional barren (primarily caused by forest harvesting) slightly increased from 0 to 0.2%. In contrast, urban land increased from 5.6 to 7.6% and transitional barren increased from 0.1 to 0.7% in the surrounding areas. Live biomass accumulation accounted for most of the carbon sink in both Fort Benning and surrounding areas (0.75 vs. 0.15 Mg C ha-1 y-1), while soil organic carbon accumulation was small (0.02 vs. 0.01 Mg C ha- 1 y-1), suggesting biomass removal caused by urbanization and harvesting resulted in much less carbon sequestration in surrounding areas. Fort Benning is likely to sequester more carbon in the future, although the rate of carbon sequestered per year will gradually reduce. The future carbon source/sink strength in the surrounding areas varied greatly, from a small sink to a strong source, depending on the path of land use change (e.g., increase of clear

  3. Seedling diversity and spatially related regenaration dynamics in holly woodlands and surrounding habitats

    Directory of Open Access Journals (Sweden)

    S. Arrieta

    2001-06-01

    Full Text Available Spatial patterns of seedling distribution and diversity were analysed in small fragments of holly Ilex aquifolium L. woodlands and in their surrounding areas. Two sampling locations with similar structure were selected for this study: Oncala and Robregordo. They consist of nearly monospecific Ilex stands surrounded by grasslands with high scrub abundance.

    The seedling appearance of woody species was quantified from March to November 1998. Sampled areas were: 1 closed holly canopy; 2 open holly canopy or small forest gaps; 3 holly woodland edge; 4 surrounding grassland; 5 under isolated fleshy-fruited shrubs scattered over the grassland; 6 under dry-fruited shrubs and 7 the closest forest to the holly woodland. Additionally, a pine forest at a distance of 20 km from Oncala was sampled. In every area ten permanent 50 × 50 cm quadrats were fixed for monthly seedling control.

    The highest germination density occurs under the holly woodland, especially in closed canopy areas. Nevertheless, these closed woodlands neither maintain a great quantity of surviving seedlings nor a high diversity. Seedling density is considerable in canopy gaps, shrubs and forest edge, and these habitats have greater diversity values than understorey habitats. Fleshy-fruited shrubs maintain higher seedling densities and diversity than dry-fruited shrubs. Woody seedlings are rare over the grassland. The three non-holly forests studied have very similar seedling densities and diversity values, higher than those under closed-canopy holly.

    Regional differences are important for the numbers of seedlings surviving from previous years, which are scareer in Robregordo. However, little difference is observed in spatial patterns of seedling diversity between the two locations.

    We discuss a number of processes affecting seed rain density and differential mortality rates that could account for these spatial patterns, namely competition

  4. Cloning of a cDNA encoding a putative human very low density lipoprotein/Apolipoprotein E receptor and assignment of the gene to chromosome 9pter-p23[sup 6

    Energy Technology Data Exchange (ETDEWEB)

    Gafvels, M.E.; Strauss, J.F. III (Univ. of Pennyslvania, Philadelphia, PA (United States)); Caird, M.; Patterson, D. (Eleanor Roosevelt Institute, Denver, CO (United States)); Britt, D.; Jackson, C.L. (Brown Univ., Providence, RI (United States))

    1993-11-01

    The authors report the cloning of a 3656-bp cDNA encoding a putative human very low density lipoprotein (VLDL)/apolipoprotein E (ApoE) receptor. The gene encoding this protein was mapped to chromosome 9pter-p23. Northern analysis of human RNA identified cognate mRNAs of 6.0 and 3.8 kb with most abundant expression in heart and skeletal muscle, followed by kidney, placenta, pancreas, and brain. The pattern of expression generally paralleled that of lipoprotein lipase mRNA but differed from that of the low density lipoprotein (LDL) receptor and the low density lipoprotein receptor-related protein/[alpha][sub 2]-macroglobulin receptor (LRP), which are members of the same gene family. VLDL/ApoE receptor message was not detected in liver, whereas mRNAs for both LDL receptor and LRP were found in hepatic tissue. In mouse 3T3-L1 cells, VLDL/ApoE receptor mRNA was induced during the transformation of the cells into adipocytes. Expression was also detected in human choriocarcinoma cells, suggesting that at least part of the expression observed in placenta may be in trophoblasts, cells which would be exposed to maternal blood. Expression in brain may be related to high levels of ApoE expression in that organ, an observation of potential relevance to the recently hypothesized role for ApoE in late onset Alzheimer disease. The results suggest that the putative VLDL/ApoE receptor could play a role in the uptake of triglyceride-rich lipoprotein particles by specific organs including striated and cardiac muscle and adipose tissue and in the transport of maternal lipids across the placenta. The findings presented here, together with recent observations from other laboratories, bring up the possibility that a single gene, the VLDL/ApoE receptor, may play a role in the pathogenesis of certain forms of atherosclerosis, Alzheimer disease, and obesity.

  5. CD36 Gene Promoter Polymorphisms Are Associated With Low Density Lipoprotein-Cholesterol in Normal Twins and After a Low-Calorie Diet in Obese Subjects

    NARCIS (Netherlands)

    Goyenechea, Estibaliz; Collins, Laura J.; Parra, Dolores; Liu, Gaifen; Snieder, Harold; Swaminathan, Ramasamyiyer; Spector, Tim D.; Martinez, J. Alfredo; O'Dell, Sandra D.

    2008-01-01

    Common polymorphisms of the CD36 fatty acid transporter gene have been associated with lipid metabolism and cardiovascular disease. Association of a CD36 promoter single nucleotide polymorphism genotype with anthropometry and serum lipids was investigated in normal subjects, and in obese subjects

  6. CD36 Gene Promoter Polymorphisms Are Associated With Low Density Lipoprotein-Cholesterol in Normal Twins and After a Low-Calorie Diet in Obese Subjects

    NARCIS (Netherlands)

    Goyenechea, Estibaliz; Collins, Laura J.; Parra, Dolores; Liu, Gaifen; Snieder, Harold; Swaminathan, Ramasamyiyer; Spector, Tim D.; Martinez, J. Alfredo; O'Dell, Sandra D.

    2008-01-01

    Common polymorphisms of the CD36 fatty acid transporter gene have been associated with lipid metabolism and cardiovascular disease. Association of a CD36 promoter single nucleotide polymorphism genotype with anthropometry and serum lipids was investigated in normal subjects, and in obese subjects du

  7. Differential stimulation by CCAAT/enhancer-binding protein alpha isoforms of the estrogen-activated promoter of the very-low-density apolipoprotein II gene

    NARCIS (Netherlands)

    Calkhoven, CF; Snippe, L; Ab, G

    1997-01-01

    The transcription factors CCAAT/enhancer-binding proteins alpha and beta (C/EBP alpha and C/EBP beta) are highly expressed in liver and are believed to function in maintaining the differentiated state of the hepatocytes, C/EBP alpha appears to be a critical regulator of genes involved in metabolic p

  8. Effects of breed and dietary nutrient density on the growth performance, blood metabolite, and genes expression of target of rapamycin (TOR) signalling pathway of female broiler chickens.

    Science.gov (United States)

    Wang, X-q; Jiang, W; Tan, H-z; Zhang, D-x; Zhang, H-j; Wei, S; Yan, H-c

    2013-08-01

    This study was conducted to compare the effects of exchanged diets with identical energy level on characteristics of slow-growing (WENs Yellow-Feathered Chicken, WYFC) and fast-growing (White Recessive Rock Chicken, WRRC) female chickens. A total of 1450 WYFC and 1150 WRRC 1-day-old female hatchlings were used. A high-nutrient-density (HND) diet and a low-nutrient-density (LND) diet were formulated for three phases. A completely randomized experimental design with a 2 × 2 factorial arrangement (diet and breed), each with five replicates of 145 and 115 birds, was applied. The results showed that WRRC had a higher body weight (BW), average daily feed intake and average daily gain than WYFC throughout the experiment (pbreeds (pchickens. © 2012 Blackwell Verlag GmbH.

  9. A high density of human communication-associated genes in chromosome 7q31-q36: differential expression in human and non-human primate cortices.

    Science.gov (United States)

    Schneider, E; Jensen, L R; Farcas, R; Kondova, I; Bontrop, R E; Navarro, B; Fuchs, E; Kuss, A W; Haaf, T

    2012-01-01

    The human brain is distinguished by its remarkable size, high energy consumption, and cognitive abilities compared to all other mammals and non-human primates. However, little is known about what has accelerated brain evolution in the human lineage. One possible explanation is that the appearance of advanced communication skills and language has been a driving force of human brain development. The phenotypic adaptations in brain structure and function which occurred on the way to modern humans may be associated with specific molecular signatures in today's human genome and/or transcriptome. Genes that have been linked to language, reading, and/or autism spectrum disorders are prime candidates when searching for genes for human-specific communication abilities. The database and genome-wide expression analyses we present here revealed a clustering of such communication-associated genes (COAG) on human chromosomes X and 7, in particular chromosome 7q31-q36. Compared to the rest of the genome, we found a high number of COAG to be differentially expressed in the cortices of humans and non-human primates (chimpanzee, baboon, and/or marmoset). The role of X-linked genes for the development of human-specific cognitive abilities is well known. We now propose that chromosome 7q31-q36 also represents a hot spot for the evolution of human-specific communication abilities. Selective pressure on the T cell receptor beta locus on chromosome 7q34, which plays a pivotal role in the immune system, could have led to rapid dissemination of positive gene variants in hitchhiking COAG.

  10. Central (ICV) leptin injection increases bone formation, bone mineral density, muscle mass, serum IGF-1, and the expression of osteogenic genes in leptin-deficient ob/ob mice.

    Science.gov (United States)

    Bartell, Shoshana M; Rayalam, Srujana; Ambati, Suresh; Gaddam, Dhanunjaya R; Hartzell, Diane L; Hamrick, Mark; She, Jin-Xiong; Della-Fera, Mary Anne; Baile, Clifton A

    2011-08-01

    Both central and peripheral leptin administrations reduce body weight, food intake, and adiposity in ob/ob mice. In this study we compared effects of intracerebroventricular (ICV) and subcutaneous (SC) administration of leptin on bone metabolism in the appendicular and axial skeleton and adipose tissue gene expression and determined the effects of ICV leptin on bone marrow gene expression in ob/ob mice. In experiment 1, leptin (1.5 or 0.38 µg/d) or control was continuously injected ICV for 12 days. Gene expression analysis of femoral bone marrow stromal cells showed that expression of genes associated with osteogenesis was increased after ICV injection, whereas those associated with osteoclastogenesis, adipogenesis, and adipocyte lipid storage were decreased. In experiment 2, leptin was injected continuously ICV (0.0 or 1.5 µg/d) or SC (0.0 or 10 µg/d) for 12 days. In both experiments, regardless of mode of administration, leptin decreased body weight, food intake, and body fat and increased muscle mass, bone mineral density, bone mineral content, bone area, marrow adipocyte number, and mineral apposition rate. Serum insulin was decreased, whereas serum osteocalcin, insulin-like growth factor 1, osteoprotegerin, pyridinoline, and receptor activator of nuclear factor κB ligand concentrations were increased. In experiment 2, expression of genes in adipose tissue associated with apoptosis, lipid mobilization, insulin sensitivity, and thermogenesis was increased, whereas expression of genes associated with cell differentiation and maturation was decreased regardless of mode of administration. Thus ICV injection of leptin promotes expression of pro-osteogenic factors in bone marrow, leading to enhanced bone formation in ob/ob mice.

  11. More than 10 years after the first 'savior siblings': parental experiences surrounding preimplantation genetic diagnosis.

    Science.gov (United States)

    Zierhut, Heather; MacMillan, Margaret L; Wagner, John E; Bartels, Dianne M

    2013-10-01

    Preimplantation genetic diagnosis (PGD) to create a healthy donor for a sibling's hematopoetic stem cell transplantation for a child with Fanconi Anemia (FA) was first reported in 2001. Yet we know little about the experiences of parents who have encountered decision making surrounding PGD and human leukocyte antigen (HLA)-typing. The first aim of this study was to understand parents' awareness, perceptions and beliefs about reproductive decision-making including emotional, cognitive, moral dimensions as well as regret surrounding the use of this technology. The second aim was to describe the experiences and rationale of parents of children with a single gene disorder regarding the factors that influenced their decision making surrounding the use of natural pregnancy and/or PGD and HLA-typing. Parents from two national FA support networks in the US and Canada responded to an emailed survey about reproductive decision making and outcomes surrounding natural pregnancy and PGD and HLA-typing. Descriptive statistics and Pearson's Chi-Square tests were used to describe and compare data. Our results indicate that the most important factors in the PGD decision making process were the health of the child and cognitive appraisals followed by emotional responses and then moral judgments. A significant difference was noted in parents considering natural pregnancy before and after 2001 (p = 0.01). Unexpected findings were that less than 35 % of parents were offered PGD by any health care professional and only 70 % were aware PGD with HLA-typing was a reproductive option. Our research suggests that the option of PGD and HLA-typing may influence parents' reproductive decision making choices.

  12. A high-density SNP Map of sunflower derived from RAD-sequencing facilitating fine-mapping of the rust resistance gene R12.

    Science.gov (United States)

    Talukder, Zahirul I; Gong, Li; Hulke, Brent S; Pegadaraju, Venkatramana; Song, Qijian; Schultz, Quentin; Qi, Lili

    2014-01-01

    A high-resolution genetic map of sunflower was constructed by integrating SNP data from three F2 mapping populations (HA 89/RHA 464, B-line/RHA 464, and CR 29/RHA 468). The consensus map spanned a total length of 1443.84 cM, and consisted of 5,019 SNP markers derived from RAD tag sequencing and 118 publicly available SSR markers distributed in 17 linkage groups, corresponding to the haploid chromosome number of sunflower. The maximum interval between markers in the consensus map is 12.37 cM and the average distance is 0.28 cM between adjacent markers. Despite a few short-distance inversions in marker order, the consensus map showed high levels of collinearity among individual maps with an average Spearman's rank correlation coefficient of 0.972 across the genome. The order of the SSR markers on the consensus map was also in agreement with the order of the individual map and with previously published sunflower maps. Three individual and one consensus maps revealed the uneven distribution of markers across the genome. Additionally, we performed fine mapping and marker validation of the rust resistance gene R12, providing closely linked SNP markers for marker-assisted selection of this gene in sunflower breeding programs. This high resolution consensus map will serve as a valuable tool to the sunflower community for studying marker-trait association of important agronomic traits, marker assisted breeding, map-based gene cloning, and comparative mapping.

  13. Thaxtomin A affects CESA-complex density, expression of cell wall genes, cell wall composition, and causes ectopic lignification in Arabidopsis thaliana seedlings.

    Science.gov (United States)

    Bischoff, Volker; Cookson, Sarah Jane; Wu, Shuang; Scheible, Wolf-Rüdiger

    2009-01-01

    Thaxtomin A, a phytotoxin produced by Streptomyces eubacteria, is suspected to act as a natural cellulose synthesis inhibitor. This view is confirmed by the results obtained from new chemical, molecular, and microscopic analyses of Arabidopsis thaliana seedlings treated with thaxtomin A. Cell wall analysis shows that thaxtomin A reduces crystalline cellulose, and increases pectins and hemicellulose in the cell wall. Treatment with thaxtomin A also changes the expression of genes involved in primary and secondary cellulose synthesis as well as genes associated with pectin metabolism and cell wall remodelling, in a manner nearly identical to isoxaben. In addition, it induces the expression of several defence-related genes and leads to callose deposition. Defects in cellulose synthesis cause ectopic lignification phenotypes in A. thaliana, and it is shown that lignification is also triggered by thaxtomin A, although in a pattern different from isoxaben. Spinning disc confocal microscopy further reveals that thaxtomin A depletes cellulose synthase complexes from the plasma membrane and results in the accumulation of these particles in a small microtubule-associated compartment. The results provide new and clear evidence for thaxtomin A having a strong impact on cellulose synthesis, thus suggesting that this is its primary mode of action.

  14. Dynamics of two-component membranes surrounded by viscoelastic media.

    Science.gov (United States)

    Komura, Shigeyuki; Yasuda, Kento; Okamoto, Ryuichi

    2015-11-01

    We discuss the dynamics of two-component fluid membranes which are surrounded by viscoelastic media. We assume that membrane-embedded proteins can diffuse laterally and induce a local membrane curvature. The mean squared displacement of a tagged membrane segment is obtained as a generalized Einstein relation. When the elasticity of the surrounding media obeys a power-law behavior in frequency, an anomalous diffusion of the membrane segment is predicted. We also consider the situation where the proteins generate active non-equilibrium forces. The generalized Einstein relation is further modified by an effective temperature that depends on the force dipole energy. The obtained generalized Einstein relations are useful for membrane microrheology experiments.

  15. Study on Temperature Fieldof Surrounding Rock with BEM

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    The authors analyzed the characteristic of surrounding rock temperature field around a drifting face, setup its mathematic model, and got its numerical result with the boundary element method(BEM). To calculate in-tra-domain integral, it was transformed into boundary integration with the DRM method. Using the similitude the-ory, the dimensionless differential equation was educed. Finally, the authors calculated two drifting faces of San-hejian Coal Mine using the computer software developed by authors based on the above principium, and got the dis-tribution characteristic of surrounding rock temperature field around a drifting face and the periodic variation intemperature with its periodic moving forward. Comparing the calculated heat dissipating-capacity of surroundingrock with the measured data shows that the computer software is proper.

  16. Experimental Study of Deformation of Surrounding Rock with Infrared Radiation

    Institute of Scientific and Technical Information of China (English)

    ZHANG Yong-jun; AN Li-qian; REN Run-hou; FAN Shi-min; MA Nian-jie; LI Jian-hui; JI Yuan-ming

    2005-01-01

    According to the practical conditions of coal roadway in Changcun Coal Mine of Lu'an Mining Group, the deformation of rock surrounding roadway was experimentally studied by means of thermal infrared (TIR) imaging system in the process of confined compressions. It is found that the model surface TIR temperature (TIRT) changes with the increase of load. Furthermore, TIRT changes non-synchronously in different ranges such as the roof, floor, wall, corners and bolted ranges. The TIRT is higher in the location of stress concentration and bolted ranges than that in the location of stress relaxation and broken ranges. The interaction ranges of bolt and rock are determined preliminarily according to the corresponding relationship of TIRT fields and the strain fields of the surrounding rock. The new method of TIR image processing has been proved to be effective for the study of bolt support and observation of roadway stability under mine pressure.

  17. The Interaction of Type Ia Supernovae with their Surroundings The Exponential profile in 2D

    CERN Document Server

    Dwarkadas, V V

    2000-01-01

    The evolution of Type Ia supernovae in the surrounding medium is studied using 2-dimensional numerical hydrodynamic simulations. The ejecta are assumed to be described by an exponential density profile, following the work of Dwarkadas & Chevalier (1998). The case of a circumstellar (CS) region formed by mass loss from the progenitor or a companion star is also considered. The decelerating contact discontinuity is found to be Rayleigh-Taylor (R-T) unstable, as expected, and the nature of the instability is studied in detail for 2 cases: 1) a constant density ambient medium, and 2) a CS medium whose density goes as r^{-2}. The nature of the instability is found to be different in both cases. In the case of a CS medium the instability is much better resolved, and a fractal-like structure is seen. In the case of a constant density medium the extent of growth is less, and the R-T fingers are found to be limited by the presence of Kelvin-Helmholtz mushroom caps at the tips of the fingers. The unstable region is...

  18. Altered gene expression and spine density in nucleus accumbens of adolescent and adult male mice exposed to emotional and physical stress.

    Science.gov (United States)

    Warren, Brandon L; Sial, Omar K; Alcantara, Lyonna F; Greenwood, Maria A; Brewer, Jacob S; Rozofsky, John P; Parise, Eric M; Bolaños-Guzmán, Carlos A

    2014-01-01

    Stressful early life experiences are implicated in lifelong health. However, little is known about the consequences of emotional stress (ES) or physical stress (PS) on neurobiology. Therefore, the following set of experiments was designed to assess changes in transcription and translation of key proteins within the nucleus accumbens (NAc). Male adolescent (postnatal day 35) or adult (8-week-old) mice were exposed to ES or PS using a witness social defeat paradigm. Then, 24 h after the last stress session, we measured levels of specific mRNAs and proteins within the NAc. Spine density was also assessed in separate groups of mice. Exposure to ES or PS disrupted extracellular signal-related kinase 2 (ERK2), reduced transcription of ΔFosB and had no effect on cAMP response element-binding protein (CREB) mRNA. Western blots revealed that exposure to ES or PS decreased ERK2 phosphorylation in adolescents, whereas the same stress regimen increased ERK2 phosphorylation in adults. Exposure to ES or PS had no effect on ΔFosB or CREB phosphorylation. ES and PS increased spine density in the NAc of adolescent exposed mice, but only exposure to PS increased spine density in adults. Together, these findings demonstrate that exposure to ES or PS is a potent stressor in adolescent and adult mice and can disturb the integrity of the NAc by altering transcription and translation of important signaling molecules in an age-dependent manner. Furthermore, exposure to ES and PS induces substantial synaptic plasticity of the NAc.

  19. High resolution bathymetry of China seas and their surroundings

    Institute of Scientific and Technical Information of China (English)

    2001-01-01

    Based on the oceanic lithospheric flexure and the worldwide bathymetric data ETOPO5, the high resolu tion bathymetry of the China seas and their surroundings is computed from altimeter derived gravity anomalies. The new bathymetry obtained by this study is higher resolution and accuracy than the widely used ETOPO5 data, mean while it shows clearly the seafioor, the tectonic characteristics and the geodynamical processes in the China seas.

  20. Thermodynamic stability of black holes surrounded by quintessence

    OpenAIRE

    Ma, Meng-Sen; Zhao, Ren; Ma, Ya-Qin

    2016-01-01

    We study the thermodynamic stabilities of uncharged and charged black holes surrounded by quintessence (BHQ) by means of effective thermodynamic quantities. When the state parameter of quintessence $\\omega_q$ is appropriately chosen, the structures of BHQ are something like that of black holes in de Sitter space. Constructing the effective first law of thermodynamics in two different ways, we can derive the effective thermodynamic quantities of BHQ. Especially, these effective thermodynamic q...

  1. Hidden History: A Mobile Application for Discovering Surrounding Landscapes

    OpenAIRE

    2016-01-01

    This thesis work describes the design, development and evaluation of a mobile application called Hidden History. This application lets users discover and explore three types of landscapes (Historic, Scenic and Cultural) using three different modes of discovery (Route, Explore and Tour). Before designing Hidden History, the feature set of other applications that help users explore surrounding landscapes were identified and analyzed. Hidden History was then designed to implement the best fea...

  2. Treatment of Postherpetic Neuralgia by Surround Needling with Electric Stimulation

    Institute of Scientific and Technical Information of China (English)

    FAN Jin; YANG Qin-hua

    2005-01-01

    运用电针围刺法治疗带状疱疹后遗神经痛29例,获得较好疗效,总有效率为93.1%.%Twenty-nine cases of postherpetic neuralgia of herpes zoster were treated by the surround needling with electric stimulation, and the better therapeutic effect was obtained, the total effective rate was 93.1%.

  3. Belief and Attitudes surrounding Childhood Autism in Ghana

    OpenAIRE

    2012-01-01

    Autism is a life-long invisible impairment with an unknown etiology. Current literature shows an increase in the diagnosis of autism worldwide. This qualitative study explores the attitudes and beliefs which surround childhood autism in Ghana. In-depth interviews were conducted with four (4) parents whose children have autism and three (3) key informants; a Religious Leader, a Health Worker and an Administrator of a Special school in Accra, Ghana. A semi-structured interview guide was used fo...

  4. A permeability barrier surrounds taste buds in lingual epithelia.

    Science.gov (United States)

    Dando, Robin; Pereira, Elizabeth; Kurian, Mani; Barro-Soria, Rene; Chaudhari, Nirupa; Roper, Stephen D

    2015-01-01

    Epithelial tissues are characterized by specialized cell-cell junctions, typically localized to the apical regions of cells. These junctions are formed by interacting membrane proteins and by cytoskeletal and extracellular matrix components. Within the lingual epithelium, tight junctions join the apical tips of the gustatory sensory cells in taste buds. These junctions constitute a selective barrier that limits penetration of chemosensory stimuli into taste buds (Michlig et al. J Comp Neurol 502: 1003-1011, 2007). We tested the ability of chemical compounds to permeate into sensory end organs in the lingual epithelium. Our findings reveal a robust barrier that surrounds the entire body of taste buds, not limited to the apical tight junctions. This barrier prevents penetration of many, but not all, compounds, whether they are applied topically, injected into the parenchyma of the tongue, or circulating in the blood supply, into taste buds. Enzymatic treatments indicate that this barrier likely includes glycosaminoglycans, as it was disrupted by chondroitinase but, less effectively, by proteases. The barrier surrounding taste buds could also be disrupted by brief treatment of lingual tissue samples with DMSO. Brief exposure of lingual slices to DMSO did not affect the ability of taste buds within the slice to respond to chemical stimulation. The existence of a highly impermeable barrier surrounding taste buds and methods to break through this barrier may be relevant to basic research and to clinical treatments of taste.

  5. THE DESIGN OF DYNAMIC SIMULATION SYSTEM ON EARTHQUAKE SURROUNDINGS

    Institute of Scientific and Technical Information of China (English)

    沈毅力; 杨云; 李天石

    2003-01-01

    Objective To design a system that can simulate earthquake surroundings. In the surroundings, people can be familiar with the omen, strong shock and aftershock of earthquake, thus make right choices and get away when the disaster occurs. Methods The system consists of an electro-hydraulic servo system, a whole-information sound system and some lighting device; By using the adaptive inverse control method and LMS algorithms, the inverse model (I.e. The controller) is convergent rapidly; The software based on LabVIEW makes the parameters can be modified easily; There is a double closed-loop structure in the system: an analog closed-loop and a digital closed-loop, and their parameters can be inspected in real time. Results The system is of very high reliability, and the desired vibration signal can be tracked exactly by output. Conclusion Earthquake surroundings is simulated vividly. Through the system, people can be familiar with earthquake phenomena, and know lots of knowledge of earthquake.

  6. Tissue reaction surrounding miniscrews for orthodontic anchorage: An animal experiment

    Directory of Open Access Journals (Sweden)

    Stephanie Shih-Hsuan Chen

    2012-03-01

    Results and conclusions: (1 Tissue surrounding roots damaged by a miniscrew showed a significant inflammatory response. (2 Root resorption was occasionally observed after 3 weeks following insertion of a miniscrew even if the miniscrew was not in direct contact with the root. (3 Root repair was noted with a cementoblast lining along the resorption surface at as early as 3 weeks after miniscrew insertion. Alveolar bone filled in the lesion when the root damage was large so that the contour of the alveolar bone followed that of the damaged root, with the width of the periodontal ligament space being maintained. (4 Stable miniscrews were mainly those which did not contact adjacent roots, and for which the surrounding tissue showed only a small inflammatory response with some extent of direct bone contact around the miniscrew. On the contrary, most of the failed miniscrews were those which had direct contact with adjacent roots, and which exhibited severe tissue inflammation and were covered by thick layers of soft tissue. Failure was detected 3 weeks after insertion. Surprisingly, the epithelial lining surrounding the miniscrews might not have spontaneously resolved 6 weeks after screw removal. Persistent infection in the sinus tract was noted, and this would require attention.

  7. Identification of human papillomavirus genotypes by low - density gene chip detecting method%低密度基因芯片技术检测人乳头瘤病毒基因型的方法研究

    Institute of Scientific and Technical Information of China (English)

    周世媛; 朱爱荣; 薄立伟; 谢建生; 李静; 王艳丽; 周继苹

    2012-01-01

    Objective; To develop a low - density gene chip method for detection of human papillomavims (HPV) genotypes. Methods; Twenty -one HPV type - specific oligonucleotide probes, which containing 15 subtypes of high-risk HPV, 5 subtypes of low - risk HPV types and the subtype of CP8304, were tailed and immobilized on a nylon membrane to develop the low - density gene chip - based detecting system. Hybrid Capture 2 (HC2) was used as a gold standard to evaluate the new detecting system. A total of 148 cervical samples were selected by HC2 and were further detected with the low - density gene chip method. The sensitivity, specificity and repeatability of the detecting system were evaluated, and the reliability of genotypes was tested by DNA sequencing. Results: The low - density gene chip detecting result showed a good agreement with that of HC2. The observed agreement was 95.95% with kappa = 0. 82. A total of 18 genotypes were detected. Good sensitivity and specificity as well as stabilized system were found. Conclusion: The Low - density gene chip detection appears to be a high specific, sensitive, rapid, simple and economic approach used for HPV screening, diagnosis and prognosis evaluation.%目的:构建并评价检测人乳头瘤病毒(HPV)基因型的低密度基因芯片方法.方法:将15种高危、5种低危和Cp8304共21种HPV型特异寡核苷酸探针加尾、固定在尼龙膜上,制成低密度基因芯片.以第二代杂交捕获(HC2)法作为检出HPV的金标准,随机选取148例标本,用低密度基因芯片技术进行HPV检出和基因分型,并对检测系统的敏感性、特异性及重复性进行测试,判定基因测序检测芯片的可靠性.结果:148例标本,采用低密度基因芯片与HC2检出的完全符合率是95.95%(Kappa值为0.82),共检出18种HPV基因型.灵敏度、特异性较好,检测系统稳定.结论:低密度基因芯片技术具有敏感、特异、快速、简便、经济等特点,一次检测既能测定HPV感染

  8. A high-density SNP Map of sunflower derived from RAD-sequencing facilitating fine-mapping of the rust resistance gene R12.

    Directory of Open Access Journals (Sweden)

    Zahirul I Talukder

    Full Text Available A high-resolution genetic map of sunflower was constructed by integrating SNP data from three F2 mapping populations (HA 89/RHA 464, B-line/RHA 464, and CR 29/RHA 468. The consensus map spanned a total length of 1443.84 cM, and consisted of 5,019 SNP markers derived from RAD tag sequencing and 118 publicly available SSR markers distributed in 17 linkage groups, corresponding to the haploid chromosome number of sunflower. The maximum interval between markers in the consensus map is 12.37 cM and the average distance is 0.28 cM between adjacent markers. Despite a few short-distance inversions in marker order, the consensus map showed high levels of collinearity among individual maps with an average Spearman's rank correlation coefficient of 0.972 across the genome. The order of the SSR markers on the consensus map was also in agreement with the order of the individual map and with previously published sunflower maps. Three individual and one consensus maps revealed the uneven distribution of markers across the genome. Additionally, we performed fine mapping and marker validation of the rust resistance gene R12, providing closely linked SNP markers for marker-assisted selection of this gene in sunflower breeding programs. This high resolution consensus map will serve as a valuable tool to the sunflower community for studying marker-trait association of important agronomic traits, marker assisted breeding, map-based gene cloning, and comparative mapping.

  9. Increasing development in the surroundings of U.S. National Park Service holdings jeopardizes park effectiveness.

    Science.gov (United States)

    Gimmi, Urs; Schmidt, Shelley L; Hawbaker, Todd J; Alcántara, Camilo; Gafvert, Ulf; Radeloff, Volker C

    2011-01-01

    Protected areas are cornerstones of biodiversity conservation, but they are in danger of becoming islands in a sea of human dominated landscapes. Our question was if protected areas may even foster development in their surroundings because they provide amenities that attract development, thus causing the isolation of the ecosystems they were designed to protect. Our study analyzed historic aerial photographs and topographical maps to reconstruct road development and building growth within and around Indiana Dunes and Pictured Rocks National Lakeshores in the U.S. Great Lakes region from 1938 to 2005, and to estimate the effects of park creation in 1966 on changes in landscape patterns. Historic U.S. census housing density data were used as a baseline to compare observed changes to. Our results showed that park establishment was effective in reducing and stopping the fragmenting impact of development within park boundaries. However, increased amenity levels following park establishment led to enhanced development in the surroundings of both parks. In the extreme case of Indiana Dunes, building density outside the park increased from 45 to 200buildings/km(2) and road density almost doubled from 3.6 to 6.6km/km(2) from 1938 to 2005. Development rates of change were much higher than in the broader landscape, particularly after park establishment. The potential amenity effect was up to 9500 new buildings in the 3.2-km zone around Indiana Dunes between 1966 and 2005. For Pictured Rocks the absolute effect was smaller but up to 70% of the observed building growth was potentially due to amenity effects. Our findings highlight the need for conservation planning at broader scales, incorporating areas beyond the boundaries of protected areas. Copyright © 2010 Elsevier Ltd. All rights reserved.

  10. Five years of density matrix embedding theory

    CERN Document Server

    Wouters, Sebastian; Chan, Garnet K -L

    2016-01-01

    Density matrix embedding theory (DMET) describes finite fragments in the presence of a surrounding environment. In contrast to most embedding methods, DMET explicitly allows for quantum entanglement between both. In this chapter, we discuss both the ground-state and response theory formulations of DMET, and review several applications. In addition, a proof is given that the local density of states can be obtained by working with a Fock space of bath orbitals.

  11. High-density SNP screen of sodium channel genes by haplotype tagging and DNA pooling for association with idiopathic generalized epilepsy.

    Science.gov (United States)

    Makoff, Andrew; Lai, Teck; Barratt, Catherine; Valentin, Antonio; Moran, Nick; Asherson, Philip; Nashef, Lina

    2010-04-01

    We have investigated seven voltage-gated sodium channel genes for association with idiopathic generalized epilepsy (IGE). Probands and control DNA were grouped into pools and used to screen 85 single-nucleotide polymorphisms (SNPs), mostly HapMap SNPs tagging the common variation in these genes. Twelve SNPs exhibiting an allele frequency difference between pools were genotyped individually in our sample of 232 probands, 313 controls, and 95 parent-proband trios. Two SNPs, in SCN1A and SCN8A, were associated by allele and genotype at nominal level of significance, but were not significant after Bonferroni correction. Two SCN2A SNPs (rs3943809 and rs16850331) were associated by case-control with a subgroup with IGE and history of febrile seizures and also by transmission disequilibrium test (TDT) in parent-proband trios. Both SNPs are part of a linkage disequilibrium (LD) cluster of 38 SNPs, but none are obvious functional variants. The association of rs3943809 with the febrile seizure subgroup (p = 0.0004) remains significant after the conservative Bonferroni correction for multiple testing.

  12. The Use of High-Density SNP Array to Map Homozygosity in Consanguineous Families to Efficiently Identify Candidate Genes: Application to Woodhouse-Sakati Syndrome

    Directory of Open Access Journals (Sweden)

    Molly B. Sheridan

    2015-01-01

    Full Text Available Two consanguineous Qatari siblings presented for evaluation: a 17-4/12-year-old male with hypogonadotropic hypogonadism, alopecia, intellectual disability, and microcephaly and his 19-year-old sister with primary amenorrhea, alopecia, and normal cognition. Both required hormone treatment to produce secondary sex characteristics and pubertal development beyond Tanner 1. SNP array analysis of both probands was performed to detect shared regions of homozygosity which may harbor homozygous mutations in a gene causing their common features of abnormal pubertal development, alopecia, and variable cognitive delay. Our patients shared multiple homozygous genomic regions; ten shared regions were >1 Mb in length and constituted 0.99% of the genome. DCAF17, encoding a transmembrane nuclear protein of uncertain function, was the only gene identified in a homozygous region known to cause hypogonadotropic hypogonadism. DCAF17 mutations are associated with Woodhouse-Sakati syndrome, a rare disorder characterized by alopecia, hypogonadotropic hypogonadism, sensorineural hearing loss, diabetes mellitus, and extrapyramidal movements. Sequencing of the coding exons and flanking intronic regions of DCAF17 in the proband revealed homozygosity for a previously described founder mutation (c.436delC. Targeted DCAF17 sequencing of his affected sibling revealed the same homozygous mutation. This family illustrates the utility of SNP array testing in consanguineous families to efficiently and inexpensively identify regions of genomic homozygosity in which genetic candidates for recessive conditions can be identified.

  13. Lack of Association of Bone Morphogenetic Protein 2 Gene Haplotypes with Bone Mineral Density, Bone Loss, or Risk of Fractures in Men

    Directory of Open Access Journals (Sweden)

    Satya S. Varanasi

    2011-01-01

    Full Text Available Introduction. The association of bone morphogenetic protein 2 (BMP2 with BMD and risk of fracture was suggested by a recent linkage study, but subsequent studies have been contradictory. We report the results of a study of the relationship between BMP2 genotypes and BMD, annual change in BMD, and risk of fracture in male subjects. Materials and Methods. We tested three single-nucleotide polymorphisms (SNPs across the BMP2 gene, including Ser37Ala SNP, in 342 Caucasian Englishmen, comprising 224 control and 118 osteoporotic subjects. Results. BMP2 SNP1 (Ser37Ala genotypes were found to have similar low frequency in control subjects and men with osteoporosis. The major informative polymorphism, BMP2 SNP3 (Arg190Ser, showed no statistically significant association with weight, height, BMD, change in BMD at hip or lumbar spine, and risk of fracture. Conclusion. There were no genotypic or haplotypic effects of the BMP2 candidate gene on BMD, change in BMD, or fracture risk identified in this cohort.

  14. Use of low-density lipoprotein cholesterol gene score to distinguish patients with polygenic and monogenic familial hypercholesterolaemia: a case-control study.

    Science.gov (United States)

    Talmud, Philippa J; Shah, Sonia; Whittall, Ros; Futema, Marta; Howard, Philip; Cooper, Jackie A; Harrison, Seamus C; Li, Kawah; Drenos, Fotios; Karpe, Frederik; Neil, H Andrew W; Descamps, Olivier S; Langenberg, Claudia; Lench, Nicholas; Kivimaki, Mika; Whittaker, John; Hingorani, Aroon D; Kumari, Meena; Humphries, Steve E

    2013-04-13

    Familial hypercholesterolaemia is a common autosomal-dominant disorder caused by mutations in three known genes. DNA-based cascade testing is recommended by UK guidelines to identify affected relatives; however, about 60% of patients are mutation-negative. We assessed the hypothesis that familial hypercholesterolaemia can also be caused by an accumulation of common small-effect LDL-C-raising alleles. In November, 2011, we assembled a sample of patients with familial hypercholesterolaemia from three UK-based sources and compared them with a healthy control sample from the UK Whitehall II (WHII) study. We also studied patients from a Belgian lipid clinic (Hôpital de Jolimont, Haine St-Paul, Belgium) for validation analyses. We genotyped participants for 12 common LDL-C-raising alleles identified by the Global Lipid Genetics Consortium and constructed a weighted LDL-C-raising gene score. We compared the gene score distribution among patients with familial hypercholesterolaemia with no confirmed mutation, those with an identified mutation, and controls from WHII. We recruited 321 mutation-negative UK patients (451 Belgian), 319 mutation-positive UK patients (273 Belgian), and 3020 controls from WHII. The mean weighted LDL-C gene score of the WHII participants (0.90 [SD 0.23]) was strongly associated with LDL-C concentration (p=1.4 x 10(-77); R(2)=0.11). Mutation-negative UK patients had a significantly higher mean weighted LDL-C score (1.0 [SD 0.21]) than did WHII controls (p=4.5 x 10(-16)), as did the mutation-negative Belgian patients (0.99 [0.19]; p=5.2 x 10(-20)). The score was also higher in UK (0.95 [0.20]; p=1.6 x 10(-5)) and Belgian (0.92 [0.20]; p=0.04) mutation-positive patients than in WHII controls. 167 (52%) of 321 mutation-negative UK patients had a score within the top three deciles of the WHII weighted LDL-C gene score distribution, and only 35 (11%) fell within the lowest three deciles. In a substantial proportion of patients with

  15. Association of loss-of-function mutations in the ABCA1 gene with high-density lipoprotein cholesterol levels and risk of ischemic heart disease

    DEFF Research Database (Denmark)

    Frikke-Schmidt, R.; Nordestgaard, B.G.; Stene, M.C.A.

    2008-01-01

    Context Low levels of high- density lipoprotein ( HDL) cholesterol are inversely related to cardiovascular risk. Whether this is a causal effect is unclear. Objective To determine whether genetically reduced HDL cholesterol due to heterozygosity for 4 loss- of- function mutations in ABCA1 cause...... Study ( CGPS), a cross- sectional general population study ( n= 31 241; 76 heterozygotes); and the Copenhagen Ischemic Heart Disease Study ( CIHDS), a case- control study ( n= 16 623; 44 heterozygotes). End points in all 3 studies were recorded during the period of January 1, 1976, through July 9, 2007....... Main Outcome Measures Levels of HDL cholesterol in the general population, cellular cholesterol efflux, and the association between IHD and HDL cholesterol and genotype. Results Heterozygotes vs noncarriers for 4 ABCA1 mutations ( P1065S, G1216V, N1800H, R2144X) had HDL cholesterol levels of 41 mg/ d...

  16. Moss Chloroplasts Are Surrounded by a Peptidoglycan Wall Containing D-Amino Acids[OPEN

    Science.gov (United States)

    Hirano, Takayuki; Tanidokoro, Koji; Shimizu, Yasuhiro; Kawarabayasi, Yutaka; Ohshima, Toshihisa; Sato, Momo; Tadano, Shinji; Ishikawa, Hayato; Takio, Susumu; Takechi, Katsuaki; Takano, Hiroyoshi

    2016-01-01

    It is believed that the plastids in green plants lost peptidoglycan (i.e., a bacterial cell wall-containing d-amino acids) during their evolution from an endosymbiotic cyanobacterium. Although wall-like structures could not be detected in the plastids of green plants, the moss Physcomitrella patens has the genes required to generate peptidoglycan (Mur genes), and knocking out these genes causes defects in chloroplast division. Here, we generated P. patens knockout lines (∆Pp-ddl) for a homolog of the bacterial peptidoglycan-synthetic gene encoding d-Ala:d-Ala ligase. ∆Pp-ddl had a macrochloroplast phenotype, similar to other Mur knockout lines. The addition of d-Ala-d-Ala (DA-DA) to the medium suppressed the appearance of giant chloroplasts in ∆Pp-ddl, but the addition of l-Ala-l-Ala (LA-LA), DA-LA, LA-DA, or d-Ala did not. Recently, a metabolic method for labeling bacterial peptidoglycan was established using ethynyl-DA-DA (EDA-DA) and click chemistry to attach an azide-modified fluorophore to the ethynyl group. The ∆Pp-ddl line complemented with EDA-DA showed that moss chloroplasts are completely surrounded by peptidoglycan. Our findings strongly suggest that the moss plastids have a peptidoglycan wall containing d-amino acids. By contrast, no plastid phenotypes were observed in the T-DNA tagged ddl mutant lines of Arabidopsis thaliana. PMID:27325639

  17. Transmission of ESBL/AmpC-producing Escherichia coli from broiler chicken farms to surrounding areas.

    Science.gov (United States)

    Laube, H; Friese, A; von Salviati, C; Guerra, B; Rösler, U

    2014-08-27

    Although previous studies have demonstrated high carriage of ESBL/AmpC-producing Escherichia coli in livestock, especially in broiler chickens, data on emission sources of these bacteria into the environment are still rare. Therefore, this study was designed to systematically investigate the occurrence of ESBL/AmpC-producing E. coli in slurry, air (inside animal houses), ambient air (outside animal houses) and on soil surfaces in the areas surrounding of seven ESBL/AmpC-positive broiler chicken fattening farms, including investigation of the possible spread of these bacteria via the faecal route and/or exhaust air into the environment. Seven German broiler fattening farms were each investigated at three points in time (3-36 h after restocking, 14-18 and 26-35 days after housing) during one fattening period. The occurrence of ESBL/AmpC genes in the investigated samples was confirmed by PCR, detecting blaCTX-M, blaSHV, blaTEM and blaCMY-genes, and, if necessary, by sequencing and/or the disc diffusion method. The results showed a wide spread of ESBL/AmpC-producing E. coli in broiler farms, as well as emissions into the surroundings. 12 out of 14 (86%) slurry samples were positive for ESBL/AmpC-producing E. coli. Additionally, 28.8% (n=23/80) of boot swabs taken from various surfaces in the areas surrounding of the farms as well as 7.5% (n=3/40) of the exhaust air samples turned out to be positive for these microorganisms. Moreover, a small proportion of air samples from inside the barns were ESBL/AmpC-positive. By comparing selected isolates using pulsed field gel electrophoresis, we proved that faecal and airborne transfer of ESBL/AmpC-producing microorganisms from broiler fattening farms to the surrounding areas is possible. Two isolates from farm G2 (slurry and boot swab 50 m downwind), two isolates from farm G3 (slurry and individual animal swab) as well as two isolates from farm G6 (air sample in the barn and air sample 50 m downwind) showed 100% similarity in

  18. Complex genetic structure of the rabies virus in Bangkok and its surrounding provinces, Thailand: implications for canine rabies control.

    Science.gov (United States)

    Lumlertdacha, Boonlert; Wacharapluesadee, Supaporn; Denduangboripant, Jessada; Ruankaew, Nipada; Hoonsuwan, Wirongrong; Puanghat, Apirom; Sakarasaeranee, Plyyonk; Briggs, Deborrah; Hemachudha, Thiravat

    2006-03-01

    Dog vaccination and population management have been suggested as priorities in attempts at disease control in canine rabies-endemic countries. Budget limitations and the complexity of social, cultural and religious variables have complicated progress in the developing world. In Bangkok, Thailand, an intensive canine vaccination and sterilization programme has been in place since November 2002. Our objective was to determine if the rabies virus could be mapped according to its genetic variations and geographical location on the small localized scale of Bangkok and its surrounding provinces. Phylogenetic characterization of 69 samples from Bangkok and five neighbouring and two remote provinces, by limited sequence analysis of the rabies virus nucleoprotein gene, distinguished six different clades. Rabies viruses of four clades were intermixed in Bangkok and in the surrounding highly populated regions whereas the other two clades were confined to rural and less populated provinces. Such a complex pattern of gene flow, particularly in Bangkok, may affect the outcome of canine control programmes.

  19. On the environment surrounding close-in exoplanets

    Science.gov (United States)

    Vidotto, A. A.; Fares, R.; Jardine, M.; Moutou, C.; Donati, J.-F.

    2015-06-01

    Exoplanets in extremely close-in orbits are immersed in a local interplanetary medium (i.e. the stellar wind) much denser than the local conditions encountered around the Solar system planets. The environment surrounding these exoplanets also differs in terms of dynamics (slower stellar winds, but higher Keplerian velocities) and ambient magnetic fields (likely higher for host stars more active than the Sun). Here, we quantitatively investigate the nature of the interplanetary media surrounding the hot Jupiters HD 46375b, HD 73256b, HD 102195b, HD 130322b and HD 179949b. We simulate the three-dimensional winds of their host stars, in which we directly incorporate their observed surface magnetic fields. With that, we derive mass-loss rates (1.9-8.0 × 10-13 M⊙ yr-1) and the wind properties at the position of the hot Jupiters' orbits (temperature, velocity, magnetic field intensity and pressure). We show that these exoplanets' orbits are supermagnetosonic, indicating that bow shocks are formed surrounding these planets. Assuming planetary magnetic fields similar to Jupiter's, we estimate planetary magnetospheric sizes of 4.1-5.6 planetary radii. We also derive the exoplanetary radio emission released in the dissipation of the stellar wind energy. We find radio fluxes ranging from 0.02 to 0.13 mJy, which are challenging to be observed with present-day technology, but could be detectable with future higher sensitivity arrays (e.g. Square Kilometre Array). Radio emission from systems having closer hot Jupiters, such as from τ Boo b or HD 189733b, or from nearby planetary systems orbiting young stars, are likely to have higher radio fluxes, presenting better prospects for detecting exoplanetary radio emission.

  20. Issues surrounding record keeping in district nursing practice.

    Science.gov (United States)

    Anderson, E E

    2000-07-01

    This article examines some aspects of nursing documentation following the publication of the document 'Guidelines for Records and Record Keeping' (UKCC, 1998). The importance of nursing documentation in patient care, in guiding practice and in providing information for members of the interprofessional healthcare team is highlighted. Record keeping forms an important part of the clinical governance initiative in terms of quality improvement and risk management. The issues surrounding the legal requirements of record keeping in district nursing practice are discussed. Suggestions are made for assessing the quality of nursing documentation by audit and research, in order to establish the suitability of using the present systems in the community setting.

  1. Induced radioactivity in a 4 MW target and its surroundings

    CERN Document Server

    Agosteo, Stefano; Otto, Thomas; Silari, Marco

    2003-01-01

    An important aspect of a future CERN Neutrino Factory is the material activation arising from a 2.2 GeV, 4 MW proton beam striking a mercury target. An estimation of the hadronic inelastic interactions and the production of residual nuclei in the target, the magnetic horn, the decay tunnel, the surrounding rock and a downstream dump was performed by the Monte Carlo hadronic cascade code FLUKA. The aim was both to assess the dose equivalent rate to be expected during maintenance work and to evaluate the amount of residual radioactivity, which will have to be disposed of after the facility has ceased operation.

  2. Mutual seismic interaction between tunnels and the surrounding granular soil

    Directory of Open Access Journals (Sweden)

    Mohamed Ahmed Abdel-Motaal

    2014-12-01

    Study results show that the maximum exerted straining actions in tunnel lining are directly proportional to the relative stiffness between tunnel and surrounding soil (lining thickness and soil shear modulus. Moreover, it is highly affected by the peak ground acceleration and the tunnel location (embedment depth. A comprehensive study is performed to show the effect of tunnel thickness and tunnel diameter on both the induced bending moment and lining deformation. In general, it is concluded that seismic analysis should be considered in regions subjected to peak ground acceleration greater than 0.15g.

  3. Problems Surrounding Probation In The South African Public Service

    Directory of Open Access Journals (Sweden)

    Z. Baloyi

    2006-11-01

    Full Text Available The aim of the study was to investigate problems surrounding probation periods in the South African Public Service. A qualitative study was conducted to determine the views of both probationers and supervisors managing the probation process. Data was gathered by means of focus groups and individual interviews. Nine key areas were identified as being problematic, viz. clarity regarding the purpose of probation, lack of proper guidelines, the duration of probation, rotation during probation, lack of training, poor management of probation, performance management, anxiety and stress, power and authority. Recommendations are made concerning possible interventions.

  4. Proposing local trees diversity for rehabilitation of degraded lowland areas surrounding springs

    Directory of Open Access Journals (Sweden)

    SOEJONO

    2013-04-01

    Full Text Available Soejono, Budiharta S, Arisoesilaningsih E. 2013. Proposing local trees diversity for rehabilitation of degraded lowland areas surrounding water spring. Biodiversitas 14: 37-42. This study was aimed to propose alternative trees diversity for rehabilitation of degraded lowland area surrounding spring. Data were collected by vegetation analysis of three sampling sites (1st. Cowek, 2nd Gajahrejo, 3rd Parerejo to determine density, frequency, dominancy, diversity index and Important Value Index (IVI. The lists of plants in three sites were then compiled into an integrated list and used as reference for developing questionnaire. The questionnaire was then distributed to respondents who were chosen randomly. We recorded their preferences of tree species in rehabilitation program based on socio-economical and ecological aspects. Selected species were then proposed as alternative plants for rehabilitation of degraded spring area based on landscape topography and remaining vegetation coverage. The results showed that species diversity of Moracecae family was the highest than other families. In term of ecological aspect, Ficus racemosa, Artocarpus elasticus, Bambusa blumeana, Dendrocalamus asper, Gigantochloa atter, Ficus benjamina, Syzygium samarangensis and Ficus virens showed high Important Value Index. On the other hand, based on socio-economic aspects, Ficus benjamina, Artocarpus elasticus, Artocarpus altilis, Artocarpus altilis “Seedless”, Durio zbethinus, Ficus drupacea, Pangium edule, Ficus varigata, Michelia champaca, Aleurites moluccana and Ficus racemosa were the most preferred species by local community. Based on topography and vegetation coverage, spring surrounding areas were were classified into four: steep and open, flat and open, steep and dense, and flat and dense. Therefore among of 120 species found in all sampling sites, there were respectively 63.3%, 95%, 25% and 44.16% species to be proposed and planted for rehabilitation in the

  5. Classifying genes to the correct Gene Ontology Slim term in Saccharomyces cerevisiae using neighbouring genes with classification learning

    OpenAIRE

    Tsatsoulis Costas; Amthauer Heather A

    2010-01-01

    Abstract Background There is increasing evidence that gene location and surrounding genes influence the functionality of genes in the eukaryotic genome. Knowing the Gene Ontology Slim terms associated with a gene gives us insight into a gene's functionality by informing us how its gene product behaves in a cellular context using three different ontologies: molecular function, biological process, and cellular component. In this study, we analyzed if we could classify a gene in Saccharomyces ce...

  6. Radio observations of Supernova Remnants and the surrounding molecular gas

    CERN Document Server

    Dubner, G

    2011-01-01

    Supernova Remnants (SNRs) are believed to be the main source of Galactic cosmic rays (CR). The strong SNR shocks provide ideal acceleration sites for particles of at least 10^14 eV/nucleon. Radio continuum studies of SNRs carried out with good sensitivity and high angular resolution convey information about three main aspects of the SNRs: morphology, polarization and spectrum. Based on this information it is possible to localize sites of higher compression and particle acceleration as well as the orientation and degree of order of the magnetic fields, and in some cases even its intensity. All this information, when complemented with the study of the distribution and kinematics of the surrounding interstellar gas, results in a very useful dataset to investigate the role of SNRs as cosmic ray accelerators. In this presentation, I analyze the radio observations of SNRs and surrounding molecular clouds, showing the contribution of these studies to the understanding of the role of SNRs as factories of CRs.

  7. On the environment surrounding close-in exoplanets

    CERN Document Server

    Vidotto, A A; Jardine, M; Moutou, C; Donati, J -F

    2015-01-01

    Exoplanets in extremely close-in orbits are immersed in a local interplanetary medium (i.e., the stellar wind) much denser than the local conditions encountered around the solar system planets. The environment surrounding these exoplanets also differs in terms of dynamics (slower stellar winds, but higher Keplerian velocities) and ambient magnetic fields (likely higher for host stars more active than the Sun). Here, we quantitatively investigate the nature of the interplanetary media surrounding the hot Jupiters HD46375b, HD73256b, HD102195b, HD130322b, HD179949b. We simulate the three-dimensional winds of their host stars, in which we directly incorporate their observed surface magnetic fields. With that, we derive mass-loss rates (1.9 to 8.0 $\\times 10^{-13} M_{\\odot}$/yr) and the wind properties at the position of the hot-Jupiters' orbits (temperature, velocity, magnetic field intensity and pressure). We show that these exoplanets' orbits are super-magnetosonic, indicating that bow shocks are formed surrou...

  8. Availability of limited service food outlets surrounding schools in British Columbia.

    Science.gov (United States)

    Black, Jennifer L; Day, Meghan

    2012-06-05

    The purpose of this study was to provide a descriptive profile of the availability of limited service food outlets surrounding public schools in British Columbia, Canada. Data from the 2010 Canadian Business Data Files were used to identify limited service food outlets including fast food outlets, beverage and snack food stores, delis and convenience stores. The number of food outlets within 800 metres of 1,392 public schools and the distance from schools to the nearest food outlets were assessed. Multivariate regression models examined the associations between food outlet availability and school-level characteristics. In 2010, over half of the public schools in BC (54%) were located within a 10-12 minute walk from at least one limited service food outlet. The median closest distance to a food outlet was just over 1 km (1016 m). Schools comprised of students living in densely populated urban neighbourhoods and neighbourhoods characterized by lower socio-economic status were more likely to have access to limited service food outlets within walking distance. After adjusting for school-level median family income and population density, larger schools had higher odds of exposure to food vendors compared to schools with fewer students. The availability of and proximity to limited service food outlets vary widely across schools in British Columbia and school-level characteristics are significantly associated with food outlet availability. Additional research is needed to understand how food environment exposures inside and surrounding schools impact students' attitudes, food choices and dietary quality.

  9. The connection between AGN-driven dusty outflows and the surrounding environment

    Science.gov (United States)

    Ishibashi, W.; Fabian, A. C.

    2016-04-01

    Significant reservoirs of cool gas are observed in the circumgalactic medium (CGM) surrounding galaxies. The CGM is also found to contain substantial amounts of metals and dust, which require some transport mechanism. We consider AGN (active galactic nucleus) feedback-driven outflows based on radiation pressure on dust. Dusty gas is ejected when the central luminosity exceeds the effective Eddington luminosity for dust. We obtain that a higher dust-to-gas ratio leads to a lower critical luminosity, implying that the more dusty gas is more easily expelled. Dusty outflows can reach large radii with a range of velocities (depending on the outflowing shell configuration and the ambient density distribution) and may account for the observed CGM gas. In our picture, dust is required in order to drive AGN feedback, and the preferential expulsion of dusty gas in the outflows may naturally explain the presence of dust in the CGM. On the other hand, the most powerful AGN outflow events can potentially drive gas out of the local galaxy group. We further discuss the effects of radiation pressure of the central AGN on satellite galaxies. AGN radiative feedback may therefore have a significant impact on the evolution of the whole surrounding environment.

  10. Improved response surface method and its application in stability reliability degree analysis of tunnel surrounding rock

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    An approach of limit state equation for surrounding rock was put forward based on deformation criterion. A method of symmetrical sampling of basic random variables adopted by classical response surface method was mended, and peak value and deflection degree of basic random variables distribution curve were took into account in the mended sampling method. A calculation way of probability moment, based on mended Rosenbluth method, suitable for non-explicit performance function was put forward.The first, second, third and fourth order moments of functional function value were calculated by mended Rosenbluth method through the first, second, third and fourth order moments of basic random variable. A probability density the function(PDF) of functional function was deduced through its first, second, third and fourth moments, the PDF in the new method took the place of the method of quadratic polynomial to approximate real functional function and reliability probability was calculated through integral by the PDF for random variable of functional function value in the new method. The result shows that the improved response surface method can adapt to various statistic distribution types of basic random variables, its calculation process is legible and need not iterative circulation. In addition, a stability probability of surrounding rock for a tunnel was calculated by the improved method,whose workload is only 30% of classical method and its accuracy is comparative.

  11. Charge plasma technique based dopingless accumulation mode junctionless cylindrical surrounding gate MOSFET: analog performance improvement

    Science.gov (United States)

    Trivedi, Nitin; Kumar, Manoj; Haldar, Subhasis; Deswal, S. S.; Gupta, Mridula; Gupta, R. S.

    2017-09-01

    A charge plasma technique based dopingless (DL) accumulation mode (AM) junctionless (JL) cylindrical surrounding gate (CSG) MOSFET has been proposed and extensively investigated. Proposed device has no physical junction at source to channel and channel to drain interface. The complete silicon pillar has been considered as undoped. The high free electron density or induced N+ region is designed by keeping the work function of source/drain metal contacts lower than the work function of undoped silicon. Thus, its fabrication complexity is drastically reduced by curbing the requirement of high temperature doping techniques. The electrical/analog characteristics for the proposed device has been extensively investigated using the numerical simulation and are compared with conventional junctionless cylindrical surrounding gate (JL-CSG) MOSFET with identical dimensions. For the numerical simulation purpose ATLAS-3D device simulator is used. The results show that the proposed device is more short channel immune to conventional JL-CSG MOSFET and suitable for faster switching applications due to higher I ON/ I OFF ratio.

  12. Identification of candidate gene regions in the rat by co-localization of QTLs for bone density, size, structure and strength.

    Directory of Open Access Journals (Sweden)

    Sofia Lagerholm

    Full Text Available Susceptibility to osteoporotic fracture is influenced by genetic factors that can be dissected by whole-genome linkage analysis in experimental animal crosses. The aim of this study was to characterize quantitative trait loci (QTLs for biomechanical and two-dimensional dual-energy X-ray absorptiometry (DXA phenotypes in reciprocal F2 crosses between diabetic GK and normo-glycemic F344 rat strains and to identify possible co-localization with previously reported QTLs for bone size and structure. The biomechanical measurements of rat tibia included ultimate force, stiffness and work to failure while DXA was used to characterize tibial area, bone mineral content (BMC and areal bone mineral density (aBMD. F2 progeny (108 males, 98 females were genotyped with 192 genome-wide markers followed by sex- and reciprocal cross-separated whole-genome QTL analyses. Significant QTLs were identified on chromosome 8 (tibial area; logarithm of odds (LOD = 4.7 and BMC; LOD = 4.1 in males and on chromosome 1 (stiffness; LOD = 5.5 in females. No QTLs showed significant sex-specific interactions. In contrast, significant cross-specific interactions were identified on chromosome 2 (aBMD; LOD = 4.7 and chromosome 6 (BMC; LOD = 4.8 for males carrying F344mtDNA, and on chromosome 15 (ultimate force; LOD = 3.9 for males carrying GKmtDNA, confirming the effect of reciprocal cross on osteoporosis-related phenotypes. By combining identified QTLs for biomechanical-, size- and qualitative phenotypes (pQCT and 3D CT from the same population, overlapping regions were detected on chromosomes 1, 3, 4, 6, 8 and 10. These are strong candidate regions in the search for genetic risk factors for osteoporosis.

  13. Thiazide-sensitive Na+ -Cl- cotransporter (NCC) gene inactivation results in increased duodenal Ca2+ absorption, enhanced osteoblast differentiation and elevated bone mineral density.

    Science.gov (United States)

    Hsu, Yu-Juei; Yang, Sung-Sen; Cheng, Chih-Jen; Liu, Shu-Ting; Huang, Shih-Ming; Chau, Tom; Chu, Pauling; Salter, Donald M; Lee, Herng-Sheng; Lin, Shih-Hua

    2015-01-01

    Inactivation of the thiazide-sensitive sodium chloride cotransporter (NCC) due to genetic mutations in Gitelman's syndrome (GS) or pharmacological inhibition with thiazide diuretics causes hypocalciuria and increased bone mineral density (BMD) with unclear extrarenal calcium (Ca(2+) ) regulation. We investigated intestinal Ca(2+) absorption and bone Ca(2+) metabolism in nonsense Ncc Ser707X (S707X) homozygous knockin mice (Ncc(S707X/S707X) mice). Compared to wild-type and heterozygous knockin littermates, Ncc(S707X/S707X) mice had increased intestinal absorption of (45) Ca(2+) and expression of the active Ca(2+) transport machinery (transient receptor potential vanilloid 6, calbindin-D9K , and plasma membrane Ca(2+) ATPase isoform 1b). Ncc(S707X/S707X) mice had also significantly increased Ca(2+) content accompanied by greater mineral apposition rate (MAR) in their femurs and higher trabecular bone volume, cortical bone thickness, and BMD determined by μCT. Their osteoblast differentiation markers, such as bone alkaline phosphatase, procollagen I, osteocalcin, and osterix, were also significantly increased while osteoclast activity was unaffected. Analysis of marrow-derived bone cells, either treated with thiazide or directly cultured from Ncc S707X knockin mice, showed that the differentiation of osteoblasts was associated with increased phosphorylation of mechanical stress-induced focal adhesion kinase (FAK) and extracellular signal-regulated kinase (ERK). In conclusion, NCC inhibition stimulates duodenal Ca(2+) absorption as well as osteoblast differentiation and bone Ca(2+) storage, possibly through a FAK/ERK dependent mechanism. © 2014 American Society for Bone and Mineral Research.

  14. Kinetic signatures of the region surrounding the X line in asymmetric (magnetopause) reconnection

    Science.gov (United States)

    Shay, M. A.; Phan, T. D.; Haggerty, C. C.; Fujimoto, M.; Drake, J. F.; Malakit, K.; Cassak, P. A.; Swisdak, M.

    2016-05-01

    Kinetic particle-in-cell simulations are used to identify signatures of the electron diffusion region (EDR) and its surroundings during asymmetric magnetic reconnection. A "shoulder" in the sunward pointing normal electric field (EN > 0) at the reconnection magnetic field reversal is a good indicator of the EDR and is caused by magnetosheath electron meandering orbits in the vicinity of the X line. Earthward of the X line, electrons accelerated by EN form strong currents and crescent-shaped distribution functions in the plane perpendicular to B. Just downstream of the X line, parallel electric fields create field-aligned crescent electron distribution functions. In the immediate upstream magnetosheath, magnetic field strength, plasma density, and perpendicular electron temperatures are lower than the asymptotic state. In the magnetosphere inflow region, magnetosheath ions intrude resulting in an Earthward pointing electric field and parallel heating of magnetospheric particles. Many of the above properties persist with a guide field of at least unity.

  15. High-resolution elevation mapping of the McMurdo Dry Valleys, Antarctica, and surrounding regions

    Science.gov (United States)

    Fountain, Andrew G.; Fernandez-Diaz, Juan C.; Obryk, Maciej; Levy, Joseph; Gooseff, Michael; Van Horn, David J.; Morin, Paul; Shrestha, Ramesh

    2017-07-01

    We present detailed surface elevation measurements for the McMurdo Dry Valleys, Antarctica derived from aerial lidar surveys flown in the austral summer of 2014-2015 as part of an effort to understand geomorphic changes over the past decade. Lidar return density varied from 2 to > 10 returns m-2 with an average of about 5 returns m-2. Vertical and horizontal accuracies are estimated to be 7 and 3 cm, respectively. In addition to our intended targets, other ad hoc regions were also surveyed including the Pegasus flight facility and two regions on Ross Island, McMurdo Station, Scott Base (and surroundings), and the coastal margin between Cape Royds and Cape Evans. These data are included in this report and data release. The combined data are freely available at https://doi.org/10.5069/G9D50JX3" target="_blank">https://doi.org/10.5069/G9D50JX3.

  16. Kinetic signatures of the region surrounding the X-line in asymmetric (magnetopause) reconnection

    CERN Document Server

    Shay, M A; Haggerty, C C; Fujimoto, M; Drake, J F; Malakit, K; Cassak, P A; Swisdak, M

    2016-01-01

    Kinetic particle-in-cell simulations are used to identify signatures of the electron diffusion region (EDR) and its surroundings during asymmetric magnetic reconnection. A "shoulder" in the sunward pointing normal electric field (EN > 0) at the reconnection magnetic field reversal is a good indicator of the EDR, and is caused by magnetosheath electron meandering orbits in the vicinity of the x-line. Earthward of the X-line, electrons accelerated by EN form strong currents and crescent-shaped distribution functions in the plane perpendicular to B. Just downstream of the X-line, parallel electric fields create field-aligned crescent electron distribution functions. In the immediate upstream magnetosheath, magnetic field strength, plasma density, and perpendicular electron temperatures are lower than the asymptotic state. In the magnetosphere inflow region, magnetosheath ions intrude resulting in an Earthward pointing electric field and parallel heating of magnetospheric particles. Many of the above properties p...

  17. Extended stellar substructure surrounding the Bo\\"otes I dwarf spheroidal galaxy

    CERN Document Server

    Roderick, T A; Jerjen, H; Da Costa, G S

    2016-01-01

    We present deep stellar photometry of the Bo\\"otes I dwarf spheroidal galaxy in g and i band filters, taken with the Dark Energy Camera at Cerro Tololo in Chile. Our analysis reveals a large, extended region of stellar substructure surrounding the dwarf, as well as a distinct over-density encroaching on its tidal radius. A radial profile of the Bo\\"otes I stellar distribution shows a break radius indicating the presence of extra-tidal stars. These observations strongly suggest that Bo\\"otes I is experiencing tidal disruption, although not as extreme as that exhibited by the Hercules dwarf spheroidal. Combined with revised velocity dispersion measurements from the literature, we see evidence suggesting the need to review previous theoretical models of the Bo\\"otes I dwarf spheroidal galaxy.

  18. Effect of estrogen receptor-alpha (ESR1 gene polymorphism on high density lipoprotein levels in response to hormone replacement therapy

    Directory of Open Access Journals (Sweden)

    N.C. Nogueira-de-Souza

    2009-12-01

    Full Text Available Studies have shown that estrogen replacement therapy and estrogen plus progestin replacement therapy alter serum levels of total, LDL and HDL cholesterol levels. However, HDL cholesterol levels in women vary considerably in response to hormone replacement therapy (HRT. A significant portion of the variability of these levels has been attributed to genetic factors. Therefore, we investigated the influence of estrogen receptor-alpha (ESR1 gene polymorphisms on HDL levels in response to postmenopausal HRT. We performed a prospective cohort study on 54 postmenopausal women who had not used HRT before the study and had no significant general medical illness. HRT consisted of conjugated equine estrogen and medroxyprogesterone acetate continuously for 1 year. The lipoprotein levels were measured from blood samples taken before the start of therapy and after 1 year of HRT. ESR1 polymorphism (MspI C>T, HaeIII C>T, PvuII C>T, and XbaI A>G frequencies were assayed by restriction fragment length polymorphism. A general linear model was used to describe the relationships between HDL levels and genotypes after adjusting for age. A significant increase in HDL levels was observed after HRT (P = 0.029. Women with the ESR1 PvuII TT genotype showed a statistically significant increase in HDL levels after HRT (P = 0.032. No association was found between other ESR1 polymorphisms and HDL levels. According to our results, the ESR1 PvuII TT genotype was associated with increased levels of HDL after 1 year of HRT.

  19. The Stability of the Vacuum Polarization Surrounding a Charged Particle

    CERN Document Server

    Himpsel, F J

    2015-01-01

    The internal stability of the electron has been debated for a century at both the classical and the quantum level. Recently, a local force density balance was established for the 1s electron in the H atom, based on the energy-momentum tensor of the classical Dirac field. This methodology is now extended to quantum fields by considering the force densities acting on the vacuum polarization induced by a point charge. Such a model is applicable to any charged particle at large distances, since the only vestige of its internal structure is the electric Coulomb field together with the vacuum polarization induced by it. While the polarization charge density is attracted to the point charge, it is kept from collapsing by repulsive forces due to confinement and degeneracy. It is shown analytically that the corresponding force densities are balanced for every filled shell of mj states at a given angular momentum j. The force densities are then summed over all single-electron states in the Dirac sea and renormalized by...

  20. An analysis of amino acid sequences surrounding archaeal glycoprotein sequons.

    Science.gov (United States)

    Abu-Qarn, Mehtap; Eichler, Jerry

    2007-05-01

    Despite having provided the first example of a prokaryal glycoprotein, little is known of the rules governing the N-glycosylation process in Archaea. As in Eukarya and Bacteria, archaeal N-glycosylation takes place at the Asn residues of Asn-X-Ser/Thr sequons. Since not all sequons are utilized, it is clear that other factors, including the context in which a sequon exists, affect glycosylation efficiency. As yet, the contribution to N-glycosylation made by sequon-bordering residues and other related factors in Archaea remains unaddressed. In the following, the surroundings of Asn residues confirmed by experiment as modified were analyzed in an attempt to define sequence rules and requirements for archaeal N-glycosylation.

  1. An analysis of amino acid sequences surrounding archaeal glycoprotein sequons

    Directory of Open Access Journals (Sweden)

    Mehtap Abu-Qarn

    2006-01-01

    Full Text Available Despite having provided the first example of a prokaryal glycoprotein, little is known of the rules governing the N-glycosylation process in Archaea. As in Eukarya and Bacteria, archaeal N-glycosylation takes place at the Asn residues of Asn-X-Ser/Thr sequons. Since not all sequons are utilized, it is clear that other factors, including the context in which a sequon exists, affect glycosylation efficiency. As yet, the contribution to N-glycosylation made by sequon-bordering residues and other related factors in Archaea remains unaddressed. In the following, the surroundings of Asn residues confirmed by experiment as modified were analyzed in an attempt to define sequence rules and requirements for archaeal N-glycosylation.

  2. Wave rectification in plasma sheaths surrounding electric field antennas

    Science.gov (United States)

    Boehm, M. H.; Carlson, C. W.; Mcfadden, J. P.; Clemmons, J. H.; Ergun, R. E.; Mozer, F. S.

    1994-01-01

    Combined measurements of Langmuir or broadband whistler wave intensity and lower-frequency electric field waveforms, all at 10-microsecond time resolution, were made on several recent sounding rockets in the auroral ionosphere. It is found that Langmuir and whistler waves are partically rectified in the plasma sheaths surrounding the payload and the spheres used as antennas. This sheath rectification occurs whenever the high frequency (HF) potential across the sheath becomes of the same order as the electron temperature or higher, for wave frequencies near or above the ion plasma frequency. This rectification can introduce false low-frequency waves into measurements of electric field spectra when strong high-frequency waves are present. Second harmonic signals are also generated, although at much lower levels. The effect occurs in many different plasma conditions, primarily producing false waves at frequencies that are low enough for the antenna coupling to the plasma to be resistive.

  3. The nature of plerions surrounding soft gamma-ray repeaters

    CERN Document Server

    Harding, A K

    1995-01-01

    Compact steady sources of X-ray emission have been detected at the positions of at least two soft gamma-ray repeaters (SGRs). These sources have been interpreted as synchrotron nebulae powered by the neutron star that is causing the bursts. We explore a plerion model for the sources surrounding SGRs where the steady observed emission is powered by the SGR bursts rather than by the spin-down of a pulsar. In this case there is no limit on the neutron star magnetic field. We find that the synchrotron lifetime of the particles injected into the plerion around SGR1806-20 is long enough to smear out nebular emission from individual bursts. Transient nebular emission would therefore not be detected following an SGR burst. The combined radio emission from multiple burst injections is expected to have a steeper spectrum than that of a typical plerion.

  4. Casimir Effect in the Kerr Spacetime Surrounded by Quintessence

    CERN Document Server

    Bezerra, V B; Freitas, L F F; Muniz, C R

    2016-01-01

    We calculate the Casimir energy of a massless scalar field in a cavity formed by nearby parallel plates orbiting a rotating spherical body surrounded by quintessence, investigating the influence of the gravitational field on that energy, at zero temperature. This influence includes the effects due to the spacetime dragging caused by the source rotation as well as those ones due to the quintessence. We show that the energy depends on all the involved parameters, as source mass, angular momentum and quintessence state parameter, for any radial coordinate and polar angle. We show that at the north pole the Casimir energy is not influenced by the quintessential matter. At the equatorial plane, when the quintessence is canceled, the result obtained in the literature is recovered. Finally, constraints in the quintessence parameters are obtained from the uncertainty in the current measurements of Casimir effect.

  5. Ozone bioindication in Barcelona and surrounding area of Catalonia

    Energy Technology Data Exchange (ETDEWEB)

    Ribas, A.; Penuelas, J. [Univ. Autonoma de Barcelona, Barcelona (Spain). Ecophysiology Unit of CSIC

    2002-07-01

    A field study was conducted from July to September 2000 to assess ozone (O{sub 3}) phytotoxicity in Barcelona and surrounding areas of Catalonia (NE Spain) by using tobacco plants Bel-W3 and Populus nigra 'Brandaris' as bioindicators. The study was conducted simultaneously at eight sites where ozone concentrations and meteorological variables were continuously monitored. The ozone levels correlated well with ozone injury on the Bel-W3 cultivar, especially at stations established in the urban area of Barcelona, and in the first months of summer. In the second half of summer plants showed a decreasing efficiency in its biomonitoring capacity. The behaviour of Populus as bioindicator or biomonitor was less satisfactory. For both species it is necessary to improve cultivation conditions since water deficits seem to play an important role in bioindication in the Mediterranean region. (orig.)

  6. Physical Coupling of Kazarian Galaxies with Surrounding Galaxies

    Science.gov (United States)

    Kazarian, M. A.; Martirosian, J. R.

    2003-04-01

    Results from a statistical study of Kazarian galaxies and the objects surrounding them are presented. It is shown that: (1) the sample of Kazarian galaxies up to 16m.0 is complete. (2) Roughly 35.7% of the Kazarian galaxies are members of clusters, 14.0% of groups, and 13.6% of binary systems, while 36.7% are single galaxies. (3) Of the 580 Kazarian galaxies, roughly 61.2% are infrared, 8.8% radio, and 2.8% x-ray sources. (4) The relative numbers of Kazarian galaxies for complete samples of I, R, and X in the different groups are systematically higher than the corresponding numbers for samples of all Kazarian galaxies.

  7. On radial oscillations in viscous accretion discs surrounding neutron stars

    Science.gov (United States)

    Chen, Xingming; Taam, Ronald E.

    1992-01-01

    Radial oscillations resulting from axisymmetric perturbations in viscous accretion disks surrounding neutron stars in X-ray binary systems have been investigated. Within the framework of the alpha-viscosity model a series of hydrodynamic calculations demonstrates that the oscillations are global for alpha of about 1. On the other hand, for alpha of 0.4 or less, the oscillations are local and confined to the disk boundaries. If viscous stresses acting in the radial direction are included, however, it is found that the disk can be stabilized. The application of such instabilities in accretion disks, without reference to the boundary layer region between the neutron star (or magnetosphere) and the inner edge of the disk, to the phenomenology of quasi-periodic oscillations is brought into question.

  8. Natural convection between a vertical cylinder and a surrounding array

    Energy Technology Data Exchange (ETDEWEB)

    McEligot, D.M.; O`Brien, J.E.; Stoots, C.M.; Larson, T.K.; Christenson, W.A.; Mecham, D.C.; Lussie, W.G.

    1992-09-01

    The generic situation considered is natural convection between a single heated, vertical cylinder and a surrounding array of cooler vertical cylinders in a triangular pattern. The ratio of the test section temperature to the cooling tube temperature was varied up to 2.6 by adjusting the electrical power. The Rayleigh number, based on test section diameter and air properties evaluated at cooling tube temperature, ranged from 2.9 x 10{sup 4} to 4.6 x 10{sup 5}. Results indicate that the convective heat transfer data could be approximated as Nu{sub D} (T{sub ts}/T{sub ct}){sup 0.14} = 0.156 Ra{sub D}{sup 1/3} in the apparent turbulent region for Ra{sub L} > 1.2 x 10{sup 11.}

  9. Natural convection between a vertical cylinder and a surrounding array

    Energy Technology Data Exchange (ETDEWEB)

    McEligot, D.M.; O' Brien, J.E.; Stoots, C.M.; Larson, T.K.; Christenson, W.A.; Mecham, D.C.; Lussie, W.G.

    1992-01-01

    The generic situation considered is natural convection between a single heated, vertical cylinder and a surrounding array of cooler vertical cylinders in a triangular pattern. The ratio of the test section temperature to the cooling tube temperature was varied up to 2.6 by adjusting the electrical power. The Rayleigh number, based on test section diameter and air properties evaluated at cooling tube temperature, ranged from 2.9 x 10{sup 4} to 4.6 x 10{sup 5}. Results indicate that the convective heat transfer data could be approximated as Nu{sub D} (T{sub ts}/T{sub ct}){sup 0.14} = 0.156 Ra{sub D}{sup 1/3} in the apparent turbulent region for Ra{sub L} > 1.2 x 10{sup 11.}

  10. Rotation of the Warm Molecular Gas Surrounding Ultracompact HII Regions

    CERN Document Server

    Klaassen, P D; Keto, E R; Zhang, Q

    2009-01-01

    We present molecular line and 1.4 mm continuum observations towards five massive star forming regions at arcsecond resolution using the Submillimeter Array (SMA). We find that the warm molecular gas surrounding each HII region (as traced by SO_2 and OCS) appears to be undergoing bulk rotation. From the molecular line emission and thermal component of the continuum emission, we independently derived gas masses for each region which are consistent with each other. From the free-free component of the continuum emission we estimate the minimum stellar mass required to power the HII region and find that this mass, when added to the derived gas mass, is a significant fraction of the dynamical mass for that region.

  11. Thermodynamic stability of black holes surrounded by quintessence

    CERN Document Server

    Ma, Meng-Sen; Ma, Ya-Qin

    2016-01-01

    We study the thermodynamic stabilities of uncharged and charged black holes surrounded by quintessence (BHQ) by means of effective thermodynamic quantities. When the state parameter of quintessence $\\omega_q$ is appropriately chosen, the structures of BHQ are something like that of black holes in de Sitter space. Constructing the effective first law of thermodynamics in two different ways, we can derive the effective thermodynamic quantities of BHQ. Especially, these effective thermodynamic quantities also satisfy Smarr-like formulae. It is found that the uncharged BHQ is always thermodynamically unstable due to negative heat capacity, while for the charged BHQ there are phase transitions of the second order. We also show that there is a great deal of difference on the thermodynamic properties and critical behaviors of BHQ between the two ways we employed.

  12. Thermodynamic stability of black holes surrounded by quintessence

    Science.gov (United States)

    Ma, Meng-Sen; Zhao, Ren; Ma, Ya-Qin

    2017-06-01

    We study the thermodynamic stabilities of uncharged and charged black holes surrounded by quintessence (BHQ) by means of effective thermodynamic quantities. When the state parameter of quintessence ω _q is appropriately chosen, the structures of BHQ are something like that of black holes in de Sitter space. Constructing the effective first law of thermodynamics in two different ways, we can derive the effective thermodynamic quantities of BHQ. Especially, these effective thermodynamic quantities also satisfy Smarr-like formulae. It is found that the uncharged BHQ is always thermodynamically unstable due to negative heat capacity, while for the charged BHQ there are phase transitions of the second order. We also show that there are several differences on the thermodynamic properties and critical behaviors of BHQ between the two ways we employed.

  13. Associação entre os polimorfismos HaeIII e MspI do gene para o receptor alfa de estrogênio e densidade mamográfica em mulheres após a menopausa Association between HaeIII and MspI polymorphisms of estrogen receptor alpha gene and mammographic density in post-menopausal women

    Directory of Open Access Journals (Sweden)

    Eduardo Henrique de Moura Ramos

    2006-10-01

    Full Text Available OBJETIVO: Avaliar a presença dos polimorfismos HaeIII e MspI do gene para o receptor de estrogênio alfa, bem como fatores clínicos e suas possíveis associações com a densidade mamográfica em mulheres após a menopausa. MÉTODOS: Foram avaliadas 115 mulheres após a menopausa, não usuárias de terapia hormonal e sem lesão mamária clínica ou mamograficamente identificada. A densidade mamográfica foi determinada por três observadores independentes, tomando-se como base a classificação dos padrões mamográficos do ACR-BIRADS®, 2003 (duas avaliações subjetivas e uma computadorizada - Adobe Photoshop® 7.0. Amostras de raspado bucal foram obtidas para extração de DNA e em seguida foi realizada uma PCR-RFLP (Polymerase Chain Reation - Restriction Fragment Length Polymorphism para análise de polimorfismos presentes no íntron 1 e éxon 1 do gene do REalfa (HaeIII e MspI. RESULTADOS: O polimorfismo HaeIII foi encontrado em 43 (37,4% das 115 mulheres, ao passo que o MspI estava presente em 96 (83,5% das mesmas. Houve alto grau de concordância entre os três observadores na determinação da densidade mamográfica. Trinta e quatro (29,6% mulheres tinham mamas densas, e 81 (70,4%, mamas lipossubstituídas. CONCLUSÃO: Não houve associação entre o polimorfismo HaeIII do gene para o receptor de estrogênio alfa e densidade mamográfica (Fisher = 0,712. Houve associação próxima à significância estatística entre o polimorfismo MspI e densidade (Fisher = 0,098. Idade, paridade e índice de massa corporal mostraram-se associados com densidade mamográfica.PURPOSE: To assess the presence of estrogen receptor gene polymorphisms HaeIII and MspI as well as clinical factors, and their possible associations with high mammographic density in post-menopausal women. METHODS: One hundred and fifteen post-menopausal women, not in use of hormonal therapy and without clinical or mammographic lesions were evaluated. Three independent observers

  14. Heterogeneity in hand veins responses to acetylcholine is not associated with polymorphisms in the G-protein beta3-subunit (C825T) and endothelial nitric oxide synthase (G894T) genes but with serum low density lipoprotein cholesterol.

    Science.gov (United States)

    Grossmann, M; Dobrev, D; Siffert, W; Kirch, W

    2001-06-01

    Vascular responses to acetylcholine (ACh) are notoriously variable, the reason for this phenomenon is unknown. We tested the hypothesis that the variability in venous response to acetylcholine may be associated with two recently identified genetic polymorphisms for proteins involved in the signal transduction pathway, i.e. the G-protein beta3-subunit (GNB3) and endothelial nitric oxide synthase (eNOS). The dorsal hand vein technique was used in 37 healthy subjects. Hand veins were preconstricted with the alpha1-adrenoceptor agonist phenylephrine and the venodilator response to local ACh infusion was measured with and without comedication of acetylsalicylic acid or co-infusion of N(G)-monomethyl-L-arginine (L-NMMA). In addition, all subjects received routine laboratory tests and 26 of them were genotyped for the C825T polymorphism of the GNB3 gene and for the G894T polymorphism of the eNOS gene. A striking variability in venous response to ACh was found with dilation observed in the low ACh concentration range and reduced dilation or even constriction at high concentrations. ACh-induced venodilation was mediated by muscarinic receptors and abolished in the presence of both acetylsalicylic acid and L-NMMA suggesting dependence on endothelium. We did not find any association of the variability in ACh response with GNB3 or eNOS allele status. On the other hand, a significant positive correlation between ACh responsiveness and low density lipoprotein-cholesterol status was detected. Two recently discovered gene polymorphisms are not responsible for the profound heterogeneity in venodilator response to ACh. Surprisingly, this variability appears to relate to the lipid status of the subjects. The exact nature of this new finding requires further study.

  15. A specific haplotype in the 3' end of estrogen-receptor alpha gene is associated with low bone mineral density in premenopausal women and increased risk of postmenopausal osteoporosis.

    Science.gov (United States)

    Ongphiphadhanakul, B; Chanprasertyothin, S; Saetung, S; Rajatanavin, R

    2005-10-01

    It is well established that the development of postmenopausal osteoporosis is under genetic influence. We have recently identified a synonymous single nucleotide polymorphism (SNP) in exon 8 of estrogen receptor-alpha (ERalpha) gene in the vicinity of the stop codon (G2014A) that is associated with an increased risk of postmenopausal osteoporosis. In the present study, we attempted to locate SNPs in the 3'-unstranslated region (3'UTR) of the ERalpha gene that are in linkage disequilibrium with the exon 8 SNP and assessed their utilization in the risk assessment of postmenopausal osteoporosis in 352 Thai postmenopausal women. The association with bone mineral density (BMD) in premenopausal women was also investigated in 202 premenopausal women. A C to A SNP 1,748 nucleotides distal to the end of the stop codon (C3768A) was identified. The C3768A SNP was not overrepresented in subjects with osteoporosis. However, the presence of the A-C haplotype allele based on the A2014 and C3768 alleles was significantly related to the risk of osteoporosis independently of age, body weight, the G2014A and C3768A SNPs (odds ratio 2.36, 95% CI 1.42-3.91). Moreover, the presence of the A-C haplotype allele was associated with lower femoral neck BMD in premenopausal women ( P =0.05). We concluded that a specific haplotype in the 3' end of the ERalpha gene is associated with lower BMD in premenopausal women and is associated with a higher risk of osteoporosis in postmenopausal women. It is likely that the haplotype allele exerts its influence on bone as early as during young adulthood to increase the risk of osteoporosis later in life.

  16. Cdx-2 polymorphism in Vitamin D Receptor gene was associated with serum 25-hydroxyvitamin D levels, bone mineral density and fracture in middle-aged and elderly Chinese women.

    Science.gov (United States)

    Ling, Yan; Lin, Huandong; Aleteng, Qiqige; Ma, Hui; Pan, Baishen; Gao, Jian; Gao, Xin

    2016-05-15

    The aim of the current study was to examine the relationship between Cdx-2 polymorphism in the promoter region of the VDR gene and serum 25-hydroxyvitamin D (25(OH)D) levels, bone mineral density (BMD) and fracture in Chinese population. This was a cross-sectional study, which included 738 individuals (428 women and 310 men) aged 45 years or older. In women, the association of Cdx-2 polymorphism with serum 25(OH)D levels was significant adjusting for age, BMI, estimated glomerular filtration rate, menopausal status and season of blood collection (P = 0.002). Cdx-2 polymorphism was associated with lumbar spine BMD adjusted for age, BMI, menopausal status and serum 25(OH)D in women (P = 0.005). But it was not associated with femoral neck BMD or total hip BMD in women. In women, Cdx-2 polymorphism was also associated with fracture adjusted for age, BMI, menopausal status, serum 25(OH)D and total hip BMD (P = 0.03). Carriers of AA and AG genotypes was associated with a higher odds of fracture compared with the carriers of GG genotype (OR = 2.14, 95% CI 1.04-4.42 and OR = 1.90, 95% CI 1.03-3.51). In men, Cdx-2 polymorphism was not associated with serum 25(OH)D levels, BMD or fracture. Our results indicate that the association of Cdx-2 polymorphism in the VDR gene with serum 25(OH)D levels, BMD and fracture may have sex differences. Cdx-2 polymorphism in the VDR gene may affect the serum 25(OH)D concentrations and the risk of osteoporosis and fracture in middle-aged and elderly Chinese women.

  17. A high-resolution map of the chromosomal region surrounding the nude gene

    Energy Technology Data Exchange (ETDEWEB)

    Blackburn, C.C.; Griffith, J.; Morahan, G. [Royal Melbourne Hospital, Victoria (Australia)

    1995-03-20

    The nude mutation produces the apparently disparate phenotypes of hairlessness and congenital thymic aplasia. These pleiotropic defects are the result of a single, autosomal recessive mutation that was previously mapped to a 9-cM region of murine chromosome 11 bounded by loci encoding the acetylcholine receptor P subunit and myeloperoxidase. In this study, exclusion mapping of a panel of congenic nude strains was used to place the nude locus between the microsatellite loci D11Nds1 and D11Mit8. The relative distance from nude to each of these loci was determined by analyzing a large segregating cross. Thus, nude lies 1.4 cM distal to D11Nds1 and is 0.5 cM proximal to D11Mit8. Mice that carried recombinational breakpoints between D11Nds1 and D11Mit8 were further analyzed at the loci Evi-2 and D11Mit34, which placed nu 0.2 cM proximal to these markers. D11Nds1 and Evi-2/D11Mit34 thus define the new proximal and distal boundaries, respectively, for the nu interval. We also report the typing of the above microsatellite markers in the AKXD, AKXL, BXD, CXB, and BXH recombinant inbred strains, which confirmed the relative order and separation of loci in this region. 47 refs., 3 figs., 1 tab.

  18. Low Bone Density

    Science.gov (United States)

    ... Information › Bone Density Exam/Testing › Low Bone Density Low Bone Density Low bone density is when your ... compared to people with normal bone density. Detecting Low Bone Density A bone density test will determine ...

  19. Evaluation of the landscape surrounding northern bobwhite nest sites: A multiscale analysis

    Science.gov (United States)

    White, C.G.; Schweitzer, Sara H.; Moore, C.T.; Parnell, I.B.; Lewis-Weis, L.A.

    2005-01-01

    Implementation of the Conservation Reserve Program (CRP) altered the interspersion and abundance of patches of different land-cover types in landscapes of the southeastern United States. Because northern bobwhites (Colinus virginianus) are experiencing significant population declines throughout most of their range, including the Southeast, it is critical to understand the impacts of landscape-scale changes in habitat on their reproductive rates. Our objective was to identify components of landscape structure important in predicting nest site selection by bobwhites at different spatial scales in the Upper Coastal Plain of Georgia. We used a Geographic Information System (GIS) and spatial analysis software to calculate metrics of landscape structure near bobwhite nest sites. Logistic regression was used to model the relationship of nest sites to structure within the surrounding landscape at 4 spatial scales. We found that patch density and open-canopy planted pine were consistently important predictor variables at multiple scales, and other variables were important at various scales. The density of different patch types could be increased by thinning rows of pines in large monotypic stands of closed-canopy planted pine stands. Thinning and creating openings in CRP pine plantations should provide increased nesting opportunities for bobwhites. We interpret the support for other variables in our analysis as an indication that various patch configuration lead to different combinations of landscape structure that provide an acceptable range of habitat conditions for bobwhites.

  20. Emissions of Escherichia coli Carrying Extended-Spectrum β-Lactamase Resistance from Pig Farms to the Surrounding Environment

    Directory of Open Access Journals (Sweden)

    Lili Gao

    2015-04-01

    Full Text Available The dissemination of extended-spectrum β-lactamase (ESBL-producing Escherichia coli (E. coli from food-producing animals to the surrounding environment has attracted much attention. To determine the emissions of ESBL-producing E. coli from pig farms to the surrounding environment, fecal and environmental samples from six pig farms were collected. In total, 119 ESBL-producing E. coli were isolated from feces, air samples, water, sludge and soil samples. Antibiotic susceptibility testing showed that the ESBL-producing isolates were resistant to multiple antibiotics and isolates of different origin within the same farm showed similar resistance phenotypes. Both CTX-M and TEM ESBL-encoding genes were detected in these isolates. CTX-M-14 and CTX-M-15 were the predominant ESBL genes identified. ESBL producers from feces and environmental samples within the same farm carried similar CTX-M types. The results indicated that the ESBL-producing E. coli carrying multidrug resistance could readily disseminate to the surrounding environment.

  1. The water exchange between Chinchorro Bank and its surroundings

    Science.gov (United States)

    Candela, Julio; Ochoa, Jose Luis; Sheinbaum, Julio; Lopez, Manuel; Cornado, Cesar

    2015-04-01

    Chinchorro Bank is a relatively large (~500 km^ 2) atoll situated 33 km in front of the Yucatan Peninsula in the Caribbean coast of Mexico. Two years of continuous measurements of the subsurface pressure field inside and around Chinchorro Bank, along with currents and waves observed outside, suggest four major processes governing the water exchange of the Bank with its surroundings: 1) surface wave pumping of water into the Bank through its eastern edge, 2) the large scale circulation in the region that drives the sea level changes through geostrophy, 3) the tidal pumping with imposed cyclic flows into and out of the Bank and 4) the imposed drift by the wind. Waves impinging all along the eastern barrier reef induce water inflows (from overtopping the reef) and generate a pressure gradient that drives a drift from east to west throughout the Bank. This western drift can normally replenish the water over the Bank with a time scale of ~10 days. However, extreme wave events, lasting around 24 hours, can replenish the whole Bank's water in the order of day. The region's large scale circulation is dominated by the zonal Cayman Current impinging on the Yucatan Peninsula becoming the Yucatan Current as it turns northward. Variability in the strength and impacting latitude of this current causes sea level gradients within the Bank, i.e., a Yucatan Current increase of 1 m/s, over a period of a couple of weeks, sets up a zonal sea level gradient within that can replenish the whole Bank's water in a time scale of ~14 days. At such times, the large scale current around the Bank is at a maximum thus ensuring an effective removal and dispersal of the exported waters. The Bank has a micro-tidal regime with a semidiurnal amplitude of ~12 cm during spring tides and a diurnal of ~2 cm, these imply that the Bank is exchanging ~10% of its waters with its surroundings daily. However small, this tidal pumping is effective for the ventilation of the Banks' waters in ~10 days due to the

  2. The structural feature surrounding glycated lysine residues in human hemoglobin.

    Science.gov (United States)

    Ito, Shigenori; Nakahari, Takashi; Yamamoto, Daisuke

    2011-06-01

    Complications derived from diabetes mellitus are caused by nonenzymatic protein glycation at the specific sites. LC/MS/MS was performed for the identification of the tryptic peptides of glycated hemoglobins using glyceraldehyde. After the identification of the glycation or non-glycation site, computer analysis of the structure surrounding the sites was carried out using PDB data (1BZ0). Five glycated lysine residues (Lys-16(α), -56(α), -8(β), -82(β), and -144(β)) and four non-glycated lysine residues (Lys-7(α), -40(α), -99(α), and -132(β)) were identified. The non-glycated lysine residues, Lys-7(α), -40(α), and -132(β), are most likely to form electrostatic interactions with the β carboxyl group of Asp-74(α), C-terminal His-146(β), and Glu-7(β) by virtue of their proximity, which is 2.67-2.91 Å (N-O). Additionally, there are histidine residues within 4.55-7.38 Å (N-N) around eight sites except for Lys-7(α). We conclude that the following factors seem to be necessary for glycation of lysine residues: (i) the apparent absence of aspartate or glutamate residues to inhibit the glycation reaction by forming an electrostatic interaction, (ii) the presence of histidine residues for acid-base catalysis of the Amadori rearrangement, and (iii) the presence of an amino acid residue capable of stabilizing a phosphate during proton transfer.

  3. Dilemmas surrounding passive euthanasia--a Malaysian perspective.

    Science.gov (United States)

    Talib, Norchaya

    2005-09-01

    In western societies where the principle of autonomy is jealously guarded, perhaps active euthanasia is more often the focus of public concern and debates rather than any other forms of euthanasia. However due to the advance in technology and its corresponding ability in prolonging life, in Malaysia passive euthanasia presents more of a dilemma. For those concerned and involved with end of life decision-making, it is generally agreed that this is an area fraught with not only medical but legal and ethical issues. In Malaysia where the society is not homogenous but is multi-cultural and multi-religious, in addition to medical, legal and ethical issues, religious principles and cultural norms further impact and play significant roles in end of life decision-making. This paper seeks to identify the issues surrounding the practice of passive euthanasia in Malaysia. It will be shown that despite applicable legal provisions, current practice of the medical profession combined with religious and cultural values together affect decision-making which involves the withholding and/or withdrawing of life-saving treatment.

  4. Mercury's interior, surface, and surrounding environment latest discoveries

    CERN Document Server

    Clark, Pamela Elizabeth

    2015-01-01

    This SpringerBrief details the MESSENGER Mission, the findings of which present challenges to widely held conventional views and remaining mysteries surrounding the planet. The work answers the question of why Mercury is so dense, and the implications from geochemical data on its planetary formation. It summarizes imaging and compositional data from the terrestrial planet surface processes and explains the geologic history of Mercury.  It also discusses the lack of southern hemisphere coverage. Our understanding of the planet Mercury has been in a transitional phase over the decades since Mariner 10. The influx of new data from the NASA MESSENGER Mission since it was inserted into the orbit of Mercury in March of 2011 has greatly accelerated that shift. The combined compositional data of relatively high volatiles (S, K), relatively low refractories (Al, Ca), and low crustal iron, combined with an active, partially molten iron rich core, has major implications for Mercury and Solar System formation. From a s...

  5. Zonal disintegration phenomenon in rock mass surrounding deep tunnels

    Institute of Scientific and Technical Information of China (English)

    WU Hao; FANG Qin; GUO Zhi-kun

    2008-01-01

    Zonal disintegration is a typical static phenomenon of deep rock masses. It has been defined as alternating regions of fractured and relatively intact rock mass that appear around or in front of the working stope during excavation of a deep tunnel. Zonal disintegration phenomenon was successfully demonstrated in the laboratory with 3D tests on analogous gypsum models, two circular cracked zones were observed in the test. The linear Mohr-Coulomb yield criterion was used with a constitutive model that showed linear softening and ideal residual plastic to analyze the elasto-plastic field of the enclosing rock mass around a deep tunnel. The results show that tunneling causes a maximum stress zone to appear between an elastic and plastic zone in the surrounding rock. The zonal disintegration phenomenon is analyzed by considering the stress-strain state of the rock mass in the vicinity of the maximum stress zone. Creep instability failure of the rock due to the development of the plastic zone, and transfer of the maximum stress zone into the rock mass, are the cause of zonal disintegration. An analytical criterion for the critical depth at which zonal disintegration can occur is derived. This depth depends mainly on the character and stress concentration coefficient of the rock mass.

  6. Beliefs and practices surrounding postpartum period among Myanmar women.

    Science.gov (United States)

    Sein, Kyi Kyi

    2013-11-01

    to examine the postpartum beliefs and practices among young women (15-24 years) both quantitative and qualitative approaches were used: a cross-sectional comparative study using a semi-structured questionnaire and focus group discussions (FGDs). Kyimyindaing Township in the western district of Yangon, Myanmar. young women (15-24 years) who had experience of at least one live birth were included. A total of 196 women for a quantitative survey and 31 women for FGDs were recruited. postpartum beliefs and practices at the last childbirth were explored by a pretested semi-structured questionnaire and four FGDs (two in urban and two in rural areas). The survey questionnaire covered socio-demographic data, food and behavioural restrictions and observances during the last postpartum period and underlying reasons for those practices. Majority of participants followed the traditional postpartum practices regardless of the area of residence and education level. Notion of 'dirty lochia' was identified. traditional beliefs and practices surrounding post partum were highly prevalent among young women. Variation in degree and duration of adherence to postpartum taboos was noted. These beliefs and practices were imparted and perpetuated by women's close social network. the findings point out the importance of awareness of postpartum beliefs and practices among health staff for providing culturally sensitive health care and gaining better co-operation and mutual understanding in giving health care. Copyright © 2012 Elsevier Ltd. All rights reserved.

  7. Unilateral lung agenesis--detrimental roles of surrounding vessels.

    Science.gov (United States)

    Chou, An-Kou; Huang, Shu-Chien; Chen, Shyh-Jye; Huang, Pei-Ming; Wang, Jou-Kou; Wu, Mei-Hwan; Chen, Yih-Sharng; Chang, Chung-I; Chiu, Ing-Sh; Wu, En-Ting

    2007-03-01

    Unilateral lung agenesis is a rare congenital defect and could be associated with multiple abnormalities. The patients usually have poor long-term outcomes especially in those with right lung agenesis. We reviewed the 10-year experience in our hospital to describe special clinical features and try to delineate the causes of poor outcomes. From 1995 to 2005, 14 patients less than 18 years of age with unilateral lung agenesis (4 with left agenesis, 10 with right agenesis) were enrolled. Medical records reviewed included diagnosis, presentation, chromosome anomalies, cardiovascular anomalies and interventions, outcomes. We found that the mechanisms of severe airway disease in right lung agenesis included (1) trachea compression by the aortic arch, (2) the presence of "pseudo-ring-sling complex," (3) distended pulmonary artery due to left to right shunt which impinged the only bronchus, and finally (4) the persistent LSVC that restricts the growth of trachea. The etiologies of airway complication in left lung agenesis included anomalous aortic arch compression on trachea and the coexisting heart disease with significant left to right shunt, which impinged on the bronchus. In conclusion, unilateral lung agenesis has frequently associated airway problems due to its surrounding vessels. Satisfactory airway intervention remains challenging. This disease still requires great effort to improve patient outcomes.

  8. The interstellar cloud surrounding the Sun -- a new perspective

    CERN Document Server

    Gry, Cecile

    2014-01-01

    Aims: We offer a new, simpler picture of the local interstellar medium around the Sun (LISM) made of a single continuous cloud enveloping the Sun. This new outlook enables the description of a diffuse cloud from within and brings to light some unexpected properties. Methods: We re-examine the kinematics and abundances of the local interstellar medium, as revealed by the published results for the ultraviolet absorption lines of MgII, FeII and HI. Results: In contrast to previous representations, our new picture of the LISM consists of a single, monolithic cloud that surrounds the Sun in all directions and accounts for most of the matter present in the first 50 parsecs around the Sun. The cloud fills the space around us out to about 9 pc in most directions, although its boundary is very irregular with possibly a few extensions up to 20 pc. The cloud does not behave like a rigid body: gas within the cloud is being differentially decelerated in the direction of motion, and the cloud is expanding in directions per...

  9. Dense Ionized and Neutral Gas Surrounding Sgr A*

    CERN Document Server

    Shukla, Hemant; Scoville, N Z

    2004-01-01

    We present high resolution H41a hydrogen recombination line observations of the 1.2' (3 pc) region surrounding Sgr A* at 92 GHz using the OVRO Millimeter Array with an angular resolution of 7" x 3" and velocity resolution of 13 km/s. New observations of H31a, H35a, H41a, and H44a lines were obtained using the NRAO 12-m telescope, and their relative line strengths are interpreted in terms of various emission mechanisms. These are the most extensive and most sensitive observations of recombination line to date. Observations of HCO+ (1 - 0) transition at 89 GHz are also obtained simultaneously with a 40% improved angular resolution and 4-15 times improved sensitivity over previous observations, and the distribution and kinematics of the dense molecular gas in the circumnuclear disk (CND) are mapped and compared with those of the ionized gas. The line brightness ratios of the hydrogen recombination lines are consistent with purely spontaneous emission from 7000 K gas with n_e = 20,000 cm$^{-3}$ near LTE condition...

  10. Instability of Magnetized Ionization Fronts Surrounding H II Regions

    CERN Document Server

    Kim, Jeong-Gyu

    2014-01-01

    An ionization front (IF) surrounding an H II region is a sharp interface where a cold neutral gas makes transition to a warm ionized phase by absorbing UV photons from central stars. We investigate the instability of a plane-parallel D-type IF threaded by parallel magnetic fields, by neglecting the effects of recombination within the ionized gas. We find that weak D-type IFs always have the post-IF magnetosonic Mach number $\\mathcal{M}_{\\rm M2} \\leq 1$. For such fronts, magnetic fields increase the maximum propagation speed of the IFs, while reducing the expansion factor $\\alpha$ by a factor of $1+1/(2\\beta_1)$ compared to the unmagnetized case, with $\\beta_1$ denoting the plasma beta in the pre-IF region. IFs become unstable to distortional perturbations due to gas expansion across the fronts, exactly analogous to the Darrieus-Landau instability of ablation fronts in terrestrial flames. The growth rate of the IF instability is proportional linearly to the perturbation wavenumber as well as the upstream flow ...

  11. An insight in the surroundings of HR4796

    CERN Document Server

    Lagrange, A -M; Boccaletti, A; Lacour, S; Thebault, P; Chauvin, G; Mouillet, D; Augereau, J C; Bonnefoy, M; Ehrenreich, D; Kral, Q

    2012-01-01

    HR4796 is a young, early A-type star harbouring a well structured debris disk, shaped as a ring with sharp inner edges. It forms with the M-type star HR4796B a binary system, with a proj. sep. ~560 AU. Our aim is to explore the surroundings of HR4796A and B, both in terms of extended or point-like structures. Adaptive optics images at L'-band were obtained with NaCo in Angular Differential Mode and with Sparse Aperture Masking (SAM). We analyse the data as well as the artefacts that can be produced by ADI reduction on an extended structure with a shape similar to that of HR4796A dust ring. We determine constraints on the presence of companions using SAM and ADI on HR4796A, and ADI on HR4796B. We also performed dynamical simulations of a disk of planetesimals and dust produced by collisions, perturbed by a planet located close to the disk outer edge. The disk ring around HR4796A is well resolved. We highlight the potential effects of ADI reduction of the observed disk shape and surface brightness distribution,...

  12. Dead discs, unstable discs and the stars they surround

    Directory of Open Access Journals (Sweden)

    D’Angelo Caroline

    2014-01-01

    Full Text Available Strong stellar magnetic fields significantly alter the behaviour of surrounding accretion discs. Recent work has demonstrated that at low accretion rates a large amount of mass can remain confined in the disc, contrary to the standard assumption that the magnetic field will expel the disc in an outflow (the “propeller regime”. These “dead discs” often become unstable, causing cycles of accretion onto the central star. Here I present the main predictions of this model, and argue that it provides a good explanation for the peculiar behaviour seen in several accreting sources with strong magnetic fields. I will focus in particular on three accreting millisecond X-ray pulsars: SAX J1808.4-3658, NGC 6440 X-2 and IGR J00291+5934. These sources all show low-frequency quasi-periodic oscillations consistent with a variable accretion rate, as well as unusual outburst patterns that suggest gas is confined in the inner disc regions during quiescence.

  13. Preliminary Analysis of Slope Stability in Kuok and Surrounding Areas

    Directory of Open Access Journals (Sweden)

    Dewandra Bagus Eka Putra

    2016-12-01

    Full Text Available The level of slope influenced by the condition of the rocks beneath the surface. On high level of slopes, amount of surface runoff and water transport energy is also enlarged. This caused by greater gravity, in line with the surface tilt from the horizontal plane. In other words, topsoil eroded more and more. When the slope becomes twice as steep, then the amount of erosion per unit area be 2.0 - 2.5 times more. Kuok and surrounding area is the road access between the West Sumatra and Riau which plays an important role economies of both provinces. The purpose of this study is to map the locations that have fairly steep slopes and potential mode of landslides. Based on SRTM data obtained,  the roads in Kuok area has a minimum elevation of + 33 m and a maximum  + 217.329 m. Rugged road conditions with slope ranging from 24.08 ° to 44.68 ° causing this area having frequent landslides. The result of slope stability analysis in a slope near the Water Power Plant Koto Panjang, indicated that mode of active failure is toppling failure or rock fall and the potential zone of failure is in the center part of the slope.

  14. Thermoelectric Performance Enhancement by Surrounding Crystalline Semiconductors with Metallic Nanoparticles

    Science.gov (United States)

    Kim, Hyun-Jung; King, Glen C.; Park, Yeonjoon; Lee, Kunik; Choi, Sang H.

    2011-01-01

    Direct conversion of thermal energy to electricity by thermoelectric (TE) devices may play a key role in future energy production and utilization. However, relatively poor performance of current TE materials has slowed development of new energy conversion applications. Recent reports have shown that the dimensionless Figure of Merit, ZT, for TE devices can be increased beyond the state-of-the-art level by nanoscale structuring of materials to reduce their thermal conductivity. New morphologically designed TE materials have been fabricated at the NASA Langley Research Center, and their characterization is underway. These newly designed materials are based on semiconductor crystal grains whose surfaces are surrounded by metallic nanoparticles. The nanoscale particles are used to tailor the thermal and electrical conduction properties for TE applications by altering the phonon and electron transport pathways. A sample of bismuth telluride decorated with metallic nanoparticles showed less thermal conductivity and twice the electrical conductivity at room temperature as compared to pure Bi2Te3. Apparently, electrons cross easily between semiconductor crystal grains via the intervening metallic nanoparticle bridges, but phonons are scattered at the interfacing gaps. Hence, if the interfacing gap is larger than the mean free path of the phonon, thermal energy transmission from one grain to others is reduced. Here we describe the design and analysis of these new materials that offer substantial improvements in thermoelectric performance.

  15. Democratizing rendering for multiple viewers in surround VR systems

    KAUST Repository

    Schulze, Jürgen P.

    2012-03-01

    We present a new approach for how multiple users\\' views can be rendered in a surround virtual environment without using special multi-view hardware. It is based on the idea that different parts of the screen are often viewed by different users, so that they can be rendered from their own view point, or at least from a point closer to their view point than traditionally expected. The vast majority of 3D virtual reality systems are designed for one head-tracked user, and a number of passive viewers. Only the head tracked user gets to see the correct view of the scene, everybody else sees a distorted image. We reduce this problem by algorithmically democratizing the rendering view point among all tracked users. Researchers have proposed solutions for multiple tracked users, but most of them require major changes to the display hardware of the VR system, such as additional projectors or custom VR glasses. Our approach does not require additional hardware, except the ability to track each participating user. We propose three versions of our multi-viewer algorithm. Each of them balances image distortion and frame rate in different ways, making them more or less suitable for certain application scenarios. Our most sophisticated algorithm renders each pixel from its own, optimized camera perspective, which depends on all tracked users\\' head positions and orientations. © 2012 IEEE.

  16. Representing the egocentric auditory space: relationships of surrounding region concepts.

    Science.gov (United States)

    Campos, Marcella C; Hermann, Thomas; Schack, Thomas; Bläsing, Bettina

    2013-03-01

    We investigated the representation of azimuthal directions of sound sources under two different conditions. In the first experiment, we examined the participants' mental representation of sound source directions via similarity judgments. Auditory stimuli originating from sixteen loudspeakers positioned equidistantly around the participant were presented in pairs, with the first stimulus serving as the anchor, and thereby providing the context for the second stimulus. For each pair of stimuli, participants had to rate the sound source directions as either similar or dissimilar. In the second experiment, the same participants categorized single sound source directions using verbal direction labels (front, back, left, right, and combinations of any two of these). In both experiments, the directions within the front and back regions were more distinctively categorized than those on the sides, and the sides' categories included more directions than those of the front or back. Furthermore, we found evidence that the left-right decision comprises the basic differentiation of the surrounding regions. These findings illustrate what seem to be central features of the representation of directions in auditory space.

  17. Simulation of distribution of radiation energy density in water balls

    Institute of Scientific and Technical Information of China (English)

    TANG Shi-Biao; MA Qing-Li; YIN Ze-Jie; TANG Yu; HUANG Huan; RAO Nan-Xia; ZHU Da-Ming

    2005-01-01

    The distribution of energy deposition density in radiate region and its surrounding areas from γ-rays was simulated and analyzed for a water-ball model with Geant4 package ( Geant4.7.0,2005 ) developed by CERN (the Center of European Research of Nucleus). The results show that the distribution depends strongly on the collimating condition of radiation beam. A well-collimated beam would reduce radiation effects on surrounding areas.

  18. GIANT Hα NEBULA SURROUNDING THE STARBURST MERGER NGC 6240

    Energy Technology Data Exchange (ETDEWEB)

    Yoshida, Michitoshi [Hiroshima Astrophysical Science Center, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526 (Japan); Yagi, Masafumi; Komiyama, Yutaka; Kashikawa, Nobunari [Optical and Infrared Astronomy Division, National Astronomical Observatory, Mitaka, Tokyo 181-8588 (Japan); Ohyama, Youichi [Institute of Astronomy and Astrophysics, Academia Sinica, 11F of Astronomy-Mathematics Building, AS/NTU No.1, Sec. 4, Roosevelt Road, Taipei 10617, Taiwan, R.O.C. (China); Tanaka, Hisashi [Department of Physical Science, Hiroshima University, Higashi-Hiroshima, Hiroshima 739-8526 (Japan); Okamura, Sadanori, E-mail: yoshidam@hiroshima-u.ac.jp [Department of Advanced Sciences, Faculty of Science and Engineering, Hosei University, Koganei, Tokyo 184-8584 (Japan)

    2016-03-20

    We revealed the detailed structure of a vastly extended Hα-emitting nebula (“Hα nebula”) surrounding the starburst/merging galaxy NGC 6240 by deep narrow-band imaging observations with the Subaru Suprime-Cam. The extent of the nebula is ∼90 kpc in diameter and the total Hα luminosity amounts to L{sub Hα} ≈ 1.6 × 10{sup 42} erg s{sup −1}. The volume filling factor and the mass of the warm ionized gas are ∼10{sup −4}–10{sup −5} and ∼5 × 10{sup 8} M{sub ⊙}, respectively. The nebula has a complicated structure, which includes numerous filaments, loops, bubbles, and knots. We found that there is a tight spatial correlation between the Hα nebula and the extended soft-X-ray-emitting gas, both in large and small scales. The overall morphology of the nebula is dominated by filamentary structures radially extending from the center of the galaxy. A large-scale bipolar bubble extends along the minor axis of the main stellar disk. The morphology strongly suggests that the nebula was formed by intense outflows—superwinds—driven by starbursts. We also found three bright knots embedded in a looped filament of ionized gas that show head-tail morphologies in both emission-line and continuum, suggesting close interactions between the outflows and star-forming regions. Based on the morphology and surface brightness distribution of the Hα nebula, we propose the scenario that three major episodes of starburst/superwind activities, which were initiated ∼10{sup 2} Myr ago, formed the extended ionized gas nebula of NGC 6240.

  19. IRIS Observation of a Sunspot and the Surrounding Plage Region

    Science.gov (United States)

    TIAN, H.; DeLuca, E. E.; Mcintosh, S. W.; Reeves, K. K.; McKillop, S.; Weber, M.; Saar, S.; Golub, L.; Testa, P.

    2013-12-01

    NASA's IRIS mission is providing high-cadence and high-resolution observations of the solar transition region and chromosphere. We present preliminary results from IRIS observation of a sunspot and the surrounding plage region. The major findings in this observation can be summarized as following: (1) The slit jaw images in the filters of 1400Å and 1330Å reveal the presence of many rapidly evolving fibril-like structures in the transition region for the first time. These thin and long structures mainly reside in the plage region. They could be strands of low-lying cool transition region loops or the transition region counterpart of chromospheric spicules. (2) The C II and Mg II line profiles are almost Gaussian in the sunspot umbra and clearly exhibit a deep reversal at the line center in the plage region, suggesting a greatly reduced opacity in the sunspot atmosphere. (3) Bidirectional jets are frequently occurring mainly in the plage region immediately outside the sunspot throughout the observation. Triple or double Gaussian fit to the line profiles of Si IV suggests a velocity as high as 100 km/s. These velocity values are of the same order of the Alfven speed in the transition region. (4)Three-minute oscillation is clearly present in the sunspot umbra. The oscillation is identified in not only the slit jaw images of 2796Å, 1400Å and 1330Å, but also in spectra of the bright Mg II, C II and Si IV lines. Strong non-linearity is clearly seen in the intensity and Doppler shift oscillations. Interestingly, the obvious increase of the line width only occurs at the times of largest blue shift. The correlated change of the intensity and Doppler shift suggests an upward propagating magneto-acoustic shock wave.

  20. Isoperimetric inequalities in surround system and space science

    Directory of Open Access Journals (Sweden)

    JiaJin Wen

    2016-02-01

    Full Text Available Abstract By means of the algebraic, analysis, convex geometry, computer, and inequality theories we establish the following isoperimetric inequality in the centered 2-surround system S ( 2 { P , Γ , l } $S^{(2} \\{P,\\varGamma ,l \\}$ : ( 1 | Γ | ∮ Γ r ¯ P p 1 / p ⩽ | Γ | 4 π sin l π | Γ | [ csc l π | Γ | + cot 2 l π | Γ | ln ( tan l π | Γ | + sec l π | Γ | ] , ∀ p ⩽ − 2 . $$\\begin{aligned}& \\biggl(\\frac{1}{|\\varGamma |} \\oint_{\\varGamma }\\bar{r}_{P}^{p} \\biggr^{1/p}\\leqslant\\frac{|\\varGamma |}{4\\pi}\\sin\\frac{l\\pi}{|\\varGamma |} \\biggl[ \\csc \\frac{l\\pi}{|\\varGamma |}+\\cot^{2} \\frac{l\\pi}{|\\varGamma |} \\ln \\biggl(\\tan \\frac{l\\pi}{|\\varGamma |}+\\sec\\frac{l\\pi}{|\\varGamma |} \\biggr \\biggr], \\\\& \\quad \\forall p\\leqslant -2. \\end{aligned}$$ As an application of the inequality in space science, we obtain the best lower bounds of the mean λ-gravity norm ∥ F λ ( Γ , P ∥ ‾ $\\overline{\\Vert {\\mathbf{F}}_{\\lambda} ( \\varGamma ,P \\Vert }$ as follows: ∥ F λ ( Γ , P ∥ ‾ ≜ 1 | Γ | ∮ Γ 1 ∥ A − P ∥ λ ⩾ ( 2 π | Γ | λ , ∀ λ ⩾ 2 . $$\\overline{\\bigl\\Vert {\\mathbf{F}}_{\\lambda} ( \\varGamma ,P \\bigr\\Vert } \\triangleq\\frac{1}{|\\varGamma |} \\oint_{\\varGamma }\\frac{1}{\\|A-P\\|^{\\lambda }}\\geqslant \\biggl(\\frac{2\\pi}{|\\varGamma |} \\biggr^{\\lambda},\\quad \\forall \\lambda\\geqslant2. $$

  1. DEFORMATION OF MOISTURE FLUX CIRCULATION SURROUNDING THE LANDFALL TYPHOON "BILIS"

    Institute of Scientific and Technical Information of China (English)

    RAN Ling-kun; YANG Wen-xia; HONG Yan-chao

    2009-01-01

    The deformation parameter (DP), which is defined as the product of shear deformation and stretching deformation of moisture flux circulation, is introduced. The tendency equation of DP is derived in pressure coordinates. Furthermore, DP is used to diagnose the deformation character of moisture flux circulation in the periphery of Bilis. The analysis showed that before Bilis landed, DP presented eight abnormal areas, which distributed alternately and closely encircled the low-pressure center. This indicated that the moisture flux circulation in the periphery of Bilis rotated counterclockwise and stretched longitudinally and latitudinally to deform. After Bilis landed, DP weakened gradually and its regular pattern of horizontal distribution loosened. The shear and stretching deformations of moisture flux circulation surrounding Bilis weakened after the typhoon landed. The deformation of moisture flux circulation in the periphery of Bilis mainly appeared in the middle-lower troposphere. There existed 1/2 phase difference between the shear and stretching deformations in the vertical-latitudinal cross section and a π/4 phase difference between them on the horizontal plane. As Bilis landed and further moved inland of China, the intensities of DP, shear and stretching deformations decreased, meanwhile their vertical and horizontal structures became irregular. The chief dynamic factors responsible for the deformation of moisture flux circulation in the periphery of Bilis were the three terms associated with the three-dimensional advection transportation of DP, square difference between shear and stretching deformations coupling with Coriolis parameter, and horizontal gradient of geopotential height before Bilis landed. The last two dynamic factors impacted jointly on the deformation of moisture flux circulation after Bilis landed.

  2. Rain Simulation for the Test of Automotive Surround Sensors

    Science.gov (United States)

    Hasirlioglu, Sinan; Riener, Andreas; Doric, Igor

    2017-04-01

    The WHO Global Health Observatory data indicates that over 1.25 million people die in traffic accidents annually. To save lives, car manufacturers spend lot of efforts on the development of novel safety systems aiming to avoid or mitigate accidents and provide maximum protection for vehicle occupants as well as vulnerable road users. All the safety features mainly rely on data from surround sensors such as radar, lidar and camera and intelligent vehicles today use these environmental data for instant decision making and vehicle control. As already small errors in sensor data measurements could lead to catastrophes like major injuries or road traffic fatalities, it is of utmost importance to ensure high reliability and accuracy of sensors and safety systems. This work focuses on the influence of environmental factors such as rain conditions, as it is known that rain drops scatter the electromagnetic waves. The result is incorrect measurements with a direct negative impact on environment detection. To identify potential problems of sensors under varying environmental conditions, systems are today tested in real-world settings with two main problems: First, tests are time-consuming and second, environmental conditions are not reproducible. Our approach to test the influence of weather on automotive sensors is to use an indoor rain simulator. Our artificial rain maker, installed at CARISSMA (Center of Automotive Research on Integrated Safety Systems and Measurement Area), is parametrized with rain characteristics measured in the field using a standard disdrometer. System behavior on artificial rain is compared and validated with natural rainfall. With this simulator it is finally possible to test environmental influence at various levels and under reproducible conditions. This saves lot of efforts required for the test process itself and furthermore has a positive impact on the reliability of sensor systems due to the fact that test driven development is enabled.

  3. Fluoroquinolones and Tetracycline Antibiotics in a Portuguese Aquaculture System and Aquatic Surroundings: Occurrence and Environmental Impact.

    Science.gov (United States)

    Pereira, André M P T; Silva, Liliana J G; Meisel, Leonor M; Pena, Angelina

    2015-01-01

    The growth of aquaculture over the past few years is widely recognized as one of the main sources of antibiotics, mainly fluoroquinolones (FQ) and tetracyclines (TC), in the aquatic environment, consequently, increasing the risk of the emergence of antibiotic bacterial resistance and promoting the spread of resistant genes. This study aimed to (1) develop and validate a multiresidue method for determination and quantification of ciprofloxacin (CIP), difloxacin (DIFL), enrofloxacin (ENR), norfloxacin (NOR), sarafloxacin (SARA), and oxytetracycline (OXY) in aquaculture waters and surrounding water bodies and (2) provide the first Portuguese data to utilize in assessment of risk of adverse effects. In addition, the potential environmental impact posed by these antibiotics to aquatic organisms, belonging to different trophic levels, when exposed to the studied aquaculture waters was also assessed. The analytical strategy comprised of solid-phase extraction (SPE) through Oasis HLB cartridges, and detection and quantification by liquid chromatography with tandem mass spectrometry (LC/MS(n)). Method detection limits (MDL) and method quantification limits (MQL) were in the range of 0.7-3 ng/L and 2.4-10 ng/L, respectively. Recoveries varied between 57.4 and 122.8%. The method was applied to 31 water samples collected from an aquaculture and surrounding water bodies located in north of Portugal. Residues of all antibiotics, except SARA and DIFL, were detected at concentrations ranging from 3 to 75.1 ng/L. Norfloxacin was the antibiotic present at highest frequency and concentration. Regarding the environmental impact assessment (EIA), a risk quotient higher than 1 was observed for NOR.

  4. High-density physical mapping of a 3-Mb region in Xp22.3 and refined localization of the gene for X-linked recessive chondrodysplasia punctata (CDPX1)

    Energy Technology Data Exchange (ETDEWEB)

    Wang, I.; Levilliers, J.; Petit, C. [Institut Pasteur, Paris (France)] [and others

    1995-03-20

    The study of patients with chromosomal rearrangements has led to the mapping of the gene responsible for X-linked recessive chondrodysplasia punctata (CDPX1; MIM 302950) to the distal part of the Xp22.3 region, between the loci PABX and DXS31. To refine this mapping, a yeast artificial chromosome (YAC) contig map spanning this region has been constructed. Together with the YAC contig of the pseudo-autosomal region that we previously established, this map covers the terminal 6 Mb of Xp, with an average density of 1 probe every 100 kb. Newly isolated probes that detect segmental X-Y homologies on Yp and Yq suggest multiple complex rearrangements of the ancestral pseudoautosomal region during evolution. Compilation of the data obtained from the study of individuals carrying various Xp22.3 deletions led us to conclude that the CDPX disease displays incomplete penetrance and, consequently, to refine the localization of CDPX1 to a 600-kb interval immediately adjacent to the pseudoautosomal boundary. This interval, in which 12 probes are ordered, provides the starting point for the isolation of CDPX1. 67 refs., 3 figs., 2 tabs.

  5. Genetic analysis of 103 candidate genes for coronary artery disease and associated phenotypes in a founder population reveals a new association between endothelin-1 and high-density lipoprotein cholesterol.

    Science.gov (United States)

    Pare, Guillaume; Serre, David; Brisson, Diane; Anand, Sonia S; Montpetit, Alexandre; Tremblay, Gerald; Engert, James C; Hudson, Thomas J; Gaudet, Daniel

    2007-04-01

    Coronary artery disease (CAD) is a major health concern in both developed and developing countries. With a heritability estimated at ~50%, there is a strong rationale to better define the genetic contribution to CAD. This project involves the analysis of 884 individuals from 142 families (with average sibships of 5.7) as well as 558 case and control subjects from the Saguenay Lac St-Jean region of northeastern Quebec, with the use of 1,536 single-nucleotide polymorphisms (SNPs) in 103 candidate genes for CAD. By use of clusters of SNPs to generate multiallelic haplotypes at candidate loci for segregation studies within families, suggestive linkage for high-density lipoprotein (HDL) cholesterol is observed on chromosome 1p36.22. Furthermore, several associations that remain significant after Bonferroni correction are observed with lipoprotein-related traits as well as plasma concentrations of adiponectin. Of note, HDL cholesterol levels are associated with an amino acid substitution (lysine/asparagine) at codon 198 (rs5370) of endothelin-1 (EDN1) in a sex-specific manner, as well as with a SNP (rs2292318) located 7.7 kb upstream of lecithin cholesterol acyl-transferase (LCAT). Whereas the other observed associations are described in the current literature, these two are new. Using an independent validation sample of 806 individuals, we confirm the EDN1 association (P<.005), whereas the LCAT association was nonsignificant (P=.12).

  6. Circumstances surrounding dying in the paediatric intensive care unit

    Directory of Open Access Journals (Sweden)

    Plötz Frans B

    2006-08-01

    Full Text Available Abstract Background Death is inevitable in the paediatric intensive care unit (PICU. We aimed to describe the circumstances surrounding dying in a PICU. Method The chart records of all patients less than 18 years of age who died at the PICU between January first 2000 and July first 2005 were retrospectively analyzed. Information regarding sex, age, length of stay, admission, diagnosis, and the way a patient died was registered. Post mortem information regarding natural versus unnatural death, autopsy and donation was obtained. Non-survivors were allocated in five groups: do-not-resuscitate (DNR, withholding and/or withdrawal of therapy (W/W, failed cardiopulmonary resuscitation (failed CPR, brain death (BD, and terminal organ failure (TOF. Results During the study period 87 (4.4% of the 1995 admitted patients died. Non-survivors were more often admitted during the day (54% and the week (68%. W/W was found in 27.6%, TOF in 26.4%, BD in 23.0%, failed CPR in 18.4%, and DNR in 4.6%. Forty-three percent died in the first two days, of which BD (40.5% and failed CPR (37.8% were most common. Seventy-five children (86% died due to a natural cause. Autopsy permission was obtained in 19 of 54 patients (35%. The autopsies confirmed the clinical diagnosis in 11 patients, revealed new information in 5 patients, and in 3 patients the autopsy did not provide additional information. Nine patients were medically suitable for organ donation and 24 patients for tissue donation, whereas consent was only obtained in 2 cases in both groups. Conclusion We observed that 43% of the patients died within the first two days of admission due to BD and failed CPR, whereas after 4 days most patients died after W/W. Autopsy remains an useful tool to confirm clinical diagnoses or to provide new information. Only a small percentage of the deceased children is suitable for organ donation.

  7. Behavioural aspects surrounding medicine purchases from pharmacies in Australia

    Directory of Open Access Journals (Sweden)

    Emmerton L

    2008-09-01

    Full Text Available Objective: This study aimed to produce current data regarding behavioural aspects of non-prescription (over-the-counter medicine purchases, in light of changes in the pharmaceutical market and increasing provision of professional services in pharmacies.Methods: Data were collected in 15 community pharmacies in South-East Queensland, Australia, over 540 hours in five days in August, 2006. The method, previously validated, involved documentation of both observational and interview data. Fifteen trained researchers were stationed in a selected pharmacy each to unobtrusively observe all eligible sales of non-prescription medicines, and, where possible, interview the purchasers post-sale. Non-response was supplemented by observational data and recall by the salesperson. The data included details of the purchase and purchasing behaviour, while new questions addressed issues of topical importance, including customers’ privacy concerns. A selection of the analyses is reported here.Results: In total, 3470 purchases were documented (135-479 per pharmacy, with customers of 67.5% of purchases (74.7% excluding an outlier pharmacy participating in the survey. Customers averaged 1.2 non-prescription medicines per transaction. Two-thirds (67.2% of customers were female, and 38.8% of the customers were aged 31-45 years. Analgesics and respiratory medicines accounted for two-thirds of the sales data (33.4% and 32.4%, respectively. Intended-brand purchases comprised 71% of purchases (2004/2824; in-store substitution then occurred in 8.8% of these cases, mainly following recommendations by pharmacy staff. Medicines intended for self-use comprised 62.9% of purchases (1752/2785. First-time purchases (30.8%, 799/2594 were more commonly influenced by pharmacy staff than by advertising.Conclusions: This study used validated methods adapted to a changing marketplace, thus providing data that both confirm and add to knowledge surrounding medicine purchases. Despite the

  8. Reliability analysis of tunnel surrounding rock stability by Monte-Carlo method

    Institute of Scientific and Technical Information of China (English)

    XI Jia-mi; YANG Geng-she

    2008-01-01

    Discussed advantages of improved Monte-Carlo method and feasibility aboutproposed approach applying in reliability analysis for tunnel surrounding rock stability. Onthe basis of deterministic parsing for tunnel surrounding rock, reliability computing methodof surrounding rock stability was derived from improved Monte-Carlo method. The com-puting method considered random of related parameters, and therefore satisfies relativityamong parameters. The proposed method can reasonably determine reliability of sur-rounding rock stability. Calculation results show that this method is a scientific method indiscriminating and checking surrounding rock stability.

  9. Clinical Observation of Vascular Dementia Treated by Surrounding-acupuncture of the CT-located Area

    Institute of Scientific and Technical Information of China (English)

    LUN Xin; FENG Bi-fang; RONG Li; YANG Wen-hui

    2003-01-01

    Purpose To observe the clinical effect of "Surrounding Needling Technigue through CT Location" in treating vascular dementia. Method Fifty cases of vascular dementia were randomly divided into surrounding Needling Technigue through CT location and routine acupuncture groups, 25 cases in each group,and were given surrounding Needling Technigue through CT location and routine acupuncture respectively. Results The effective rates in surrounding Needling Technigue through CT location and routine acupuncture groups were 88% and 60% respectively, and there was significant difference between the two groups, P < 0.01.Conclusion Therapeutic effect of surrounding Needling Technigue through CT location in treating vascular dementia was satisfactory, and better than that of routine acupuncture.

  10. Burnout current density of bismuth nanowires

    Science.gov (United States)

    Cornelius, T. W.; Picht, O.; Müller, S.; Neumann, R.; Völklein, F.; Karim, S.; Duan, J. L.

    2008-05-01

    Single bismuth nanowires with diameters ranging from 100nmto1μm were electrochemically deposited in ion track-etched single-pore polycarbonate membranes. The maximum current density the wires are able to carry was investigated by ramping up the current until failure occurred. It increases by three to four orders of magnitude for nanowires embedded in the template compared to bulk bismuth and rises with diminishing diameter. Simulations show that the wires are heated up electrically to the melting temperature. Since the surface-to-volume ratio rises with diminishing diameter, thinner wires dissipate the heat more efficiently to the surrounding polymer matrix and, thus, can tolerate larger current densities.

  11. Organization and expression of genes in the genomic region surrounding the glutamine synthetase gene Gln1 from Lotus japonicus

    DEFF Research Database (Denmark)

    Thykjaer, T; Danielsen, D; She, Q

    1997-01-01

    a segment carrying two apparently non-functional, fragmented copia-like retroelements, dRtp1 and dRtp2, was identified. Sequence similarity to reverse transcriptase- and RNaseH-coding regions defined the defective retro-elements dRtp1 and dRtp2 within this segment. Terminal repeats were not found but three...

  12. Sorting cells by their density

    Science.gov (United States)

    Norouzi, Nazila; Bhakta, Heran C.

    2017-01-01

    Sorting cells by their type is an important capability in biological research and medical diagnostics. However, most cell sorting techniques rely on labels or tags, which may have limited availability and specificity. Sorting different cell types by their different physical properties is an attractive alternative to labels because all cells intrinsically have these physical properties. But some physical properties, like cell size, vary significantly from cell to cell within a cell type; this makes it difficult to identify and sort cells based on their sizes alone. In this work we continuously sort different cells types by their density, a physical property with much lower cell-to-cell variation within a cell type (and therefore greater potential to discriminate different cell types) than other physical properties. We accomplish this using a 3D-printed microfluidic chip containing a horizontal flowing micron-scale density gradient. As cells flow through the chip, Earth’s gravity makes each cell move vertically to the point where the cell’s density matches the surrounding fluid’s density. When the horizontal channel then splits, cells with different densities are routed to different outlets. As a proof of concept, we use our density sorter chip to sort polymer microbeads by their material (polyethylene and polystyrene) and blood cells by their type (white blood cells and red blood cells). The chip enriches the fraction of white blood cells in a blood sample from 0.1% (in whole blood) to nearly 98% (in the output of the chip), a 1000x enrichment. Any researcher with access to a 3D printer can easily replicate our density sorter chip and use it in their own research using the design files provided as online Supporting Information. Additionally, researchers can simulate the performance of a density sorter chip in their own applications using the Python-based simulation software that accompanies this work. The simplicity, resolution, and throughput of this

  13. Concentrations, sources and spatial distribution of polycyclic aromatic hydrocarbons in soils from Beijing, Tianjin and surrounding areas, North China

    Energy Technology Data Exchange (ETDEWEB)

    Wang Wentao [Laboratory for Earth Surface Processes, College of Urban and Environmental Sciences, Peking University, Beijing 100871 (China); Department of Environmental and Molecular Toxicology, Oregon State University, Corvallis, OR 97331 (United States); Massey Simonich, Staci L. [Department of Environmental and Molecular Toxicology, Oregon State University, Corvallis, OR 97331 (United States); Department of Chemistry, Oregon State University, Corvallis, OR 97331 (United States); Xue Miao; Zhao Jingyu; Zhang Na; Wang Rong; Cao Jun [Laboratory for Earth Surface Processes, College of Urban and Environmental Sciences, Peking University, Beijing 100871 (China); Tao Shu, E-mail: taos@urban.pku.edu.c [Laboratory for Earth Surface Processes, College of Urban and Environmental Sciences, Peking University, Beijing 100871 (China)

    2010-05-15

    The concentrations, profiles, sources and spatial distribution of polycyclic aromatic hydrocarbons (PAHs) were determined in 40 surface soil samples collected from Beijing, Tianjin and surrounding areas, North China in 2007, and all sampling sites were far from industrial areas, roadsides and other pollution sources, and across a range of soil types in remote, rural villages and urban areas. The total concentrations of 16 PAHs ranged from 31.6 to 1475.0 ng/g, with an arithmetic average of 336.4 ng/g. The highest PAH concentrations were measured in urban soils, followed by rural village soils and soils from remote locations. The remote-rural village-urban PAH concentration gradient was related to population density, gross domestic product (GDP), long-range atmospheric transport and different types of land use. In addition, the PAH concentration was well correlated with the total organic carbon (TOC) concentration of the soil. The PAH profile suggested that coal combustion and biomass burning were primary PAH sources. - The concentration, profiles and possible sources of PAHs in Beijing, Tianjin and surrounding area soils were studied and related to population density and gross domestic product (GDP).

  14. The physical characteristics of the sediments on and surrounding Dauphin Island, Alabama

    Science.gov (United States)

    Ellis, Alisha M.; Marot, Marci E.; Smith, Christopher G.; Wheaton, Cathryn J.

    2017-06-20

    Scientists from the U.S. Geological Survey, St. Petersburg Coastal and Marine Science Center collected 303 surface sediment samples from Dauphin Island, Alabama, and the surrounding water bodies in August 2015. These sediments were processed to determine physical characteristics such as organic content, bulk density, and grain-size. The environments where the sediments were collected include high and low salt marshes, washover deposits, dunes, beaches, sheltered bays, and open water. Sampling by the USGS was part of a larger study to assess the feasibility and sustainability of proposed restoration efforts for Dauphin Island, Alabama, and assess the island’s resilience to rising sea level and storm events. The data presented in this publication can be used by modelers to attempt validation of hindcast models and create predictive forecast models for both baseline conditions and storms. This study was funded by the National Fish and Wildlife Foundation, via the Gulf Environmental Benefit Fund.This report serves as an archive for sedimentological data derived from surface sediments. Downloadable data are available as Excel spreadsheets, JPEG files, and formal Federal Geographic Data Committee metadata.

  15. $\\gamma$-Ray Burst Afterglows Effects of Radiative Corrections and Nonuniformity of the Surrounding Medium

    CERN Document Server

    Dai, Z G

    1998-01-01

    The afterglow of a gamma-ray burst (GRB) is commonly thought to be due to continuous deceleration of a relativistically expanding fireball in the surrounding medium. Assuming that the expansion of the fireball is adiabatic and that the density of the medium is a power-law function of shock radius, viz., $n_{ext}\\propto R^{-k}$, we analytically study the effects of the first-order radiative correction and the nonuniformity of the medium on a GRB afterglow. We first derive a new relation among the observed time, the shock radius and the fireball's Lorentz factor: $t_\\oplus=R/4(4-k)\\gamma^2c$, and also derive a new relation among the comoving time, the shock radius and the fireball's Lorentz factor: $t_{co}=2R/(5-k)\\gamma c$. We next study the evolution of the fireball by using the analytic solution of Blandford and McKee (1976). The radiation losses may not significantly influence this evolution. We further derive new scaling laws both between the X-ray flux and observed time and between the optical flux and ob...

  16. A new perspective on the interstellar cloud surrounding the Sun from UV absorption line results

    CERN Document Server

    Gry, Cecile

    2014-01-01

    We offer a new, more inclusive, picture of the local interstellar medium, where it is composed of a single, monolithic cloud that surrounds the Sun in all directions. Our study of velocities based on Mg II and Fe II ultraviolet absorption lines indicates that the cloud has an average motion consistent with the velocity vector of gas impacting the heliosphere and does not behave like a rigid body: gas within the cloud is being differentially decelerated in the direction of motion, and the cloud is expanding in directions perpendicular to this flow, much like the squashing of a balloon. The outer boundary of the cloud is in average 10 pc away from us but is highly irregular, being only a few parsecs away in some directions, with possibly a few extensions up to 20 pc. Average H I volume densities vary between 0.03 and 0.1 cm-3 over different sight lines. Metals appear to be significantly depleted onto grains, and there is a steady increase in this effect from the rear of the cloud to the apex of motion. There is...

  17. Lipids and glycosphingolipids in caveolae and surrounding plasma membrane of primary rat adipocytes.

    Science.gov (United States)

    Ortegren, Unn; Karlsson, Margareta; Blazic, Natascha; Blomqvist, Maria; Nystrom, Fredrik H; Gustavsson, Johanna; Fredman, Pam; Strålfors, Peter

    2004-05-01

    We have made a comprehensive and quantitative analysis of the lipid composition of caveolae from primary rat fat cells and compared the composition of plasma membrane inside and outside caveolae. We isolated caveolae from purified plasma membranes using ultrasonication in carbonate buffer to disrupt the membrane, or extraction with nonionic detergent, followed by density gradient ultracentrifugation. The carbonate-isolated caveolae fraction was further immunopurified using caveolin antibodies. Carbonate-isolated caveolae were enriched in cholesterol and sphingomyelin, and the concentration was three- and twofold higher, respectively, in caveolae compared to the surrounding plasma membrane. The concentration of glycerophospholipids was similar suggesting that glycerophospholipids constitute a constant core throughout the plasma membrane. The composition of detergent-insoluble fractions of the plasma membrane was very variable between preparations, but strongly enriched in sphingomyelin and depleted of glycerophospholipids compared to carbonate-isolated caveolae; indicating that detergent extraction is not a suitable technique for caveolae preparation. An average adipocyte caveola contained about 22 x 10(3) molecules of cholesterol, 7.5 x 10(3) of sphingomyelin and 23 x 10(3) of glycerophospholipid. The glycosphingolipid GD3 was highly enriched in caveolae, whereas GM3, GM1 and GD1a were present inside as well as outside the caveolae membrane. GD1b, GT1b, GM2, GQ1b, sulfatide and lactosylceramide sulfate were not detected in caveolae.

  18. Variable Ly alpha sheds light on the environment surrounding GRB 090426

    CERN Document Server

    Thöne, C C; Lazzati, D; Postigo, A de Ugarte; Fynbo, J P U; Christensen, L; Levan, A J; Aloy, M A; Hjorth, J; Jakobsson, P; Levesque, E M; Malesani, D; Milvang-Jensen, B; Roming, P W A; Tanvir, N R; Wiersema, K; Gladders, M; Wuyts, E; Dahle, H

    2011-01-01

    Long duration gamma-ray bursts are commonly associated with the deaths of massive stars. Spectroscopic studies using the afterglow as a light source provide a unique opportunity to unveil the medium surrounding it, probing the densest region of their galaxies. This material is usually in a low ionisation state and at large distances from the burst site, hence representing the normal interstellar medium in the galaxy. Here we present the case of GRB 090426 at z=2.609, whose optical spectrum indicates an almost fully ionised medium together with a low column density of neutral hydrogen. For the first time, we also observe variations in the Ly alpha absorption line. Photoionisation modeling shows that we are probing material from the vicinity of the burst (~80 pc). The host galaxy is a complex of two luminous interacting galaxies, which might suggest that this burst could have occurred in an isolated star-forming region outside its host galaxy created in the interaction of the two galaxies.

  19. Optical IFU observations of gas pillars surrounding the super star cluster NGC 3603

    CERN Document Server

    Westmoquette, M S; Ercolano, B; Smith, L J

    2013-01-01

    We present optical integral field unit (IFU) observations of two gas pillars surrounding the Galactic young massive star cluster NGC 3603. The high S/N and spectral resolution of these data have allowed us to accurately quantify the H-alpha, [NII] and [SII] emission line shapes, and we find a mixture of broad (FWHM~70-100 km/s) and narrow (10000 cm-3. In one pillar we found that these high densities are only found in the narrow component, implying it must originate from deeper within the pillar than the broad component. From this, together with our kinematical data, we conclude that the narrow component traces a photoevaporation flow, and that the TML forms at the interface with the hot wind. On the pillar surfaces we find a consistent offset in radial velocity between the narrow (brighter) components of H-alpha and [NII] of ~5-8 km/s, for which we were unable to find a satisfactory explanation. We urge the theoretical community to simulate mechanical and radiative cloud interactions in more detail to address...

  20. The IC 5146 star forming complex and its surroundings with 2MASS, WISE and Spitzer

    Science.gov (United States)

    Nunes, N. A.; Bonatto, C.; Bica, E.

    2016-02-01

    Throughout the last decade sensitive infrared observations obtained by the Spitzer Space Telescope significantly increased the known population of YSOs associated with nearby molecular clouds. With such a census recent studies have characterized pre-main sequence stars (PMS) and determined parameters from different wavelengths. Given the restricted Spitzer coverage of some of these clouds, relative to their extended regions, these YSO populations may represent a limited view of star formation in these regions. We are taking advantage of mid-infrared observations from the NASA Wide Field Infrared Survey Explorer (WISE), which provides an all sky view and therefore full coverage of the nearby clouds, to assess the degree to which their currently known YSO population may be representative of a more complete population. We extend the well established classification method of the Spitzer Legacy teams to archived WISE observations. We have adopted 2MASS photometry as a "standard catalogue" for comparisons. Besides the massive embedded cluster IC 5146 we provide a multiband view of five new embedded clusters in its surroundings that we discovered with WISE. In short, the analysis involves the following for the presently studied cluster sample: (i) extraction of 2MASS/WISE/Spitzer photometry in a wide circular region; (ii) field-star decontamination to enhance the intrinsic Colour-magnitude diagram (CMD) morphology (essential for a proper derivation of reddening, age, and distance from the Sun); and (iii) construction of Colour-magnitude filters, for more contrasted stellar radial density profiles (RDPs).

  1. The connection between AGN-driven dusty outflows and the surrounding environment

    CERN Document Server

    Ishibashi, W

    2016-01-01

    Significant reservoirs of cool gas are observed in the circumgalactic medium (CGM) surrounding galaxies. The CGM is also found to contain substantial amounts of metals and dust, which require some transport mechanism. We consider AGN (active galactic nucleus) feedback-driven outflows based on radiation pressure on dust. Dusty gas is ejected when the central luminosity exceeds the effective Eddington luminosity for dust. We obtain that a higher dust-to-gas ratio leads to a lower critical luminosity, implying that the more dusty gas is more easily expelled. Dusty outflows can reach large radii with a range of velocities (depending on the outflowing shell configuration and the ambient density distribution) and may account for the observed CGM gas. In our picture, dust is required in order to drive AGN feedback, and the preferential expulsion of dusty gas in the outflows may naturally explain the presence of dust in the CGM. On the other hand, the most powerful AGN outflow events can potentially drive gas out of ...

  2. Ocean-atmosphere exchange of organic carbon and CO2 surrounding the Antarctic Peninsula

    Science.gov (United States)

    Ruiz-Halpern, S.; Calleja, M. Ll.; Dachs, J.; Del Vento, S.; Pastor, M.; Palmer, M.; Agustí, S.; Duarte, C. M.

    2014-05-01

    Exchangeable organic carbon (OC) dynamics and CO2 fluxes in the Antarctic Peninsula during austral summer were highly variable, but the region appeared to be a net sink for OC and nearly in balance for CO2. Surface exchangeable dissolved organic carbon (EDOC) measurements had a 43 ± 3 (standard error, hereafter SE) μmol C L-1 overall mean and represented around 66% of surface non-purgeable dissolved organic carbon (DOC) in Antarctic waters, while the mean concentration of the gaseous fraction of organic carbon (GOC H-1) was 46 ± 3 SE μmol C L-1. There was a tendency towards low fugacity of dissolved CO2 (fCO2-w) in waters with high chlorophyll a (Chl a) content and high fCO2-w in areas with high krill densities. However, such relationships were not found for EDOC. The depth profiles of EDOC were also quite variable and occasionally followed Chl a profiles. The diel cycles of EDOC showed two distinct peaks, in the middle of the day and the middle of the short austral dark period, concurrent with solar radiation maxima and krill night migration patterns. However, no evident diel pattern for GOC H-1 or CO2 was observed. The pool of exchangeable OC is an important and active compartment of the carbon budget surrounding the Antarctic Peninsula and adds to previous studies highlighting its importance in the redistribution of carbon in marine environments.

  3. Inhibition of the dorsal premotor cortex does not repair surround inhibition in writer's cramp patients.

    Science.gov (United States)

    Veugen, Lidwien C; Hoffland, Britt S; Stegeman, Dick F; van de Warrenburg, Bart P

    2013-03-01

    Writer's cramp is a task-specific form of focal dystonia, characterized by abnormal movements and postures of the hand and arm during writing. Two consistent abnormalities in its pathophysiology are a loss of surround inhibition and overactivity of the dorsal premotor cortex (PMd). This study aimed to assess a possible link between these two phenomena by investigating whether PMd inhibition leads to an improvement of surround inhibition, in parallel with previously demonstrated writing improvement. Fifteen writer's cramp patients and ten controls performed a simple motor hand task during which surround inhibition was measured using transcranial magnetic stimulation. Motor cortical excitability was measured of the active and surround muscles at three phases of the task. Surround inhibition and writing performance were assessed before and after PMd inhibitory continuous theta burst stimulation. In contrast to healthy controls, patients did not show inhibition of the abductor digiti minimi muscle during movement initiation of the first dorsal interosseus muscle, confirming the loss of surround inhibition. PMd inhibition led to an improvement of writing speed in writer's cramp patients. However, in both groups, no changes in surround inhibition were observed. The results confirm a role for the PMd in the pathophysiology of writer's cramp. We show that PMd inhibition does not lead to restoration of the surround inhibition defect in writer's cramp, despite the improvement in writing. This questions the involvement of the PMd in the loss of surround inhibition, and perhaps also the direct link between surround inhibition and dystonia.

  4. Isolation of a sesquiterpene synthase expressing in specialized epithelial cells surrounding the secretory cavities in rough lemon (Citrus jambhiri).

    Science.gov (United States)

    Uji, Yuya; Ozawa, Rika; Shishido, Hodaka; Taniguchi, Shiduku; Takabayashi, Junji; Akimitsu, Kazuya; Gomi, Kenji

    2015-05-15

    Volatile terpenoids such as monoterpenes and sesquiterpenes play multiple roles in plant responses and are synthesized by terpene synthases (TPSs). We have previously isolated a partial TPS gene, RlemTPS4, that responds to microbial attack in rough lemon. In this study, we isolated a full length RlemTPS4 cDNA from rough lemon. RlemTPS4 localized in the cytosol. The recombinant RlemTPS4 protein was obtained using a prokaryotic expression system and GC-MS analysis of the terpenes produced by the RlemTPS4 enzymatic reaction determined that RlemTPS4 produces some sesquiterpenes such as δ-elemene. The RlemTPS4 gene was specifically expressed in specialized epithelial cells surrounding the oil secretory cavities in rough lemon leaf tissue.

  5. Investigation of Distribution of Beta -Thalassemia Hereditary Mutations in Gaziantep and the Surrounding Areas

    Directory of Open Access Journals (Sweden)

    Serdar Öztuzcu

    2016-09-01

    Full Text Available Introduction: Beta-thalassemia is the most common autosomal recessive disease. More than 200 different mutations determined in beta-globin gene. Beta thalassemia disease has a severe clinical picture. Treatment of the diseases should be maintained properly otherwise quality of life and life period can be affected. In this study, we tried to reveal inherited beta-thalassemia mutations in surrounding areas of Gaziantep. Material and Methods: In this study, we included 208 patients who applied with beta -thalassemia suspicion to the pediatric hematology clinic (age range 4-14. In that study, 138 patients with homozygous mutations and 70 patients’ heterozygous mutations were identified. HBB gene was sequenced by Sanger DNA Sequencing method. Results: Most common homozygote mutations are IVS I-110 G>A, IVS I-1 G>A, IVS II-1 G>A, the heterozygote mutations are IVS I-110 G>A, IVS II-1 G>A, codon 8 (AA del. The incidence of IVS 1.110 (G>A mutation is 24%, 28 in homozygote patients, 29.7% in heterozygote patients. The 8% homozygote patients and 19.7% heterozygote patients were effected with IVS 1.110 (G>A mutation. Conclusion: The consanguinity marriages are very abundant particularly in our region due to fact that we are able to see many autosomal recessive diseased in our region. Reducing incidence of autosomal recessive disease by given genetic counseling could help the solution but it is still a major problem. J Clin Exp Invest 2016; 7(4: 265-268

  6. [Vitamin D metabolism and signaling in human hepatocellular carcinoma and surrounding non-tumorous liver].

    Science.gov (United States)

    Horváth, Evelin; Balla, Bernadett; Kósa, János; Lakatos, Péter András; Lazáry, Áron; Németh, Dániel; Jozilan, Hasan; Somorácz, Áron; Korompay, Anna; Gyöngyösi, Benedek; Borka, Katalin; Kiss, András; Kupcsulik, Péter; Schaff, Zsuzsa; Szalay, Ferenc

    2016-11-01

    1,25-Dihydroxy vitamin D3 mediates antitumor effects in hepatocellular carcinoma. We examined mRNA and protein expression differences in 1,25-Dihydroxy vitamin D3-inactivating CYP24A1, mRNA of activating CYP27B1 enzymes, and that of VDR between human hepatocellular carcinoma and surrounding non-tumorous liver. Snap-frozen tissues from 13 patients were studied for mRNA and protein expression of CYP24A1. Paraffin-embedded tissues from 36 patients were used to study mRNA of VDR and CYP27B1. mRNA expression was measured by RT-PCR, CYP24A1 protein was detected by immunohistochemistry. Expression of VDR and CYP27B1 was significantly lower in hepatocellular carcinoma compared with non-tumorous liver (p<0.05). The majority of the HCC samples expressed CYP24A1 mRNA, but neither of the non-tumorous liver. The gene activation was followed by CYP24A1 protein synthesis. The presence of CYP24A1 mRNA and the reduced expression of VDR and CYP27B1 mRNA in human hepatocellular carcinoma samples indicate decreased bioavailability of 1,25-Dihydroxy vitamin D3, providing an escape mechanism from the anti-tumor effect. Orv. Hetil., 2016, 157(48), 1910-1918.

  7. Numerical analysis of tunnel reinforcing influences on failure process of surrounding rock under explosive stress waves

    Institute of Scientific and Technical Information of China (English)

    ZUO Yu-jun; TANG Chun-an; ZHU Wan-cheng; LI Di-yuan; LI Shu-cai

    2008-01-01

    Based on mesoscopic damage mechanics, numerical code RFPA2D (dynamic edition) was developed to analyze the influence of tunnel reinforcing on failure process of surrounding rock under explosive stress waves. The results show that the propagation phenomenon of stress wave in the surrounding rock of tunnel and the failure process of surrounding rock under explosive stress waves are reproduced realistically by using numerical code RFPAED; from the failure process of surrounding rock,the place at which surrounding rock fractures is transferred because of tunnel reinforcing, and the rockfall and collapse caused by failure of surrounding rock are restrained by tunnel reinforcing; furthermore, the absolute values of peak values of major principal stress, and the minimal principal stress and shear stress at center point of tunnel roof are reduced because of tunnel reinforcing, and the displacement at center point of tunnel roof is reduced as well, consequently the stability of tunnel increases.

  8. Negative density-dependent emigration of males in an increasing red deer population

    National Research Council Canada - National Science Library

    Leif Egil Loe; Atle Mysterud; Vebjørn Veiberg; Rolf Langvatn

    2009-01-01

    ...), possibly caused by increasing saturation of deer in areas surrounding the marking sites. Our study highlights that pattern of density dependence in dispersal rates may differ markedly between sexes in highly polygynous species...

  9. Stomatal Density and Bio-water Saving

    Institute of Scientific and Technical Information of China (English)

    2007-01-01

    Bio-water saving is to increase water use efficiency of crops or crop yield per unit of water input. Plant water use efficiency is determined by photosynthesis and transpiration, for both of which stomata are crucial. Stomata are pores on leaf epidermis for both water and carbon dioxide fluxes that are controlled by two major factors: stomatal behavior and density. Stomatal behavior has been the focus of intensive research, while less attention has been paid to stomatal density. Recently, a number of genes controlling stomatal development have been identified. This review summarizes the recent progress on the genes regulating stomatal density, and discusses the role of stomatal density in plant water use efficiency and the possibility to increase plant water use efficiency, hence bio-water saving by genetically manipulating stomatal density.

  10. The cross-correlation of signals and spatial impression in surround sound reproduction

    Institute of Scientific and Technical Information of China (English)

    2010-01-01

    The relationship between the cross-correlation coefficients of feeding signals and auditory spatial impression(ASI) which are created by the left,right,left surround and right surround loudspeakers in 5.1 channel surround sound system is investigated by psychoacoustic experiments.The results show that for reproducing by the front left-right or left-right surround loudspeakers pair,the auditory source width(ASW) can be broadened by controlling the crosscorrelation coefficients of feeding signals to some e...

  11. Transport of gaseous NO2 and SO2 by MAX-DOAS in Beijing and surrounding area

    Science.gov (United States)

    Xu, Jin; Li, Ang; Xie, Pinhua; Liu, Jianguo; Liu, Wenqing

    2016-04-01

    With the development of industry and urbanization, regional pollution is increasing seriously, and the cross influence between cities is becoming more frequently. Multi Axis Differential Optical Absorption Spectroscopy (MAX-DOAS) has been successfully applied in the remote sensing of gaseous pollutants during the past decade, it is based on scattered light of the sun, and can measure spectral in different directions, measure tropospheric and the whole atmospheric column densities of trace gases combining with radiative transfer model (RTM). This approach is very useful for the investigation of the main path of air pollution transportation. Fifteen MAX-DOAS stations which are in urban and in the path of pollution transport are set up in Beijing and surrounding area including Tianjin and Hebei province to observe the spatial and temporal distributions and regional transport of gaseous NO2 and SO2. The NO2 VCDs and profiles and SO2 VCDs are obtained. The results show that the NO2 column densities in urban are higher than surroundings, it shows that the NO2 in Beijing is mainly from the local; The SO2 column densities in other cities to the south of Beijing are obviously higher than in Beijing, so regional transport from the south of Hebei province will have a significant impact on Beijing. From the results of NO2 and SO2, the whole pollution process including incubation, generation, duration, and dispersion was observed. The vertical distribution show that NO2 concentration is mainly near the surface from 0 to 400m, and SO2 is higher in the transport process.

  12. Laboratory Density Functionals

    OpenAIRE

    Giraud, B. G.

    2007-01-01

    We compare several definitions of the density of a self-bound system, such as a nucleus, in relation with its center-of-mass zero-point motion. A trivial deconvolution relates the internal density to the density defined in the laboratory frame. This result is useful for the practical definition of density functionals.

  13. Laboratory Density Functionals

    OpenAIRE

    Giraud, B G

    2007-01-01

    We compare several definitions of the density of a self-bound system, such as a nucleus, in relation with its center-of-mass zero-point motion. A trivial deconvolution relates the internal density to the density defined in the laboratory frame. This result is useful for the practical definition of density functionals.

  14. Comparison of Socioeconomic Factors between Surrounding and Non-Surrounding Areas of the Qinghai–Tibet Railway before and after Its Construction

    Directory of Open Access Journals (Sweden)

    Shicheng Li

    2016-08-01

    Full Text Available As the world’s highest railway, and the longest highland railway, the Qinghai–Tibet Railway (QTR has been paid considerable attention by researchers. However, most attention has been paid to the ecological and environmental issues affecting it, and sustainable ecological, social, and economic development-related studies of the QTR are rare. In this study, by analyzing the passenger traffic, freight traffic, passenger-kilometers, and freight-kilometers of the QTR for the period 1982–2013 and the transport structure of the Tibetan Plateau (TP for 1990–2013, the evolutionary process of the transport system in the TP following the construction of the QTR has been revealed. Subsequently, by comparing Gross Domestic Product (GDP, population, industrial structure, and urbanization level at the county and 1 km scales between surrounding and non-surrounding areas of the QTR, the differences in socioeconomic performance before and after its construction were detected. The results show that (1 in the TP, the highway-dominated transport system will break up and an integrated and sustainable transport system will form; (2 at the county scale, the annual growth rates of GDP of counties surrounding the QTR were greater than those of non-surrounding counties for the period 2000–2010. At the 1 km scale, following the opening of the completed line, the GDP of surrounding areas had a greater growth rate than before; (3 analysis at the county and 1 km scales indicated that population was not aggregated into the surrounding areas of the QTR in the period 2000–2010; (4 in terms of industrial structure, the proportion of primary industry decreased continuously, while the proportion of secondary and tertiary industries increased overall in the period 1984–2012. The QTR had no obvious impact on changes in the urbanization level of its surrounding areas.

  15. Genes and Gene Therapy

    Science.gov (United States)

    ... correctly, a child can have a genetic disorder. Gene therapy is an experimental technique that uses genes to ... or prevent disease. The most common form of gene therapy involves inserting a normal gene to replace an ...

  16. An oxygen-rich dust disk surrounding an evolved star in the Red Rectangle

    NARCIS (Netherlands)

    Waters, LBFM; Waelkens, C; van Winckel, H; Molster, FJ; Tielens, AGGM; van Loon, JT; Morris, PW; Cami, J; Bouwman, J; de Koter, A; de Jong, T; de Graauw, T

    1998-01-01

    The Red Rectangle(1) is the prototype of a class of carbon-rich reflection nebulae surrounding low-mass stars in the final stages of evolution. The central star of this nebula has ejected most of its layers (during the red-giant phase), which now form the surrounding cloud, and is rapidly evolving t

  17. The Space of an Object: Object Attention Alters the Spatial Gradient in the Surround

    Science.gov (United States)

    Kravitz, Dwight Jacob; Behrmann, Marlene

    2008-01-01

    Although object-based attention enhances perceptual processing of information appearing within the boundaries of a selected object, little is known about the consequences for information in the object's surround. The authors show that distance from an attended object's center of mass determines reaction time (RT) to targets in the surround. Of 2…

  18. Surround modulation characteristics of local field potential and spiking activity in primary visual cortex of cat.

    Directory of Open Access Journals (Sweden)

    Li Zhang

    Full Text Available In primary visual cortex, spiking activity that evoked by stimulus confined in receptive field can be modulated by surround stimulus. This center-surround interaction is hypothesized to be the basis of visual feature integration and segregation. Spiking output has been extensively reported to be surround suppressive. However, less is known about the modulation properties of the local field potential (LFP, which generally reflects synaptic inputs. We simultaneously recorded spiking activity and LFP in the area 17 of anesthetized cats to examine and compare their modulation characteristics. When the stimulus went beyond the classical receptive field, LFP exhibited decreased power along the gamma band (30-100 Hz in most of our recording sites. Further investigation revealed that suppression of the LFP gamma mean power (gLFP depended on the angle between the center and surround orientations. The strongest suppression was induced when center and surround orientations were parallel. Moreover, the surround influence of the gLFP exhibited an asymmetric spatial organization. These results demonstrate that the gLFP has similar but not identical surround modulation properties, as compared to the spiking activity. The spatiotemporal integration of LFP implies that the oscillation and synchronization of local synaptic inputs may have important functions in surround modulation.

  19. Gene Ontology

    Directory of Open Access Journals (Sweden)

    Gaston K. Mazandu

    2012-01-01

    Full Text Available The wide coverage and biological relevance of the Gene Ontology (GO, confirmed through its successful use in protein function prediction, have led to the growth in its popularity. In order to exploit the extent of biological knowledge that GO offers in describing genes or groups of genes, there is a need for an efficient, scalable similarity measure for GO terms and GO-annotated proteins. While several GO similarity measures exist, none adequately addresses all issues surrounding the design and usage of the ontology. We introduce a new metric for measuring the distance between two GO terms using the intrinsic topology of the GO-DAG, thus enabling the measurement of functional similarities between proteins based on their GO annotations. We assess the performance of this metric using a ROC analysis on human protein-protein interaction datasets and correlation coefficient analysis on the selected set of protein pairs from the CESSM online tool. This metric achieves good performance compared to the existing annotation-based GO measures. We used this new metric to assess functional similarity between orthologues, and show that it is effective at determining whether orthologues are annotated with similar functions and identifying cases where annotation is inconsistent between orthologues.

  20. Metagenomic analysis exploring taxonomic and functional diversity of soil microbial communities in Chilean vineyards and surrounding native forests

    Science.gov (United States)

    2017-01-01

    Mediterranean biomes are biodiversity hotspots, and vineyards are important components of the Mediterranean landscape. Over the last few decades, the amount of land occupied by vineyards has augmented rapidly, thereby increasing threats to Mediterranean ecosystems. Land use change and agricultural management have important effects on soil biodiversity, because they change the physical and chemical properties of soil. These changes may also have consequences on wine production considering that soil is a key component of terroir. Here, we describe the taxonomic diversity and metabolic functions of bacterial and fungal communities present in forest and vineyard soils in Chile. To accomplish this goal, we collected soil samples from organic vineyards in central Chile and employed a shotgun metagenomic approach to sequence the microbial DNA. Additionally, we studied the surrounding native forest to obtain a baseline of the soil conditions in the area prior to the establishment of the vineyard. Our metagenomic analyses revealed that both habitats shared most of the soil microbial species. The most abundant genera in the two habitats were the bacteria Candidatus Solibacter and Bradyrhizobium and the fungus Gibberella. Our results suggest that the soil microbial communities are similar in these forests and vineyards. Therefore, we hypothesize that native forests surrounding the vineyards may be acting as a microbial reservoir buffering the effects of the land conversion. Regarding the metabolic diversity, we found that genes pertaining to the metabolism of amino acids, fatty acids, and nucleotides as well as genes involved in secondary metabolism were enriched in forest soils. On the other hand, genes related to miscellaneous functions were more abundant in vineyard soils. These results suggest that the metabolic function of microbes found in these habitats differs, though differences are not related to taxonomy. Finally, we propose that the implementation of

  1. Effects of surrounding elements on city image in the sample of Erzurum city

    Directory of Open Access Journals (Sweden)

    S. Ozer

    2010-05-01

    Full Text Available Structural elements which are the parts of city identities are shaped as the result of social and cultural characteristics and natural factors. In order to increase visual quality of cities and make cities more liveable landscape architects use not only living materials such as plants but also nonliving materials. This study was carried out to investigate the effects of surrounding elements which are vertical elements in landscape designs, on functional and city aesthetics. With this aim, materials used in surrounding elements around houses in Erzurum, houses surrounded by these elements and their harmony with their surroundings, aesthetics and functional effects were investigated and their contributions to city image were determined. While surrounding elements are mainly adequate in functions, they are lower quality in aesthetics. Some suggestions were offered for the city images that local councils should be careful on and due to Universiade in 2011.

  2. Catastrophe mechanism and disaster countermeasure for soft rock roadway surrounding rock in Meihe mine

    Institute of Scientific and Technical Information of China (English)

    Yu Yang⇑; Zhu Caikun; Chong Deyu; Liu Yang; Li Sichao

    2015-01-01

    The soft rock’s heterogeneity and nonlinear mechanical behavior cause extremely difficult maintenance on the soft rock roadway. Aiming at the asymmetric deformation and destruction phenomenon appearing after excavating and supporting the 7101 air return way in Meihe mine, this paper comprehensively adopted a variety of methods to analyze the roadway surrounding rock deformation rule, obtaining the roadway surrounding rock stress and plastic zone distribution rule under no supporting condition and the roadway surrounding rock deformation features under original symmetric supporting condition. Furthermore, this paper revealed the catastrophe mechanism, and proposed the concept of‘weak struc-ture’ and the disaster countermeasure of‘overall stabilizing the roadway and strengthening the support of weak structure’ . The industrial test shows that the disaster control technology can realize the coordination deformation of the supporting structure and roadway surrounding rock, thus significantly controlling the deformation of roadway surrounding rock.

  3. Effect of longwall length on mechanical characteristics of surrounding rock stress shell in mining face

    Energy Technology Data Exchange (ETDEWEB)

    Guang-Xiang Xie; Lei Wang [Anhui University of Science and Technology, Huainan (China)

    2008-12-15

    The mechanical characteristics of surrounding rock stress shell in longwall mining face were studied, based on the results of in-situ measurement combined with numerical simulation, and the effect of longwall length on mechanical characteristics of surrounding rock stress shell was discovered. The results show that the mechanical characteristics of surrounding rock stress shell are influenced by the length of the face. With an increase of mining face length, the level of concentration of shell stress located in the front face and surrounding rock of roadway is amplified and the three- dimensional stress is focused in the working face. The damage lies in the head entry corner of face and the vertical displacement is reduced but horizontal displacement is enlarged. The dynamic balance of surrounding rock stress shell is improved with rational adjustment of face length. It is effective in protecting the working face and controlling strata behavior. 5 refs., 7 figs.

  4. Stability classification model of mine-lane surrounding rock based on distance discriminant analysis method

    Institute of Scientific and Technical Information of China (English)

    ZHANG Wei; LI Xi-bing; GONG Feng-qiang

    2008-01-01

    Based on the principle of Mahalanobis distance discriminant analysis (DDA) theory, a stability classification model for mine-lane surrounding rock was established, including six indexes of discriminant factors that reflect the engineering quality of surrounding rock: lane depth below surface, span of lane, ratio of directly top layer thickness to coal thickness, uniaxial comprehensive strength of surrounding rock, development degree coefficient of surrounding rock joint and range of broken surrounding rock zone. A DDA model was obtained through training 15 practical measuring samples. The re-substitution method was introduced to verify the stability of DDA model and the ratio of mis-discrimination is zero. The DDA model was used to discriminate3 new samples and the results are identical with actual rock kind. Compared with the artificial neural network method and support vector mechanic method, the results show that this model has high prediction accuracy and can be used in practical engineering.

  5. Varieties of Quest and the Religious Openness Hypothesis within Religious Fundamentalist and Biblical Foundationalist Ideological Surrounds

    Directory of Open Access Journals (Sweden)

    P. J. Watson

    2013-12-01

    Full Text Available According to the Religious Openness Hypothesis, the religious and psychological openness of American Christians is obscured by a defensive ghettoization of thought associated with a Religious Fundamentalist Ideological Surround and can be discovered instead within a Biblical Foundationalist Ideological Surround. A test of this claim examined Religious Fundamentalism, Biblical Foundationalism, Quest, and Multidimensional Quest Scales in 432 undergraduates. Christian Religious Reflection, Religious Schema, and Religious Orientation measures clarified these two ideological surrounds. Partial correlations controlling for Biblical Foundationalism described a Religious Fundamentalist Ideological Surround that more strongly rejected Quest and that more generally displayed a failure to integrate faith with intellect. Partial correlations controlling for Religious Fundamentalism revealed a Biblical Foundationalist Ideological Surround that was more open to Quest and that offered numerous demonstrations of an ability to unite faith with intellect. These data supplemented previous investigations in demonstrating that Christianity and other traditional religions have ideological resources for promoting a faithful intellect.

  6. Numerical modelling of salt diapirism and the surrounding temperature field during thin-skinned extension

    Science.gov (United States)

    Thieulot, Cedric; Harms, Guido

    2016-04-01

    The occurrence of salt diapirs is strongly associated with potential geothermal and hydrocarbon energy sources. Many numerical modelling studies of diapirism have been done in the past, though very few of these in fact use geologically realistic settings and materials. Besides, only analogue and structural studies have been done on full scale diapirism during thin-skinned extension. Two-dimensional numerical modelling of this problem using a Finite Element code aims at addressing the following questions: which geometrical or material parameters affect the growth rate and shape of the diapir and how? what is the effect of this diapirism on the temperature field and surface heat flux? How does the inclusion of simple surface processes influence these observations to first order ? Our results show that, in compliance with both analogue modelling and structural geological studies, a diapir formed during thin-skinned extension undergoes three phases: reactional piercement, active piercement and passive piercement. Extension rates directly influence the total time required for the diapir to reach the surface, as well as how long the system remains in a state of reactional diapirism, which both affect the shape of the resulting diapir. Erosion efficiency is found to affect the growth rate of the diapir during its active stage and the total rising time, which affects in turn its the shape. The density contrast between the salt and the sediments also influences the growth rate during active and passive piercement. Finally, the temperature surrounding a rising diapir (especially in the region above it) is found to be heightened by a few dozens of degrees.

  7. Cholinergic enhancement reduces orientation-specific surround suppression but not visual crowding.

    Science.gov (United States)

    Kosovicheva, Anna A; Sheremata, Summer L; Rokem, Ariel; Landau, Ayelet N; Silver, Michael A

    2012-01-01

    Acetylcholine (ACh) reduces the spatial spread of excitatory fMRI responses in early visual cortex and receptive field size of V1 neurons. We investigated the perceptual consequences of these physiological effects of ACh with surround suppression and crowding, two phenomena that involve spatial interactions between visual field locations. Surround suppression refers to the reduction in perceived stimulus contrast by a high-contrast surround stimulus. For grating stimuli, surround suppression is selective for the relative orientations of the center and surround, suggesting that it results from inhibitory interactions in early visual cortex. Crowding refers to impaired identification of a peripheral stimulus in the presence of flankers and is thought to result from excessive integration of visual features. We increased synaptic ACh levels by administering the cholinesterase inhibitor donepezil to healthy human subjects in a placebo-controlled, double-blind design. In Experiment 1, we measured surround suppression of a central grating using a contrast discrimination task with three conditions: (1) surround grating with the same orientation as the center (parallel), (2) surround orthogonal to the center, or (3) no surround. Contrast discrimination thresholds were higher in the parallel than in the orthogonal condition, demonstrating orientation-specific surround suppression (OSSS). Cholinergic enhancement decreased thresholds only in the parallel condition, thereby reducing OSSS. In Experiment 2, subjects performed a crowding task in which they reported the identity of a peripheral letter flanked by letters on either side. We measured the critical spacing between the targets and flanking letters that allowed reliable identification. Cholinergic enhancement with donepezil had no effect on critical spacing. Our findings suggest that ACh reduces spatial interactions in tasks involving segmentation of visual field locations but that these effects may be limited to early

  8. Cholinergic enhancement reduces orientation-specific surround suppression but not visual crowding

    Directory of Open Access Journals (Sweden)

    Anna A. Kosovicheva

    2012-09-01

    Full Text Available Acetylcholine (ACh reduces the spatial spread of excitatory fMRI responses in early visual cortex and the receptive field sizes of V1 neurons. We investigated the perceptual consequences of these physiological effects of ACh with surround suppression and crowding, two tasks that involve spatial interactions between visual field locations. Surround suppression refers to the reduction in perceived stimulus contrast by a high-contrast surround stimulus. For grating stimuli, surround suppression is selective for the relative orientations of the center and surround, suggesting that it results from inhibitory interactions in early visual cortex. Crowding refers to impaired identification of a peripheral stimulus in the presence of flankers and is thought to result from excessive integration of visual features. We increased synaptic ACh levels by administering the cholinesterase inhibitor donepezil to healthy human subjects in a placebo-controlled, double-blind design. In Exp. 1, we measured surround suppression of a central grating using a contrast discrimination task with three conditions: 1 surround grating with the same orientation as the center (parallel, 2 surround orthogonal to the center, or 3 no surround. Contrast discrimination thresholds were higher in the parallel than in the orthogonal condition, demonstrating orientation-specific surround suppression (OSSS. Cholinergic enhancement reduced thresholds only in the parallel condition, thereby reducing OSSS. In Exp. 2, subjects performed a crowding task in which they reported the identity of a peripheral letter flanked by letters on either side. We measured the critical spacing between the target and flanking letters that allowed reliable identification. Cholinergic enhancement had no effect on critical spacing. Our findings suggest that ACh reduces spatial interactions in tasks involving segmentation of visual field locations but that these effects may be limited to early visual cortical

  9. Neural mechanisms of surround attenuation and distractor competition in visual search.

    Science.gov (United States)

    Boehler, Carsten N; Tsotsos, John K; Schoenfeld, Mircea A; Heinze, Hans-Jochen; Hopf, Jens-Max

    2011-04-06

    Visual attention biases relevant processing in the visual system by amplifying relevant or attenuating irrelevant sensory input. A potential signature of the latter operation, referred to as surround attenuation, has recently been identified in the electromagnetic brain response of human observers performing visual search. It was found that a zone of attenuated cortical excitability surrounds the target when the search required increased spatial resolution for item discrimination. Here we address the obvious hypothesis that surround attenuation serves distractor suppression in the vicinity of the target where interference from irrelevant search items is maximal. To test this hypothesis, surround attenuation was assessed under conditions when the target was presented in isolation versus when it was surrounded by distractors. Surprisingly, substantial and indistinguishable surround attenuation was seen under both conditions, indicating that it reflects an attentional operation independent of the presence of distractors. Adding distractors in the target's surround, however, increased the amplitude of the N2pc--an evoked response known to index distractor competition in visual search. Moreover, adding distractors led to a topographical change of source activity underlying the N2pc toward earlier extrastriate areas. In contrast, the topography of reduced source activity due to surround attenuation remained unaltered with and without distractors in the target's surround. We conclude that surround attenuation is not a direct consequence of the attenuation of distractors in visual search and that it dissociates from attentional operations reflected by the N2pc. A theoretical framework is proposed that links both operations in a common model of top-down attentional selection in visual cortex.

  10. THE EMISSION NEBULA Sh 2-174: A RADIO INVESTIGATION OF THE SURROUNDING REGION

    Energy Technology Data Exchange (ETDEWEB)

    Ransom, R. R. [Department of Physics and Astronomy, Okanagan College, 583 Duncan Avenue West, Penticton, BC V2A 8E1 (Canada); Kothes, R.; Geisbuesch, J.; Landecker, T. L. [National Research Council Herzberg, Dominion Radio Astrophysical Observatory, P.O. Box 248, Penticton, BC V2A 6J9 (Canada); Reich, W., E-mail: RRansom@okanagan.bc.ca [Max-Planck-Institut für Radioastronomie, Auf dem Hügel 69, D-53121 Bonn (Germany)

    2015-02-01

    Sh 2-174 is believed to be either a planetary nebula (PN) or ionized, ambient interstellar medium (ISM). We present in this paper 1420 MHz polarization, 1420 MHz total intensity (Stokes-I), and neutral hydrogen (H I) images of the region around Sh 2-174. The radio images address not only the nature of the object, but also the history of the relationship between Sh 2-174 and its surrounding environment. The H I images show that Sh 2-174 sits presently at the center of a ∼1.°2 × ∼0.°4 cloud (with peak hydrogen density n {sub H} = 4 ± 2 cm{sup –3}). The Stokes-I image shows thermal-emission peaks (with electron densities n{sub e} = 11 ± 3 cm{sup –3}) coincident with the R-band optical nebula, as well as low-surface-brightness emission from an ionized ''halo'' around Sh 2-174 and from an ionized ''plateau'' extending southeast from the cloud. The polarization images reveal Faraday-rotation structures along the projected trajectory of Sh 2-174, including a high-contrast structure with ''arms'' that run precisely along the eastern edge of the H I cloud and a wide central region that merges with the downstream edge of Sh 2-174. The high-contrast structure is consistent with an ionized tail that has both early-epoch (before Sh 2-174 entered the cloud) and present-epoch (after Sh 2-174 entered the cloud) components. Furthermore, our rotation-measure analysis indicates that the ISM magnetic field is deflected at the leading edge of Sh 2-174. The downstream tail and upstream field deflection point to a PN-ISM interaction. Our estimated space velocity for the host white dwarf (GD 561) demonstrates that Sh 2-174 entered the cloud ∼27,000 yr ago, and gives a PN-ISM interaction timescale ≲ 2.0 × 10{sup 5} yr. We estimate an ambient magnetic field in the cloud of 11 ± 3 μG.

  11. Force Density Balance inside the Hydrogen Atom

    CERN Document Server

    Himpsel, F J

    2015-01-01

    Motivated by the long-debated question about the internal stability of the electron, the force densities acting on the charge density of the 1s electron in the H atom are investigated. The problem is mapped onto the canonical formalism for a classical Dirac field coupled to the electric field of an external point charge. An explicit calculation shows that the attractive Coulomb force density is balanced exactly at every point in space by the repulsive confinement force density. The latter requires evaluating the divergence of the stress tensor for the 1s solution of the Dirac equation. Such a local force balance goes beyond the global stability criteria that are usually given for the H atom. This concept is extended to the internal stability of any charged particle by investigating the force densities acting on its surrounding vacuum polarization. At large distances one has to consider only the charge density of virtual electrons and positrons, induced by a point charge in the vacuum of quantum electrodynamic...

  12. Counterion distribution surrounding spherical nucleic acid-Au nanoparticle conjugates probed by small-angle x-ray scattering.

    Science.gov (United States)

    Kewalramani, Sumit; Zwanikken, Jos W; Macfarlane, Robert J; Leung, Cheuk-Yui; Olvera de la Cruz, Monica; Mirkin, Chad A; Bedzyk, Michael J

    2013-12-23

    The radial distribution of monovalent cations surrounding spherical nucleic acid-Au nanoparticle conjugates (SNA-AuNPs) is determined by in situ small-angle x-ray scattering (SAXS) and classical density functional theory (DFT) calculations. Small differences in SAXS intensity profiles from SNA-AuNPs dispersed in a series of solutions containing different monovalent ions (Na(+), K(+), Rb(+), or Cs(+)) are measured. Using the "heavy ion replacement" SAXS (HIRSAXS) approach, we extract the cation-distribution-dependent contribution to the SAXS intensity and show that it agrees with DFT predictions. The experiment-theory comparisons reveal the radial distribution of cations as well as the conformation of the DNA in the SNA shell. The analysis shows an enhancement to the average cation concentration in the SNA shell that can be up to 15-fold, depending on the bulk solution ionic concentration. The study demonstrates the feasibility of HIRSAXS in probing the distribution of monovalent cations surrounding nanoparticles with an electron dense core (e.g., metals).

  13. Study on calculation of rock pressure for ultra-shallow tunnel in poor surrounding rock and its tunneling procedure

    Institute of Scientific and Technical Information of China (English)

    Xiaojun Zhou; Jinghe Wang; Bentao Lin

    2014-01-01

    A computational method of rock pressure applied to an ultra-shallow tunnel is presented by key block theory, and its mathematical formula is proposed according to a mechanical tunnel model with super-shallow depth. Theoretical analysis shows that the tunnel is subject to asymmetric rock pressure due to oblique topography. The rock pressure applied to the tunnel crown and sidewall is closely related to the surrounding rock bulk density, tunnel size, depth and angle of oblique ground slope. The rock pressure applied to the tunnel crown is much greater than that to the sidewalls, and the load applied to the left side-wall is also greater than that to the right sidewall. Mean-while, the safety of the lining for an ultra-shallow tunnel in strata with inclined surface is affected by rock pressure and tunnel support parameters. Steel pipe grouting from ground surface is used to consolidate the unfavorable surrounding rock before tunnel excavation, and the reinforcing scope is proposed according to the analysis of the asymmetric load induced by tunnel excavation in weak rock with inclined ground surface. The tunneling procedure of bench cut method with pipe roof protection is still discussed and carried out in this paper according to the special geological condition. The method and tunneling procedure have been successfully utilized to design and drive a real expressway tunnel. The practice in building the super-shallow tunnel has proved the feasibility of the calculation method and tunneling procedure presented in this paper.

  14. Future Road Density

    Data.gov (United States)

    U.S. Environmental Protection Agency — Road density is generally highly correlated with amount of developed land cover. High road densities usually indicate high levels of ecological disturbance. More...

  15. Crowding and Density

    Science.gov (United States)

    Design and Environment, 1972

    1972-01-01

    Three-part report pinpointing problems and uncovering solutions for the dual concepts of density (ratio of people to space) and crowding (psychological response to density). Section one, A Primer on Crowding,'' reviews new psychological and social findings; section two, Density in the Suburbs,'' shows conflict between status quo and increased…

  16. Utilizing NASA Earth Observations to Model Volcanic Hazard Risk Levels in Areas Surrounding the Copahue Volcano in the Andes Mountains

    Science.gov (United States)

    Keith, A. M.; Weigel, A. M.; Rivas, J.

    2014-12-01

    Copahue is a stratovolcano located along the rim of the Caviahue Caldera near the Chile-Argentina border in the Andes Mountain Range. There are several small towns located in proximity of the volcano with the two largest being Banos Copahue and Caviahue. During its eruptive history, it has produced numerous lava flows, pyroclastic flows, ash deposits, and lahars. This isolated region has steep topography and little vegetation, rendering it poorly monitored. The need to model volcanic hazard risk has been reinforced by recent volcanic activity that intermittently released several ash plumes from December 2012 through May 2013. Exposure to volcanic ash is currently the main threat for the surrounding populations as the volcano becomes more active. The goal of this project was to study Copahue and determine areas that have the highest potential of being affected in the event of an eruption. Remote sensing techniques were used to examine and identify volcanic activity and areas vulnerable to experiencing volcanic hazards including volcanic ash, SO2 gas, lava flow, pyroclastic density currents and lahars. Landsat 7 Enhanced Thematic Mapper Plus (ETM+), Landsat 8 Operational Land Imager (OLI), EO-1 Advanced Land Imager (ALI), Terra Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER), Shuttle Radar Topography Mission (SRTM), ISS ISERV Pathfinder, and Aura Ozone Monitoring Instrument (OMI) products were used to analyze volcanic hazards. These datasets were used to create a historic lava flow map of the Copahue volcano by identifying historic lava flows, tephra, and lahars both visually and spectrally. Additionally, a volcanic risk and hazard map for the surrounding area was created by modeling the possible extent of ash fallout, lahars, lava flow, and pyroclastic density currents (PDC) for future eruptions. These model results were then used to identify areas that should be prioritized for disaster relief and evacuation orders.

  17. Gene therapy: An overview

    Directory of Open Access Journals (Sweden)

    Sudip Indu

    2013-01-01

    Full Text Available Gene therapy "the use of genes as medicine" involves the transfer of a therapeutic or working copy of a gene into specific cells of an individual in order to repair a faulty gene copy. The technique may be used to replace a faulty gene, or to introduce a new gene whose function is to cure or to favorably modify the clinical course of a condition. The objective of gene therapy is to introduce new genetic material into target cells while causing no damage to the surrounding healthy cells and tissues, hence the treatment related morbidity is decreased. The delivery system includes a vector that delivers a therapeutic gene into the patient′s target cell. Functional proteins are created from the therapeutic gene causing the cell to return to a normal stage. The vectors used in gene therapy can be viral and non-viral. Gene therapy, an emerging field of biomedicine, is still at infancy and much research remains to be done before this approach to the treatment of condition will realize its full potential.

  18. Numerical Analysis of Advanced Displacement in Construction Progress of Tunnel Excavation with Weak Surrounding Rock

    Directory of Open Access Journals (Sweden)

    Qian Zhang

    2013-07-01

    Full Text Available Analysis of advanced displacement in construction progress of tunnel excavation with weak surrounding rock is carried out by numerical method and comparison of model test result. In allusion to the problems of regional landslides and extruded large-deformation seriously impacting the stability of rock mass in construction process of large-section tunnel with weak surrounding rock, the elastic-plastic numerical simulation relying on Liangshui tunnel of Lan-Yu railroad is conducted on mechanical behaviors and deformation steric effect of tunnel construction and the calculation results are compared with the modeling data. The research results show that: the steric effect of excavation face is the dominant factor in the incidence of working face and the stress of surrounding rocks gradually releases from excavation face; the range of 0.5~1 times the cave diameter around rock mass in front of working face is the disturbance range and the key area of stabilization and reinforcement for wake surrounding rock. According to the analysis and construction practice, the supporting structure of large-section tunnel with weak surrounding rock should be established as soon as possible to control the displacement change of surrounding rock in the range of load-bearing ring, reduce disturbance and improve the self-bearing capability of surrounding rock. Because of the distinct excavation steric effect of weak surrounding rock, the secondary lining structure must be established in time to bear the later pressure and restrict the large displacement of surrounding rock. The research results can provide reliable basis for engineering stability control of analogous tunnels.

  19. Surrounding Risks

    Directory of Open Access Journals (Sweden)

    Mogens Steffensen

    2013-05-01

    Full Text Available Research in insurance and finance was always intersecting although they were originally and generally viewed as separate disciplines. Insurance is about transferring risks between parties such that the burdens of risks are borne by those who can. This makes insurance transactions a beneficial activity for the society. It calls on detection, modelling, valuation, and controlling of risks. One of the main sources of control is diversification of risks and in that respect it becomes an issue in itself to clarify diversifiability of risks. However, many diversifiable risks are not, by nature or by contract design, separable from non-diversifiable risks that are, on the other hand, sometimes traded in financial markets and sometimes not. A key observation is that the economic risk came before the insurance contract: Mother earth destroys and kills incidentally and mercilessly, but the uncertainty of economic consequences can be more or less cleverly distributed by the introduction of an insurance market.

  20. Analytical Modeling of Electric Field Distribution in Dual Material Junctionless Surrounding Gate MOSFETs

    Directory of Open Access Journals (Sweden)

    P. Suveetha Dhanaselvam

    2014-10-01

    Full Text Available In this paper, electric field distribution of the junctionless dual material surrounding gate MOSFETs (JLDMSG is developed. Junctionless is a device that has similar characteristics like junction based devices, but junctionless has a positive flatband voltage with zero electric field. In Surrounding gate MOSFETs gate material surrounds the channel in all direction , therefore it can overcome the short channel effects effectively than other devices. In this paper, surface potential and electric field distribution is modelled. The proposed surface potential model is compared with the existing central potential model. It is observed that the short channel effects (SCE is reduced and the performance is better than the existing method.

  1. Propulsion Physics Under the Changing Density Field Model

    Science.gov (United States)

    Robertson, Glen A.

    2011-01-01

    To grow as a space faring race, future spaceflight systems will requires new propulsion physics. Specifically a propulsion physics model that does not require mass ejection without limiting the high thrust necessary to accelerate within or beyond our solar system and return within a normal work period or lifetime. In 2004 Khoury and Weltman produced a density dependent cosmology theory they called Chameleon Cosmology, as at its nature, it is hidden within known physics. This theory represents a scalar field within and about an object, even in the vacuum. Whereby, these scalar fields can be viewed as vacuum energy fields with definable densities that permeate all matter; having implications to dark matter/energy with universe acceleration properties; implying a new force mechanism for propulsion physics. Using Chameleon Cosmology, the author has developed a new propulsion physics model, called the Changing Density Field (CDF) Model. This model relates to density changes in these density fields, where the density field density changes are related to the acceleration of matter within an object. These density changes in turn change how an object couples to the surrounding density fields. Whereby, thrust is achieved by causing a differential in the coupling to these density fields about an object. Since the model indicates that the density of the density field in an object can be changed by internal mass acceleration, even without exhausting mass, the CDF model implies a new propellant-less propulsion physics model

  2. Determining the effects of microsphere and surrounding material composition on {sup 90}Y dose kernels using egsnrc and mcnp5

    Energy Technology Data Exchange (ETDEWEB)

    Paxton, Adam B.; Davis, Stephen D.; DeWerd, Larry A. [Department of Medical Physics, University of Wisconsin-Madison, Madison, Wisconsin 53705 (United States); Department of Medical Physics, University of Wisconsin-Madison, Madison, Wisconsin 53705 and McGill University Health Centre, Department of Medical Physics, Montreal, Quebec H3G 1A4 (Canada); Department of Medical Physics, University of Wisconsin-Madison, Madison, Wisconsin 53705 (United States)

    2012-03-15

    Purpose: Recent advances in the imaging of {sup 90}Y using positron emission tomography (PET) and improved uncertainty in the branching ratio for the internal pair production component of {sup 90}Y decay allow for a more accurate determination of the activity distribution of {sup 90}Y microspheres within a patient. This improved activity distribution can be convolved with the dose kernel of {sup 90}Y to calculate the dose distribution within a patient. This work investigates the effects of microsphere and surrounding material composition on {sup 90}Y dose kernels using egsnrc and mcnp5 and compares the results of these two transport codes. Methods: Monte Carlo simulations were performed with egsnrc and mcnp5 to calculate the dose rate at multiple radial distances around various {sup 90}Y sources. Point source simulations were completed with mcnp5 to determine the optimal electron transport settings for this work. After determining the optimal settings, point source simulations were completed using egsnrc (user code edknrc) and mcnp5 in water and liver [as defined by the International Commission on Radiation Units and Measurements (ICRU) Report 44]. The results were compared to ICRU Report 72 reference data. Point source simulations were also completed in water with a density of 1.06 g{center_dot}cm{sup -3} to evaluate the effect of the density of the surrounding material. Glass and resin microsphere simulations were performed with average and maximum diameter and density values (based on values given in the literature) in water and in liver. The results were compared to point source simulation results using the same transport code and in the same surrounding material. All simulations had statistical uncertainties less than 1%. Results: The optimal transport settings in mcnp5 for this work included using the energy-and step-specific algorithm (DBCN 17J 2) and ESTEP set to 10. These settings were used for all subsequent simulations with mcnp5. The point source

  3. Probability densities and Lévy densities

    DEFF Research Database (Denmark)

    Barndorff-Nielsen, Ole Eiler

    For positive Lévy processes (i.e. subordinators) formulae are derived that express the probability density or the distribution function in terms of power series in time t. The applicability of the results to finance and to turbulence is briefly indicated.......For positive Lévy processes (i.e. subordinators) formulae are derived that express the probability density or the distribution function in terms of power series in time t. The applicability of the results to finance and to turbulence is briefly indicated....

  4. Probability densities and Lévy densities

    DEFF Research Database (Denmark)

    Barndorff-Nielsen, Ole Eiler

    For positive Lévy processes (i.e. subordinators) formulae are derived that express the probability density or the distribution function in terms of power series in time t. The applicability of the results to finance and to turbulence is briefly indicated.......For positive Lévy processes (i.e. subordinators) formulae are derived that express the probability density or the distribution function in terms of power series in time t. The applicability of the results to finance and to turbulence is briefly indicated....

  5. The importance of surrounding tissues and window settings for contouring of moving targets

    Energy Technology Data Exchange (ETDEWEB)

    Borm, Kai Joachim [Technische Universitaet Muenchen, Medical School, Munich (Germany); Klinikum rechts der Isar, Technische Universitaet Muenchen, Department of Radiation Oncology, Munich (Germany); Oechsner, Markus; Berndt, Johannes; Combs, Stephanie Elisabeth; Molls, Michael; Duma, Marciana Nona [Klinikum rechts der Isar, Technische Universitaet Muenchen, Department of Radiation Oncology, Munich (Germany)

    2015-09-15

    The aim of the study was to assess the importance of surrounding tissues for the delineation of moving targets in tissue-specific phantoms and to find optimal settings for lung, soft tissue, and liver tumors. Tumor movement was simulated by a water-filled table tennis ball (target volume, TV). Three phantoms were created: corkboards to simulate lung tissue (lung phantom, LunPh), animal fat as fatty soft tissue (fatty tissue phantom, FatPh), and water enhanced with contrast medium as the liver tissue (liver phantom, LivPh). Slow planning three-dimensional compute tomography images (3D-CTs) were acquired with and without phantom movements. One-dimensional tumor movement (1D), three-dimensional tumor movement (3D), as well as a real patient's tumor trajectories were simulated. The TV was contoured using two lung window settings, two soft-tissue window settings, and one liver window setting. The volumes were compared to mathematical calculated values. TVs were underestimated in all phantoms due to movement. The use of soft-tissue windows in the LivPh led to a significantunderestimation of the TV (70.8 % of calculated TV). When common window settings [LunPh + 200 HU/-1,000 HU (upper window/lower window threshold); FatPh: + 240 HU/-120 HU; LivPh: + 175 HU/+ 50 HU] were used, the contoured TVs were: LivPh, 84.0 %; LunPh, 93.2 %, and FatPh, 92.8 %. The lower window threshold had a significant impact on the size of the delineated TV, whereas changes of the upper threshold led only to small differences. The decisive factor for window settings is the lower window threshold (for adequate TV delineation in the lung and fatty-soft tissue it should be lower than density values of surrounding tissue). The use of a liver window should be considered. (orig.) [German] Das Ziel dieser Arbeit war es, den Einfluss des umgebenden Gewebes auf die Konturierung bewegter Objekte zu untersuchen. Um die optimalen CT-Fensterungen fuer Lungen-, Weichteil- und Lebertumoren zu bestimmen

  6. Differential expression of genes in endothelial cells induced by mildly modified low density lipoprotein%轻度修饰低密度脂蛋白诱导内皮细胞基因差异的表达

    Institute of Scientific and Technical Information of China (English)

    张凤珍; 张媛英; 翟静; 孙凌云; 蒋汉明; 顾洪雁

    2005-01-01

    BACKGROUND: It is indicated in research that mildly modified low density lipoprotein (mm-LDL) is related to atherogenesis and it not only stores LDL and provides very strong biological activity, but also expresses many kinds of bioactive substances, like macrophage colony stimulating factor (MCSF) induced in cell culture and in animal body.OBJECTIVE: Differential display-PCR (DD-PCR) technique is used to study the genetic expressed difference in mm-LDL inducing vascular endothelial cells so as to lay the foundation for further explanation of the relationship between mm-LDL and arteriosclerosis.DESIGN: Repeated measurement was designed.SETTING: Taishan Medical College.MATERIALS: The experiment was performed in Basic Institute of Taishan Medical College from July 2003 to July 2004. Medium of human umbilical vein endothelial cells (HUVECs) was M199. Culture was done at 37 ℃, in 50 mL/L CO2. When cells grew to the fusion state, mm-LDL was added in the medium to the terminal concentration of 400 mg/L and then,induction was followed in 30 hours.METHODS: DD- reverse transcription (RT)-PCR technique was used to analyze genetic expression difference of human vascular endothelial cells induced with mm-LDL and reverse Northern analysis was performed to testify DD genetic fragments.mRNA in liver of mice.RESULTS: Human vascular endothelial cells induced with inm-LDL displayed some up and down-regulated genetic fragments. Up-regulated genes included thymosin 34, FGFRI protooncogene-chaperone protein, FK506 binding protein, rTSβ protein and intercellular adhesion molecule-1 (Ⅰ-CAM-1). Down-regulated genes included Apo bec-1 binding protein-l, cytochromeB561 and ERP72.CONCLUSION: DDRT-PCR testifies that mm-LDL induces changes of some genetic expression of human umbilicus vein endothelial cells in vitro and pathological changes of mm-LDL vascular endothelial cells, terminally results in atherogenesis.%背景研究表明,轻度修饰低密度脂蛋白与动脉粥样硬化的

  7. Stresses and Shear Fracture Zone of Jinshazhou Tunnel Surrounding Rock in Rich Water Region

    Institute of Scientific and Technical Information of China (English)

    ZHENG Jun-jie; LOU Xiao-ming

    2008-01-01

    Field evidence has shown that large-scale and unstable discontinuous planes in the rock mass surrounding tunnels in rich water region are probably generated after excavation. The tunnel surrounding rock was divided into three zones, including elastic zone, plastic damage zone and shear fracture zone fof assessing the stability of the tunnel surrounding rock. By local hydrogeology, the stresses of surrounding rock of Jinshazhou circular tunnel was analyzed and the stress solutions on the elastic and plastic damage zones were obtained by applying the theories of fluid-solid coupling and elasto-plastic damage mechanics. The shear fracture zone generated by joints was studied and its range was determined by using Mohr-Coulomb strength criterion. Finally, the correctness of the theoretical results was validated by comparing the scopes of shear fracture zones calculated in this paper with those from literature.

  8. Analysis of nonlinear dynamic character in the surrounding rock system for deep buried underground engineering

    Institute of Scientific and Technical Information of China (English)

    ZHAO Yu; PENG Hai-you

    2010-01-01

    Combining the field monitoring results of a deep-buried tunnel in Chongqing,the dynamic characteristics of the surrounding rock system under high in situ stress was analyzed by phase space reconstruction, calculating correlation dimension, Kolmogorov entropy and largest Lyapunov exponents. Both the Kolmogorov entropy and largest Lyapunov exponents show that the surrounding rock system is a chaotic one. Based on this, a local model was applied to predict surrounding rock displacement, and a nonlinear dynamic model was derived to forecast the interaction of the surrounding rock and support structure. The local method was found to have an extremely small total error. Also, the nonlinear dynamic model forecasting curves agree with the monitoring ones very well. It is proved that the nonlinear dynamic characteristic study is very important in analyzing rock stability and predicting the evolution of rock systems.

  9. The relation between residential property and its surroundings and day- and night-time residential burglary

    NARCIS (Netherlands)

    Montoya, Lorena; Junger, Marianne; Ongena, Yfke

    2016-01-01

    This article examines how residential property and its surroundings influence day- and night-time residential burglary. Crime Prevention Through Environmental Design (CPTED) principles of territoriality, surveillance, access control, target hardening, image maintenance, and activity support underpin

  10. Effect of surface contamination on osseointegration of dental implants surrounded by circumferential bone defects.

    LENUS (Irish Health Repository)

    Mohamed, Seif

    2010-05-01

    This study was designed to evaluate the effect of surface contamination on osseointegration of dental implants surrounded by a circumferential bone defect and to compare osseointegration around Osseotite with that around Nanotite implants.

  11. Particulate capture efficiency of a vegetative environmental buffer surrounding an animal feeding operation

    Science.gov (United States)

    Particulate matter emitted from tunnel-ventilated animal feeding operations (AFOs) is known to transport malodorous compounds. As a mitigation strategy, vegetative environmental buffers (VEBs) are often installed surrounding AFOs to capture particulates and induce lofting and dispersion. Currently, ...

  12. Hurricane Gustav Aerial Photography: Rapid ResponseImagery of the Surrounding Regions After Landfall

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The imagery posted on this site is of the surrounding regionsafter Hurricane Gustav made landfall. The aerial photography missions wereconducted by the NOAA Remote...

  13. Hurricane Dennis Aerial Photography: Draft Image Mosaics of the Florida Panhandle and Surrounding Regions After Landfall

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The imagery posted on this site is of the Florida panhandle and surrounding regions after Hurricane Dennis made landfall. The regions photographed range from...

  14. Review of roadway control in soft surrounding rock under dynamic pressure

    Institute of Scientific and Technical Information of China (English)

    侯朝炯

    2003-01-01

    The basic characteristics of the soft rock roadway under the dynamic pressure are analyzed. At the same time, the three fundamental approaches for controlling the surrounding rock are proposed, which are improving the surrounding rock strength, lowering the rock mass stress and selecting the reasonable supporting technology. The research results are elucidated, including the distribution of the surrounding rock plastic zone, the movement and damage of the surrounding rock under the dynamic pressure, controlling the floor heave through reinforcing the roadway walls and corners, the new route to develop the roadway metal supporting technique, the key theory and technique for the bolt supporting in the coal roadway, the performance and prospect of the ZKD high-water-content quick-setting material, and so on. Finally, some personally views are put forward about the roadway metal supporting, bolt supporting, new material and the stress-relief under the high stress condition.

  15. Targeting Alzheimer's disease by investigating previously unexplored chemical space surrounding the cholinesterase inhibitor donepezil

    CSIR Research Space (South Africa)

    Van Greunen, DG

    2017-02-01

    Full Text Available A series of twenty seven acetylcholinesterase inhibitors, as potential agents for the treatment of Alzheimer's disease, were designed and synthesised based upon previously unexplored chemical space surrounding the molecular skeleton of the drug...

  16. Hurricane Ike Aerial Photography: Rapid ResponseImagery of the Surrounding Regions After Landfall

    Data.gov (United States)

    National Oceanic and Atmospheric Administration, Department of Commerce — The imagery posted on this site is of the surrounding regionsafter Hurricane Ike made landfall. The aerial photography missions wereconducted by the NOAA Remote...

  17. Modelling of the effect of discontinuities on the extent of the fracture zone surrounding deep tunnels

    CSIR Research Space (South Africa)

    Sellers, EJ

    2000-10-01

    Full Text Available A series of physical and numerical model tests were performed to investigate the behaviour of the rock surrounding circular excavations under high confining pressures. The aim was to provide information on the formation of fractures around deep...

  18. Site Cleanup of Radioactive Isotope Container Rinsing Pool and Surrounding Environment

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    Radioactive isotope container rinsing pool and surrounding environmental site was a place of fabrication of container, and package, transportation and storage of radioactive isotopes. A heavy contamination existed in this area for burying of some radioactive wastes.

  19. Reduced visual surround suppression in schizophrenia shown by measuring contrast detection thresholds

    Science.gov (United States)

    Serrano-Pedraza, Ignacio; Romero-Ferreiro, Verónica; Read, Jenny C. A.; Diéguez-Risco, Teresa; Bagney, Alexandra; Caballero-González, Montserrat; Rodríguez-Torresano, Javier; Rodriguez-Jimenez, Roberto

    2014-01-01

    Visual perception in schizophrenia is attracting a broad interest given the deep knowledge that we have about the visual system in healthy populations. One example is the class of effects known collectively as visual surround suppression. For example, the visibility of a grating located in the visual periphery is impaired by the presence of a surrounding grating of the same spatial frequency and orientation. Previous studies have suggested abnormal visual surround suppression in patients with schizophrenia. Given that schizophrenia patients have cortical alterations including hypofunction of NMDA receptors and reduced concentration of GABA neurotransmitter, which affect lateral inhibitory connections, then they should be relatively better than controls at detecting visual stimuli that are usually suppressed. We tested this hypothesis by measuring contrast detection thresholds using a new stimulus configuration. We tested two groups: 21 schizophrenia patients and 24 healthy subjects. Thresholds were obtained using Bayesian staircases in a four-alternative forced-choice detection task where the target was a grating within a 3∘ Butterworth window that appeared in one of four possible positions at 5∘ eccentricity. We compared three conditions, (a) target with no-surround, (b) target embedded within a surrounding grating of 20∘ diameter and 25% contrast with same spatial frequency and orthogonal orientation, and (c) target embedded within a surrounding grating with parallel (same) orientation. Previous results with healthy populations have shown that contrast thresholds are lower for orthogonal and no-surround (NS) conditions than for parallel surround (PS). The log-ratios between parallel and NS thresholds are used as an index quantifying visual surround suppression. Patients performed poorly compared to controls in the NS and orthogonal-surround conditions. However, they performed as well as controls when the surround was parallel, resulting in significantly

  20. Camouflaging in a Complex Environment—Octopuses Use Specific Features of Their Surroundings for Background Matching

    OpenAIRE

    Noam Josef; Piero Amodio; Graziano Fiorito; Nadav Shashar

    2012-01-01

    Living under intense predation pressure, octopuses evolved an effective and impressive camouflaging ability that exploits features of their surroundings to enable them to "blend in." To achieve such background matching, an animal may use general resemblance and reproduce characteristics of its entire surroundings, or it may imitate a specific object in its immediate environment. Using image analysis algorithms, we examined correlations between octopuses and their backgrounds. Field experiment...

  1. Low-energy neutron flux measurement using a resonance absorption filter surrounding a lithium glass scintillator

    Science.gov (United States)

    Ghal-Eh, N.; Koohi-Fayegh, R.; Hamidi, S.

    2007-06-01

    The resonance absorption filter technique has been used to determine the thermal/epithermal neutron flux. The main idea in this technique is to use an element with a high and essentially singular resonance in the neutron absorption cross section as a filter surrounding a miniature-type lithium glass scintillator. The count with and without the filter surrounding the detector gives the number of resonance-energy neutrons. Some preliminary results and a comparison with the MCNP code are shown.

  2. P1-13: Color Induction from Surround Color under Interocular Suppression

    Directory of Open Access Journals (Sweden)

    Ichiro Kuriki

    2012-10-01

    Full Text Available The effect of surround colors on color appearance is known to subserve color constancy in humans, but how multiple mechanisms in the visual system are involved in this effect is controversial. We used an interocular-suppression technique to examine how the effect occurs at the level higher than the interaction of binocular information. A test color chip (1.7 × 1.7 deg visual angle was presented in a static surround either with continuous-flash suppression in the dominant eye (CFS condition to make the surround inperceptible or without the suppression (no-CFS condition. The surround stimulus was either a Mondrian or a uniform field of the same mean chromaticity. Stimuli were simulated OSA color chips under red, white (D65, or green illuminant color and were presented on a CRT display. Unique yellows were measured by asking the subjects to judge whether the test stimulus appeared reddish or greenish. Two sizes of the surround stimuli (widths of 1 deg and 4 deg were used. Results showed significant shifts in unique yellow even under the CFS conditions, except for the 1 deg uniform-surround condition. Under the no-CFS condition, the shifts showed remarkable difference between subjects, except for the 4 deg Mondrian-surround condition. Interestingly, trends of the shifts showed high consistency within each subject, across conditions. These results indicate that mechanisms at both higher and lower levels than the neuronal site of interocular suppression are involved, and that the color shifts follow each subject's strategy in the higher-order mechanisms when only insufficient clues are available in the surround to estimate illuminant color.

  3. Primetime for Learning Genes

    Science.gov (United States)

    Keifer, Joyce

    2017-01-01

    Learning genes in mature neurons are uniquely suited to respond rapidly to specific environmental stimuli. Expression of individual learning genes, therefore, requires regulatory mechanisms that have the flexibility to respond with transcriptional activation or repression to select appropriate physiological and behavioral responses. Among the mechanisms that equip genes to respond adaptively are bivalent domains. These are specific histone modifications localized to gene promoters that are characteristic of both gene activation and repression, and have been studied primarily for developmental genes in embryonic stem cells. In this review, studies of the epigenetic regulation of learning genes in neurons, particularly the brain-derived neurotrophic factor gene (BDNF), by methylation/demethylation and chromatin modifications in the context of learning and memory will be highlighted. Because of the unique function of learning genes in the mature brain, it is proposed that bivalent domains are a characteristic feature of the chromatin landscape surrounding their promoters. This allows them to be “poised” for rapid response to activate or repress gene expression depending on environmental stimuli. PMID:28208656

  4. Primetime for Learning Genes.

    Science.gov (United States)

    Keifer, Joyce

    2017-02-11

    Learning genes in mature neurons are uniquely suited to respond rapidly to specific environmental stimuli. Expression of individual learning genes, therefore, requires regulatory mechanisms that have the flexibility to respond with transcriptional activation or repression to select appropriate physiological and behavioral responses. Among the mechanisms that equip genes to respond adaptively are bivalent domains. These are specific histone modifications localized to gene promoters that are characteristic of both gene activation and repression, and have been studied primarily for developmental genes in embryonic stem cells. In this review, studies of the epigenetic regulation of learning genes in neurons, particularly the brain-derived neurotrophic factor gene (BDNF), by methylation/demethylation and chromatin modifications in the context of learning and memory will be highlighted. Because of the unique function of learning genes in the mature brain, it is proposed that bivalent domains are a characteristic feature of the chromatin landscape surrounding their promoters. This allows them to be "poised" for rapid response to activate or repress gene expression depending on environmental stimuli.

  5. Deformation characteristics of surrounding rock of broken and soft rock roadway

    Energy Technology Data Exchange (ETDEWEB)

    Jin-xi Wang; Ming-yue Lin; Duan-xin Tian; Cun-liang Zhao [Hebei University of Engineering, Handan (China)

    2009-03-15

    A similar material model and a numerical simulation were constructed and are described. The deformation and failure of surrounding rock of broken and soft roadway are studied by using these models. The deformation of the roof and floor, the relative deformation of the two sides and the deformation of the deep surrounding rock are predicted using the model. Measurements in a working mine are compared to the results of the models. The results show that the surrounding rock shows clear rheological features under high stress conditions. Deformation is unequally distributed across the whole section. The surrounding rock exhibited three deformation stages: displacement caused by stress concentration, rheological displacement after the digging effects had stabilized and displacement caused by supporting pressure of the roadway. Floor heave was serious, accounting for 65% of the total deformation of the roof and floor. Floor heave is the main reason for failure of the surrounding rock. The reasons for deformation of the surrounding rock are discussed based on the similar material and numerical simulations. 12 refs., 4 figs., 3 tabs.

  6. Preictal and ictal neurovascular and metabolic coupling surrounding a seizure focus.

    Science.gov (United States)

    Zhao, Mingrui; Nguyen, John; Ma, Hongtao; Nishimura, Nozomi; Schaffer, Chris B; Schwartz, Theodore H

    2011-09-14

    Epileptic events initiate a large focal increase in metabolism and cerebral blood flow (CBF) to the ictal focus. In contrast, decreases in CBF have been demonstrated surrounding the focus, the etiology of which is unknown (i.e., arising either from active shunting of blood or passive steal). The relationship between these events and neuronal activity and metabolism are also unknown. We investigated neurovascular and neurometabolic coupling in the ictal surround using optical imaging of light scattering and cerebral blood volume, autofluorescence flavoprotein imaging (AFI), direct measurements of the cortical metabolic rate of oxygen and two-photon imaging of blood vessel diameter in a rat model of ictal events elicited with focal injection of 4-aminopyridine. We discovered a novel phenomenon, in which ictal events are preceded by preictal vasoconstriction of blood vessels in the surround, occurring 1-5 s before seizure onset, which may serve to actively shunt oxygenated blood to the imminently hypermetabolic focus or may be due to small local decreases in metabolism in the surround. Early ictal hypometabolism, transient decreases in cell swelling and cerebral blood volume in the surround are consistent with early ictal surround inhibition as a precipitating event in seizure onset as well as shaping the evolving propagating ictal wavefront, although the exact mechanism of these cerebrovascular and metabolic changes is currently unknown. AFI was extremely sensitive to the ictal onset zone and may be a useful mapping technique with clinical applications.

  7. Fovea-periphery axis symmetry of surround modulation in the human visual system.

    Directory of Open Access Journals (Sweden)

    Lauri Nurminen

    Full Text Available A visual stimulus activates different sized cortical area depending on eccentricity of the stimulus. Here, our aim is to understand whether the visual field size of a stimulus or cortical size of the corresponding representation determines how strongly it interacts with other stimuli. We measured surround modulation of blood-oxygenation-level-dependent signal and perceived contrast with surrounds that extended either towards the periphery or the fovea from a center stimulus, centered at 6° eccentricity. This design compares the effects of two surrounds which are identical in visual field size, but differ in the sizes of their cortical representations. The surrounds produced equally strong suppression, which suggests that visual field size of the surround determines suppression strength. A modeled population of neuronal responses, in which all the parameters were experimentally fixed, captured the pattern of results both in psychophysics and functional magnetic resonance imaging. Although the fovea-periphery anisotropy affects nearly all aspects of spatial vision, our results suggest that in surround modulation the visual system compensates for it.

  8. Impact of surrounding tissue on conductance measurement of coronary and peripheral lumen area.

    Science.gov (United States)

    Won Choi, Hyo; Jansen, Benjamin; Zhang, Zhen-Du; Kassab, Ghassan S

    2012-11-07

    Parallel conductance (electric current flow through surrounding tissue) is an important determinant of accurate measurements of arterial lumen diameter, using the conductance method. The present study is focused on the role of non-uniform geometrical/electrical configurations of surrounding tissue, which are a primary source of electric current leakage. Computational models were constructed to simulate the conductance catheter measurement with two different excitation electrodes spacings (i.e. 12 and 20 mm for coronary and peripheral sizing, respectively) for different vessel-tissue configurations: (i) blood vessel fully embedded in muscle tissue, (ii) blood vessel superficially embedded in muscle tissue, and (iii) blood vessel superficially embedded in muscle tissue with fat covering half of the arterial vessel (anterior portion). The simulations suggest that the parallel conductance and accuracy of measurement is dependent on the inhomogeneous/anisotropic configuration of surrounding tissue, including the asymmetric dimension and anisotropy in electrical conductivity of surrounding tissue. Specifically, the measurement was shown to be accurate as long as the vessel was superficial, regardless of the considerable total surrounding tissue dimension for coronary or peripheral arteries. Moreover, it was shown that the unfavourable impact of parallel conductance on the accuracy of conductance catheter measurement is decreased by the combination of a lower transverse electrical conductivity of surrounding muscle tissue, a smaller electrode spacing and a larger lumen diameter. The present findings confirm that the conductance catheter technique provides an accurate platform for sizing of clinically relevant (i.e. superficial and diseased) arteries.

  9. Populations of Transcarpathia and Bukovina on the genetic landscape of surrounding regions

    Directory of Open Access Journals (Sweden)

    O. M. Utevska

    2015-09-01

    Full Text Available The territory of present-day Ukraine is subdivided into some regions with specific demographic and politic history. Nevertheless, the corresponding subdivision in genetic structure is not revealed in previous investigations: populations of Ukrainians under study were genetically homogeneous on SNP markers of Y chromosome. In the current investigation we studied the Y-chromosomal genetic structure of Transcarpathia and Bukovina populations. Several factors exist to expect the genetic specificity of these populations. Both ones are placed in the Carpathian foothills, at the south-western border of the Ukrainian area. During the last millennium these territories were the parts of different states and were open for ethnically diverse migrations. It was revealed that the major Y chromosomal haplogroups in Transcarpathia population were R1a1a1*(М198, I2a (Р37.2, R1a1a1g (М458, E1b1b1a1 (M78. The major haplogroups in Bukovina population were I2a (Р37.2, R1a1a1*(М198, R1a1a1g (М458, R1b1b2 (М269, E1b1b1a1 (M78, I1 (М253. The Bukovina population differs from the typical Ukrainian population by higher frequency of I2a (Р37.2 and lower frequency of R1a1a1*(М198. Moreover, this is the only population among ones studied in Ukraine where the most frequent haplogroup is I2a (Р37.2 but not R1a1a1*(М198. Such a deviation can be caused by possible mixing with neighbouring southern groups, and Carpathian mountains were not a border for exchange in this case. Interestingly, the haplogroup N1c (M178 is not revealed in Transcarpathia at all, obviously due to the mountain barrier. It was revealed by principal component analysis that Ukrainians from Transcarpathia and Bukovina despite some specific peculiarities are more similar to other Ukrainian populations than to the surrounding ethnic groups such as Poles, Slovaks, Hungarians, Romanians, Moldavians and Gagauzes. Ukrainians of Transcarpathia and Bukovina form the entire genetic continuum with the whole

  10. Population Density Modeling Tool

    Science.gov (United States)

    2014-02-05

    194 POPULATION DENSITY MODELING TOOL by Davy Andrew Michael Knott David Burke 26 June 2012 Distribution...MARYLAND NAWCADPAX/TR-2012/194 26 June 2012 POPULATION DENSITY MODELING TOOL by Davy Andrew Michael Knott David Burke...Density Modeling Tool 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) Davy Andrew Michael Knott David Burke 5d. PROJECT NUMBER

  11. Cometary water-group ions in the region surrounding Comet Giacobini-Zinner - Distribution functions and bulk parameter estimates

    Science.gov (United States)

    Staines, K.; Balogh, A.; Cowley, S. W. H.; Richardson, I. G.; Sanderson, T. R.; Tsurutani, B. T.

    1991-01-01

    The bulk parameters (number density and thermal energy density) of cometary water-group ions in the region surrounding Comet Giacobini-Zinner have been derived using data from the EPAS instrument on the ICE spacecraft. The derivation is based on the assumption that the pick-up ion distribution function is isotropic in the frame of the bulk flow, an approximation which has previously been shown to be reasonable within about 400,000 km of the comet nucleus along the spacecraft trajectory. The transition between the pick-up and mass-loaded regions occurs at the cometary shock, which was traversed at a cometocentric distance of about 100,000 km along the spacecraft track. Examination of the ion distribution functions in this region, transformed to the bulk flow frame, indicates the occurrence of a flattened distribution in the vicinity of the local pick-up speed, and a steeply falling tail at speeds above, which may be approximated as an exponential in ion speed.

  12. Polarizable Embedding Density Matrix Renormalization Group.

    Science.gov (United States)

    Hedegård, Erik D; Reiher, Markus

    2016-09-13

    The polarizable embedding (PE) approach is a flexible embedding model where a preselected region out of a larger system is described quantum mechanically, while the interaction with the surrounding environment is modeled through an effective operator. This effective operator represents the environment by atom-centered multipoles and polarizabilities derived from quantum mechanical calculations on (fragments of) the environment. Thereby, the polarization of the environment is explicitly accounted for. Here, we present the coupling of the PE approach with the density matrix renormalization group (DMRG). This PE-DMRG method is particularly suitable for embedded subsystems that feature a dense manifold of frontier orbitals which requires large active spaces. Recovering such static electron-correlation effects in multiconfigurational electronic structure problems, while accounting for both electrostatics and polarization of a surrounding environment, allows us to describe strongly correlated electronic structures in complex molecular environments. We investigate various embedding potentials for the well-studied first excited state of water with active spaces that correspond to a full configuration-interaction treatment. Moreover, we study the environment effect on the first excited state of a retinylidene Schiff base within a channelrhodopsin protein. For this system, we also investigate the effect of dynamical correlation included through short-range density functional theory.

  13. Tomographic imaging beneath Alboran sea and surrounding areas (southern Iberian Peninsula and northern Morocco)

    Science.gov (United States)

    Serrano, I.; Morales, J.

    2009-04-01

    The main aim of this study is to provide a detailed analysis of the structure of the crust and upper mantle below the Iberian Peninsula, Morocco and surrounding regions using the results of global seismic tomography. We have developed a detailed three-dimensional velocity structure of this region to 700-km depth using P-wave arrival times from more than 15,000 local and regional earthquakes and 145 teleseismic events. For teleseismic events we handpicked P-wave arrival times from high-quality original seismograms from 2000 to 2005 belonging to the Andalusian Seismic Network. We also handpicked data from seismic stations belonging to the GSN (Global Seismic Network) and monitored by IRIS. All events are located between 30° and 90° from the seismic networks. This new data set is superior, in terms of both station density and arrival time accuracy, to that used in previous studies because of the higher sensitivity of the seismographs monitored by the new broad band network of the Andalusian Institute of Geophysics. In this study we modified the original tomographic method of Zhao et al. (1992) to combine teleseismic residuals with local and regional earthquake arrival times in tomographic inversions. Several bodies of high P-wave seismic velocity are located between 5 and 15 km depth and the magnetic and gravimetric data indicate superposition of bodies at different depths in this zone with a complex geological structure. Pronounced low-velocity anomalies characterize the upper crust near the Strait of Gibraltar, both in Spain and Morocco, which could be interpreted as a sedimentary basin or crustal deformation in the flysch regions. Two high-velocity anomalies were obtained in the Alboran Sea, the first, located in the middle of the basin could be related to the existence of high density lithologies, while the second, situated in the eastern Rif and trending NE-SW, could be related to the NE-SW trending magnetic anomaly in the eastern Rif. One of the most robust

  14. Density dependent neurodynamics.

    Science.gov (United States)

    Halnes, Geir; Liljenström, Hans; Arhem, Peter

    2007-01-01

    The dynamics of a neural network depends on density parameters at (at least) two different levels: the subcellular density of ion channels in single neurons, and the density of cells and synapses at a network level. For the Frankenhaeuser-Huxley (FH) neural model, the density of sodium (Na) and potassium (K) channels determines the behaviour of a single neuron when exposed to an external stimulus. The features of the onset of single neuron oscillations vary qualitatively among different regions in the channel density plane. At a network level, the density of neurons is reflected in the global connectivity. We study the relation between the two density levels in a network of oscillatory FH neurons, by qualitatively distinguishing between three regions, where the mean network activity is (1) spiking, (2) oscillating with enveloped frequencies, and (3) bursting, respectively. We demonstrate that the global activity can be shifted between regions by changing either the density of ion channels at the subcellular level, or the connectivity at the network level, suggesting that different underlying mechanisms can explain similar global phenomena. Finally, we model a possible effect of anaesthesia by blocking specific inhibitory ion channels.

  15. On density forecast evaluation

    NARCIS (Netherlands)

    Diks, C.

    2008-01-01

    Traditionally, probability integral transforms (PITs) have been popular means for evaluating density forecasts. For an ideal density forecast, the PITs should be uniformly distributed on the unit interval and independent. However, this is only a necessary condition, and not a sufficient one, as

  16. MEASUREMENT OF WHEAT DENSITY

    Institute of Scientific and Technical Information of China (English)

    冯跟胜; 党金春; 等

    1995-01-01

    A method used for on line determining the change of wheat density with a automatic watering machine in a lqarge flour mill has been studied.The results show that the higher distinguishing ability is obtained when using 241Am as a γ-ray source for measuring the wheat density than using 137Cs.

  17. Learning Grasp Affordance Densities

    DEFF Research Database (Denmark)

    Detry, Renaud; Kraft, Dirk; Kroemer, Oliver

    2011-01-01

    We address the issue of learning and representing object grasp affordance models. We model grasp affordances with continuous probability density functions (grasp densities) which link object-relative grasp poses to their success probability. The underlying function representation is nonparametric...... and relies on kernel density estimation to provide a continuous model. Grasp densities are learned and refined from exploration, by letting a robot “play” with an object in a sequence of graspand-drop actions: The robot uses visual cues to generate a set of grasp hypotheses; it then executes...... these and records their outcomes. When a satisfactory number of grasp data is available, an importance-sampling algorithm turns these into a grasp density. We evaluate our method in a largely autonomous learning experiment run on three objects of distinct shapes. The experiment shows how learning increases success...

  18. Symmetry energy and density

    CERN Document Server

    Trautmann, Wolfgang; Russotto, Paolo

    2016-01-01

    The nuclear equation-of-state is a topic of highest current interest in nuclear structure and reactions as well as in astrophysics. In particular, the equation-of-state of asymmetric matter and the symmetry energy representing the difference between the energy densities of neutron matter and of symmetric nuclear matter are not sufficiently well constrained at present. The density dependence of the symmetry energy is conventionally expressed in the form of the slope parameter L describing the derivative with respect to density of the symmetry energy at saturation. Results deduced from nuclear structure and heavy-ion reaction data are distributed around a mean value L=60 MeV. Recent studies have more thoroughly investigated the density range that a particular observable is predominantly sensitive to. Two thirds of the saturation density is a value typical for the information contained in nuclear-structure data. Higher values exceeding saturation have been shown to be probed with meson production and collective ...

  19. Influence of Surrounding Acupuncture by Cranial MRI Location on Blood Rheology in Apoplectic Patients

    Institute of Scientific and Technical Information of China (English)

    JIANG Gang-hui; LI Yan-hui; ZHUANG Zi-qi; HUANG Yong; LI Jian-ping; HUANG Guo-qi

    2003-01-01

    Purpose: To study the function of surrounding acupuncture located by cranial MRI on apoplexy. Method: Forty cases of the patients diagnosed as cerebral infarction were divided into the group of surrounding acupuncture by MRI location and the group of traditional scalp acupuncture, 20 cases in each group,and were treated respectively with surrounding acupunc -ture by MRI location and traditional scalp acupuncture,to determine the indexes of blood rheology before and after treatments. Results: There was significant diffe -fence (P<0.01) in comparison of various indexes in blood rheology between the apoplectic patients and healthy adults of same age. In comparison before and after the treatments in the group of surrounding acupunc -ture by MRI location there was significant difference (P<0.01) in various indexes of blood rheology, except ESR and ESR equation K value. In comparison before and after the treatments in the group of traditional scalp acupuncture, there was significant difference (P<0.05) in various indexes of blood rheology, except ESR, sclerosis index and ESR equation K value. Conclusion: The findings indicate that blood becomes thick and flows slowly and resistance increases in blood flow in the apoplectic patients. The two kinds of the needling techniques have an improving function in various indexes of blood rheology in the apoplectic patients and surrounding acupuncture by MRI location was better than traditional scalp acupuncture in improving blood rheology.

  20. Response suppression in v1 agrees with psychophysics of surround masking.

    Science.gov (United States)

    Zenger-Landolt, Barbara; Heeger, David J

    2003-07-30

    When a target stimulus is embedded in a high contrast surround, the target appears reduced in contrast and is harder to detect, and neural responses in visual cortex are suppressed. We used functional magnetic resonance imaging (fMRI) and psychophysics to quantitatively compare these physiological and perceptual effects. Observers performed a contrast discrimination task on a contrast-reversing sinusoidal target grating. The target was either presented in isolation or embedded in a high-contrast surround. While observers performed the task, we also measured fMRI responses as a function of target contrast, both with and without a surround. We found that the surround substantially increased the psychophysical thresholds while reducing fMRI responses. The two data sets were compared, on the basis of the assumption that a fixed response difference is required for correct discrimination, and we found that the psychophysics accounted for 96.5% of the variance in the measured V1 responses. The suppression in visual areas V2 and V3 was stronger, too strong to agree with psychophysics. The good quantitative agreement between psychophysical thresholds and V1 responses suggests V1 as a plausible candidate for mediating surround masking.

  1. Enhancing area surrounding breast carcinoma on MR mammography: comparison with pathological examination

    Energy Technology Data Exchange (ETDEWEB)

    Goethem, M. van; Verslegers, I.; Biltjes, I.; Schepper, A. de [Department of Radiology, University Hospital Antwerp, Wilrijkstraat 10, 2650, Edegem (Belgium); Schelfout, K.; Colpaert, C. [Department of Pathology, University Hospital Antwerp, Antwerpen (Belgium); Kersschot, E. [Department of Radiology, OLV Hospital, Aalst (Belgium); Tjalma, W.A. [Department of Gynaecology and Gynaecological Oncology, University Hospital Antwerp, Antwerpen (Belgium); Weyler, J. [Department of Epidemiology and Social Medicine, University Antwerp, Antwerpen (Belgium)

    2004-08-01

    The enhancing area surrounding breast carcinoma on MR mammography is correlated with findings from pathological examination. We studied 194 patients with breast cancer who underwent preoperative MR mammography. Of all malignant lesions presenting with an enhancing surrounding area on MR mammography, morphologic features including long spicules, a ductal pattern, diffuse enhancement or nodules were evaluated and compared with histopathological examination. A double breast coil was used; we performed a 3D FLASH sequence with contiguous coronal slices of 2 mm, before and after injection of 0.2 mmol/kg GD-DTPA, and subtraction images were obtained. In total, 297 malignant lesions were detected at MR mammography and 101 of them had one or more types of enhancing surrounding area. In 49 of the 53 cancers with long spicules and in 49 of the 55 cancers with surrounding ductal pattern of enhancement, pathological examination showed in situ and/or invasive carcinoma. Multiple nodules adjacent to the carcinoma were seen in 20 patients and corresponded with six cases of invasive and ten cases of ductal in situ carcinoma. A diffuse enhancing area next to a mass was seen in ten patients and consisted of carcinoma in all cases: seven in situ and three invasive carcinomas. Enhancing areas including long spicules, a ductal pattern, noduli, or diffuse enhancement surrounding a carcinoma corresponded with in situ or invasive extension of the carcinoma in 92.5, 89, 80 and 100% of cases, respectively. (orig.)

  2. Stress and deformation analysis on deep surrounding rock at different time stages and its application

    Institute of Scientific and Technical Information of China (English)

    Li Ming; Mao Xianbiao; Yu Yuanlin; Li Kai; Ma Chao; Peng Yan

    2012-01-01

    Based on the characteristics of the deep circular tunnel,the surrounding rock was divided into three regions:the cracked region,the plastic region and the viscoelastic region.The process of rock stress deformation and change was divided into three stages after the roadway excavation.By using the elastic-plastic mechanics theory,the analytical solutions of the surrounding stress and displacement at different stages and the radii of cracked and plastic regions were formulated.We additionally explained the surrounding rock stress and displacement which appeared in practical project.Simultaneously,based on the problem which emerged from a mine in Xuzhou during the excavating process of rock roadway's transport,we got the theoretical solutions for the stress and displacement in the process of rock roadway's excavation and considered that the broken area of rock roadway was largely loosing circle.The results indicate that according to the rheological characteristics of surrounding rock,in the primeval excavation of rock roadway,we should increase the length of anchor bolt and cooperate it with anchor nets cable-U steel supporting frame.In addition,when the deformation rate of the surrounding rock is descending after the 15 days' excavation,we should use the "three anchor" supporting method (anchor bolt spray,anchor note and anchor rope) and set aside about 20 cm as the reserved deformation layer.

  3. Cooperatively surrounding control for multiple Euler-Lagrange systems subjected to uncertain dynamics and input constraints

    Science.gov (United States)

    Chen, Liang-Ming; Lv, Yue-Yong; Li, Chuan-Jiang; Ma, Guang-Fu

    2016-12-01

    In this paper, we investigate cooperatively surrounding control (CSC) of multi-agent systems modeled by Euler-Lagrange (EL) equations under a directed graph. With the consideration of the uncertain dynamics in an EL system, a backstepping CSC algorithm combined with neural-networks is proposed first such that the agents can move cooperatively to surround the stationary target. Then, a command filtered backstepping CSC algorithm is further proposed to deal with the constraints on control input and the absence of neighbors’ velocity information. Numerical examples of eight satellites surrounding one space target illustrate the effectiveness of the theoretical results. Project supported by the National Basic Research Program of China (Grant No. 2012CB720000) and the National Natural Science Foundation of China (Grant Nos. 61304005 and 61403103).

  4. Macro mechanical parameters' size effect of surrounding rock of Shuibuya project's underground power station

    Institute of Scientific and Technical Information of China (English)

    GUO Zhi-hua; ZHOU Chuang-bing; ZHOU Huo-ming; SHENG Qian; LENG Xian-lun

    2005-01-01

    Scale effect is one of the important aspects in the macro mechanical parameters' research of rock mass, from a new point of view, by means of lab and field rock mechanics test, establishment of E~Vp relation, classification of engineering rock mass, numerical simulation test and back analysis based on surrounding rock's displacement monitoring results of Shuibuya Project's underground power station, rock mass deformation module's size effect of surrounding rock of Shuibuya Project's undegroud power station was studied. It's shown that rock mass deformation module's scale effect of surrounding rock of Shuibuya Project's undeground power station is obvious, the rock mass deformation module to tranquilization is 20% of intact rock's. Finally the relation between rock mass deformation modules and the scale of research was established.

  5. Idea of tourist management of the Radojewo palace park and surrounding areas

    Directory of Open Access Journals (Sweden)

    Agata Mikołajczak

    2013-06-01

    Full Text Available The aim of the study was to create a proper tourist trails in the palace park in Radojewo and surrounding areas, according to protected areas requirements, local space management plan, as well as with harmony with natural and landscape values. The ecotourism was found as the only possible kind of tourism in this area. The present areas management is not sufficient, hence the proposition of supplementation presented here, such as information tables and small architecture elements. Radojewo and its surroundings are a high tourism potential areas. The new bicycle trail is proposed in the neighbourhood of the park. It is meant to create a better communication with surrounding areas. Two kinds of pedestrian trails are suggested on the park area together with proper tourist infrastructure. There is also a necessity to assign the palace as a historical object.

  6. ANALYSIS ON INCREMENTAL COHESION OF SURROUNDING ROCK DUE TO PRESTRESSED CABLE ANCHOR

    Institute of Scientific and Technical Information of China (English)

    夏建中; 闫莫明; 滕年保; 李方政

    1998-01-01

    A new method for determining the incremental cohesion △Cm of surrounding rock due toprestressed cable anchor is presented, and the formulas for △Cm are deduced and ACredistributions also are discussed, based on the two anchorage effects, one is the effect with theprestressed value △Q3 of cable anchor improving the stress state of surrounding rock andincreasing the surrounding rock strength, the other is the fully encapsulated effect. Thedetermined incremental cohesion △Cm is subjected to the model test and field measurement in thereferences, and coincides well with those tested results. The formulas for △Cm can be used indesigning supoport parameters and related numerical analyses of prestressed cable anchor.

  7. Confronting, Confirming, and Dispelling Myths Surrounding ERP-in-the-Cloud

    DEFF Research Database (Denmark)

    Beaulieu, Tanya; C. Martin, Todd; Sarker, Saonee

    2015-01-01

    on the topic, there is substantial uncertainty surrounding the benefits and challenges of ERP cloud computing. Consequently, as often is the case with new technologies, popular myths surrounding the technology are used to make adoption and implementation decisions. As a first step toward providing an informed...... with stakeholders related to an ERP cloud-based solution. Our results dispel some of the myths, while supporting others, and highlight how ERP vendors work around the different types of challenges surrounding this technology. Our study also helps understand the benefits of ERP cloud computing, and informs about how...... cloud-based ERP systems will free organizations from the information system “iron cage” and lead to agile organizations....

  8. Context-Adaptive Arithmetic Coding Scheme for Lossless Bit Rate Reduction of MPEG Surround in USAC

    Science.gov (United States)

    Yoon, Sungyong; Pang, Hee-Suk; Sung, Koeng-Mo

    We propose a new coding scheme for lossless bit rate reduction of the MPEG Surround module in unified speech and audio coding (USAC). The proposed scheme is based on context-adaptive arithmetic coding for efficient bit stream composition of spatial parameters. Experiments show that it achieves the significant lossless bit reduction of 9.93% to 12.14% for spatial parameters and 8.64% to 8.96% for the overall MPEG Surround bit streams compared to the original scheme. The proposed scheme, which is not currently included in USAC, can be used for the improved coding efficiency of MPEG Surround in USAC, where the saved bits can be utilized by the other modules in USAC.

  9. Motion detection, noise reduction, texture suppression, and contour enhancement by spatiotemporal Gabor filters with surround inhibition.

    Science.gov (United States)

    Petkov, Nicolai; Subramanian, Easwar

    2007-12-01

    We study the orientation and speed tuning properties of spatiotemporal three-dimensional (3D) Gabor and motion energy filters as models of time-dependent receptive fields of simple and complex cells in the primary visual cortex (V1). We augment the motion energy operator with surround suppression to model the inhibitory effect of stimuli outside the classical receptive field. We show that spatiotemporal integration and surround suppression lead to substantial noise reduction. We propose an effective and straightforward motion detection computation that uses the population code of a set of motion energy filters tuned to different velocities. We also show that surround inhibition leads to suppression of texture and thus improves the visibility of object contours and facilitates figure/ground segregation and the detection and recognition of objects.

  10. Effects of Surrounding Information and Line Length on Text Comprehension from the Web

    Directory of Open Access Journals (Sweden)

    Jess McMullin

    2002-02-01

    Full Text Available The World Wide Web (Web is becoming a popular medium for transmission of information and online learning. We need to understand how people comprehend information from the Web to design Web sites that maximize the acquisition of information. We examined two features of Web page design that are easily modified by developers, namely line length and the amount of surrounding information, or whitespace. Undergraduate university student participants read text and answered comprehension questions on the Web. Comprehension was affected by whitespace; participants had better comprehension for information surrounded by whitespace than for information surrounded by meaningless information. Participants were not affected by line length. These findings demonstrate that reading from the Web is not the same as reading print and have implications for instructional Web design.

  11. Research on the stability analysis and design of soil tunnel surrounding rock

    Institute of Scientific and Technical Information of China (English)

    Zheng Yingren; Qiu Chenyu; Xiao Qiang

    2010-01-01

    The paper first analyzes the failure mechanism and mode of tunnel according to model experiments and mechanical calculation and then discusses the deficiency of taking the limit value of displacement around the tunnel and the size of the plastic zone of surrounding rock as the criterion of stability.So the writers put forward the idea that the safety factor of surrounding rock calculated through strength reduction FEM(finit element method)should be regarded as the criterion of stability,which has strict mechanical basis and unified standard and would not be influenced by other factors.The paper also studies the safety factors of tunnel surrounding rock(safety factors of shear and tension failure)and lining and some methods of designing and calculating tunnels.At last,the writers take the loess tunnel for instance and show the design and calculation results of two-lane railway tunnel.

  12. Damage Characteristics of Surrounding Rock Subjected to VCR Mining Blasting Shock

    Directory of Open Access Journals (Sweden)

    Nan Jiang

    2015-01-01

    Full Text Available For limiting the damage range caused by explosive shock loads in vertical crater retreat (VCR mining, the blasting damage characteristics of surrounding rock were studied by two methods: numerical simulation and ultrasonic testing. Combined with the mining blasting in Dongguashan Copper Mine of China, the VCR blasting shock characteristics under different conditions are obtained by using LSDYNA. Based on statistical fracture mechanics and damage mechanics theories, a damage constitutive model for rock mass subjected to blasting shock load was established. Then by using the fast Lagrange analysis codes (FLAC3D, the blasting damage characteristics of surrounding rock were analyzed by applying the blasting shock loads obtained from the VCR mining and the damage zone is obtained. At last, the relationship between the amount of explosives and the radius of damaged surrounding rock mass was discussed, and its formula was also derived. The research provides a theoretical basis for rationally controlling stope boundaries and optimizing mining blasting parameters.

  13. Settlement behavior of coal mine waste in different surrounding rock conditions

    Institute of Scientific and Technical Information of China (English)

    MA Chun-de; LI Xi-bing; HU Bing-nan; CHEN Feng; XU Ji-cheng; LI Di-yuan

    2008-01-01

    In order to investigate the influence of complex conditions of in-situ surrounding rocks on the settlement behavior of nubbly coal mine waste subjected to high gravity pressure, four kinds of loading chambers made of different similar materials with different elastic moduli in experiments were used to simulate the deformation features of in-site rocks, including soft, moderate hardness, hard and extra-hard rocks. The results show that all the settlement-axial load (or axial strain-stress) curves obtained under four different surrounding rock conditions present power-exponential function feature. The final settlement of coal mine waste under the same axial load is closely related to the lumpiness gradations and the deformation behavior of chamber materials used to simulate behaviors of different in-situ surrounding rocks. In the same surrounding rock condition, the final settlement under the same maximum axial load decreases with the decrease of the proportion of larger gradation of coal mine waste. While for the same lumpiness gradation case, the settlement increases with the decrease of elastic modulus of simulated surrounding rocks and the lateral pressure induced by axial load increases with the increase of elastic modulus of loading chambers that are used to simulate different surrounding rocks. The test results also reveal that both the compaction curve and lateral pressure curve show a three-stage behavior, and the duration of each stage, which is closely related to gradations and the deformation feature of loading chamber materials, decreases with the increase of the proportion of the small size of coal mine waste and elastic modulus of the simulated rock materials.

  14. The physics of positively biased conductors surrounded by dielectrics in contact with a plasma

    Science.gov (United States)

    Hastings, Daniel E.; Chang, Patrick

    1989-01-01

    The physics of a positively biased conductor surrounded by dielectrics in contact with plasma is investigated. It is shown that because of the presence of secondary emission from the surrounding dielectrics, the voltage of the surfaces near the conductor has three solutions. The high- and low-voltage solutions are stable, while the intermediate-voltage solution is unstable. This theory is applied to explain the snapover effect observed on high-voltage solar arrays that involve the use of highly biased surfaces in contact with the space environment.

  15. Conservation and Utilization of a Ramsar Site“ Kabukuri-numa and the Surrounding Rice Paddies"

    OpenAIRE

    淺野, 敏久; 光武, 昌作; 林, 健児郎; 榎本, 隆明

    2012-01-01

    “Kabukuri-numa and the surrounding rice paddies" is the first case bearing the name of “rice paddy" in the Ramsar site of Japan. The residents around this site are aiming at community development and the coexistence of agriculture and geese. The purpose of this paper is to summarize the results of interviews about the efforts here before and after the Great East Japan Earthquake. And then we consider the problems related to wise use of the Ramsar site including the surrounding rice paddies in...

  16. Study on mechanism and practice of surrounding rock control of high stress coal roadway

    Institute of Scientific and Technical Information of China (English)

    WANG Wei-jun; YANG Lei; OUYANG Guang-bin

    2006-01-01

    The mechanical principle and surrounding rock deformation feature of high stress coal roadway was analyzed. The condition of stress balance of the kind of the roadway was put forward. The surrounding rock control principle and supporting technique of high stress coal roadway were discussed. It was very important to control early days deformation of coal sides. The supporting strength is should increased, so the strength loss of coal sides is decreased. The range of plastic fluid zone is reduced. The above mention-ned principle is applied in industrial test, and the new supporting technique is applied successfully.

  17. TELOMERASE ACTIVITY IN HUMAN GASTRIC AND COLORECTAL CANCER AND SURROUNDING TISSUES

    Institute of Scientific and Technical Information of China (English)

    CHEN Wen; ZHANG Qiao; WAN De-sen; CUN Ling-yun; WU Cheng-qiu; PAN Zhi-zhong

    1999-01-01

    Objective: To study the telomerase activities in human gastric and colorectal tumors. Methods: The telomerase activity was assayed by the telomeric repeat amplification protocol (TRAP) technique. Forty human tumor samples including 9 colonic, 20 rectal and 11gastric carcinomas and their surrounding tissues were used for the detection. Results: Thirty-six out of 40human tumor samples exhibited telomerase activity regardless of the stages or the differentiation of the tumors. However, only 1 out of 39 tumor surrounding tissues showed telomerase activity. Conclusion: Telomerase may be a good diagnosis biomarker for tumor detection.

  18. Explanations for preferences in Denmark for surroundings and location of the home

    DEFF Research Database (Denmark)

    Andersen, Hans Skifter

    This paper is based on a survey made in Denmark asking a random selection of the population about their preferences for surroundings and location of the dwelling. The paper tries to explain these preferences by background variables on the respondents and their housing situation and by the interde......This paper is based on a survey made in Denmark asking a random selection of the population about their preferences for surroundings and location of the dwelling. The paper tries to explain these preferences by background variables on the respondents and their housing situation...

  19. 454 Pyrosequencing-based assessment of bacterial diversity and community structure in termite guts, mounds and surrounding soils.

    Science.gov (United States)

    Makonde, Huxley M; Mwirichia, Romano; Osiemo, Zipporah; Boga, Hamadi I; Klenk, Hans-Peter

    2015-01-01

    Termites constitute part of diverse and economically important termite fauna in Africa, but information on gut microbiota and their associated soil microbiome is still inadequate. In this study, we assessed and compared the bacterial diversity and community structure between termites' gut, their mounds and surrounding soil using the 454 pyrosequencing-based analysis of 16S rRNA gene sequences. A wood-feeder termite (Microcerotermes sp.), three fungus-cultivating termites (Macrotermes michaelseni, Odontotermes sp. and Microtermes sp.), their associated mounds and corresponding savannah soil samples were analyzed. The pH of the gut homogenates and soil physico-chemical properties were determined. The results indicated significant difference in bacterial community composition and structure between the gut and corresponding soil samples. Soil samples (Chao1 index ranged from 1359 to 2619) had higher species richness than gut samples (Chao1 index ranged from 461 to 1527). The bacterial composition and community structure in the gut of Macrotermes michaelseni and Odontotermes sp. were almost identical but different from that of Microtermes and Microcerotermes species, which had unique community structures. The most predominant bacterial phyla in the gut were Bacteroidetes (40-58 %), Spirochaetes (10-70 %), Firmicutes (17-27 %) and Fibrobacteres (13 %) while in the soil samples were Acidobacteria (28-45 %), Actinobacteria (20-40 %) and Proteobacteria (18-24 %). Some termite gut-specific bacterial lineages belonging to the genera Dysgonomonas, Parabacteroides, Paludibacter, Tannerella, Alistipes, BCf9-17 termite group and Termite Treponema cluster were observed. The results not only demonstrated a high level of bacterial diversity in the gut and surrounding soil environments, but also presence of distinct bacterial communities that are yet to be cultivated. Therefore, combined efforts using both culture and culture-independent methods are suggested to

  20. Intrinsic-Density Functionals

    CERN Document Server

    Engel, J

    2006-01-01

    The Hohenberg-Kohn theorem and Kohn-Sham procedure are extended to functionals of the localized intrinsic density of a self-bound system such as a nucleus. After defining the intrinsic-density functional, we modify the usual Kohn-Sham procedure slightly to evaluate the mean-field approximation to the functional, and carefully describe the construction of the leading corrections for a system of fermions in one dimension with a spin-degeneracy equal to the number of particles N. Despite the fact that the corrections are complicated and nonlocal, we are able to construct a local Skyrme-like intrinsic-density functional that, while different from the exact functional, shares with it a minimum value equal to the exact ground-state energy at the exact ground-state intrinsic density, to next-to-leading order in 1/N. We briefly discuss implications for real Skyrme functionals.

  1. Bone mineral density test

    Science.gov (United States)

    BMD test; Bone density test; Bone densitometry; DEXA scan; DXA; Dual-energy x-ray absorptiometry; p-DEXA; Osteoporosis-BMD ... need to undress. This scan is the best test to predict your risk of fractures. Peripheral DEXA ( ...

  2. The local mass density

    Science.gov (United States)

    Veeder, G. J.

    1974-01-01

    An improved mass-luminosity relation for faint main-sequence stars derived from recently revised masses for some faint double stars is presented. The total local mass density is increased to nearly 0.2 solar masses per cu pc. This estimate is as large as the mass density required by Oort's (1965) dynamical analysis of stellar motions perpendicular to the galactic plane if the mass is concentrated in a narrow layer.

  3. Developmental Changes during Childhood in Single-Letter Acuity and Its Crowding by Surrounding Contours

    Science.gov (United States)

    Jeon, Seong Taek; Hamid, Joshua; Maurer, Daphne; Lewis, Terri L.

    2010-01-01

    Crowding refers to impaired target recognition caused by surrounding contours. We investigated the development of crowding in central vision by comparing single-letter and crowding thresholds in groups of 5-year-olds, 8-year-olds, 11-year-olds, and adults. The task was to discriminate the orientation of a Sloan letter E. Single-letter thresholds,…

  4. Inhibitory surround and grouping effects in human and computational multiple object tracking

    Science.gov (United States)

    Yilmaz, Ozgur; Guler, Sadiye; Ogmen, Haluk

    2008-02-01

    Multiple Object Tracking (MOT) experiments show that human observers can track over several seconds up to five moving targets among several moving distractors. We extended these studies by designing modified MOT experiments to investigate the spatio-temporal characteristics of human visuo-cognitive mechanisms for tracking and applied the findings and insights obtained from these experiments in designing computational multiple object tracking algorithms. Recent studies indicate that attention both enhances the neural activity of relevant information and suppresses the irrelevant visual information in the surround. Results of our experiments suggest that the suppressive surround of attention extends up to 4 deg from the target stimulus, and it takes at least 100 ms to build it. We suggest that when the attentional windows corresponding to separate target regions are spatially close, they can be grouped to form a single attentional window to avoid interference originating from suppressive surrounds. The grouping experiment results indicate that the attentional windows are grouped into a single one when the distance between them is less than 1.5 deg. Preliminary implementation of the suppressive surround concept in our computational video object tracker resulted in less number of unnecessary object merges in computational video tracking experiments.

  5. ALTERNATING METHOD STUDY ON STRESS ANALYSIS OF SURROUNDING ROCK FOR TWO RANDOM GEOMETRY TUNNELS

    Institute of Scientific and Technical Information of China (English)

    吕爱钟; 张路青

    1997-01-01

    The stress analysis of surrounding rock for two random geometry tunnels is studied inthis paper by using Schwarz's alternating method. The simple and effective alternating algorithm is found, in which the surplus surface force is approximated by Fourier series, thus the iteration derivation can be conducted according to the precision required, finally, the stress results with high precision are obtained.

  6. Plastic zone distribution laws and its types of surrounding rock in large-span roadway

    Institute of Scientific and Technical Information of China (English)

    Li Chong; Xu Jinhai; Pan Jianzhong; Ma Chao

    2012-01-01

    In order to study the distribution laws and types of plastic zone of surrounding rock in large-span roadway,we analyzed the distribution laws with different spans and lateral pressures using FLAC3D numerical calculation software.Based on the roadway support difficulty and distribution laws of the plastic zone of surrounding rock,we defined the large-span roadway and classified the types of large-span rectangular roadways.As a result,the distribution laws of the plastic zone on surrounding rock in a rectangular roadway with different spans and lateral pressures were obtained.The results show that the area of the plastic zone on surrounding rock increased with the increase of the spans and lateral pressures,and the plastic zone was symmetrical to the center line of roadway.At λ =0.5,1.0,1.5,and 2.0,the plastic zone presented "addleshape" distribution,"ellipse" distribution."thin and high" distribution and "inverse trapezium" distribution,respectively.In addition,we classified the roadways into four types according to the different lateral pressures and spans,including small-span,moderate-span,large-span and extreme-large-span roadways.

  7. Development of fractures in soft rock surrounding a roadway and their control

    Institute of Scientific and Technical Information of China (English)

    Li Xuehua; Yao Qiangling; Man Jiankang; Chen Chaoqun; He Lihui

    2011-01-01

    As the excavation of roadway,new fractures will be formed and the pre-existing fractures extend with the redistribution of stress in surrounding rocks.Eventually,fracture zone and bed separation are formed in rocks because of the developed fractures.Therefore,mastering the fracture evolution of surrounding rocks is very important to maintain the stability of roadway.The surrounding rocks of main haulage roadway in a certain coal mine is so broken and loose that the supporting is very difficult.Based on comprehensive analysis of the engineering geological conditions,a sight instrument was used to observe the fractures of internal surrounding rocks.Four indices,i.e.,the width of fracture zone W,the number of fractures n,the width of fractures d and rock fracture designation RFD,are put forward to evaluate the fracture development.According to the evolution rules of the soft rock roadway from this paper,control principles by stages and by regions are presented through the research.At the same time,the best time of grouting reinforcement is determined on the basis of fracture saturation.Field practice shows that the roadway can satisfy normal production during service periods by suitable first support and grouting reinforcement.

  8. Temporal properties of centre-surround interactions in human motion perception

    NARCIS (Netherlands)

    Perge, J.A.; Kanai, R.; Wezel, R.J.A. van; Lankheet, M.J.M.

    2003-01-01

    A recent electrophysiological study revealed that the response to the antagonistic surround of macaque area MT receptive fields is delayed (15 - 20 ms) relative to the centre (Perge et al, 2002 Investigative Ophthalmology & Visual Science 43 E-Abstract 3931). We investigated whether this phenomenon,

  9. On the transition to the normal phase for superconductors surrounded by normal conductors

    DEFF Research Database (Denmark)

    Fournais, Søren; Kachmar, Ayman

    2009-01-01

    For a cylindrical superconductor surrounded by a normal material, we discuss transition to the normal phase of stable, locally stable and critical configurations. Associated with those phase transitions, we define critical magnetic fields and we provide a sufficient condition for which those...

  10. Perils to pregnancies: On social sorrows and strategies surrounding pregnancy loss in Cameroon

    NARCIS (Netherlands)

    Sijpt, E. van der; Notermans, C.D.

    2010-01-01

    This article explores the local perceptions and practices surrounding pregnancy loss in Cameroon-a topic that has long been neglected in international reproductive health debates. Based on extended periods of anthropological fieldwork in an urban and a rural setting in the East province of the

  11. Perils to pregnancies: on social sorrows and strategies surrounding pregnancy loss in Cameroon

    NARCIS (Netherlands)

    van der Sijpt, E.; Notermans, C.

    2010-01-01

    This article explores the local perceptions and practices surrounding pregnancy loss in Cameroon—a topic that has long been neglected in international reproductive health debates. Based on extended periods of anthropological fieldwork in an urban and a rural setting in the East province of the

  12. On Sedna and the cloud of comets surrounding the Solar System in Milgromian dynamics

    CERN Document Server

    Paučo, R

    2016-01-01

    We reconsider the hypothesis of a vast cometary reservoir surrounding the Solar System - the Oort cloud of comets - within the framework of Milgromian Dynamics (MD or MOND). For this purpose we build a numerical model of the cloud, assuming the theory of modified gravity QUMOND. Adopting popular pair $\

  13. Center-surround antagonism in spatial vision: retinal or cortical locus?

    Science.gov (United States)

    Westheimer, Gerald

    2004-01-01

    Mach and Hering had early advanced a model of spatial visual processing featuring an antagonistic interaction between adjoining areas in the visual field. Spatial opponency was one of the first findings when single-unit studies of the retina were begun. Not long afterwards psychophysical experiments revealed a center-surround organization closely matching that found in the mammalian retina. It hinged on the demonstration of reduction of sensitivity in a small patch of the visual field when its surround was changed from dark to bright. Because such patterns inevitably produce borders, well-known phenomena of border interaction could be seen as providing alternative explanations, whose substrate would most likely be in the visual cortex. These competing viewpoints are discussed especially as they pertain to the recent demonstration of spatial differences in the center/surround organization between the normal and affected eyes of amblyopes. To the extent that most findings favor a retinal site for the psychophysically measured antagonism, and that evidence is accumulating for a direct effect on the mammalian retina of stimulus manipulation during visual development, the difference in spatial parameters of center/surround antagonism in amblyopia suggests that the dysfunction in amblyopia begins already in the retina.

  14. Tidal propagation in the Gulf of Khambhat, Bombay High, and surrounding areas

    Digital Repository Service at National Institute of Oceanography (India)

    Unnikrishnan, A.S.; Shetye, S.R.; Michael, G.S.

    -diurnal and diurnal constituents at forty-two ports in the Gulf and surrounding areas is sued to define characteristics of the tides. A barotropic numerical model based on shallow water wave equations to simulate the sea level and circulation in the region is used...

  15. Momentum Budget of the atmospheric boundary layer over the Greenland ice sheet and its surrounding seas

    NARCIS (Netherlands)

    van Angelen, J.H.; van den Broeke, M.R.; van de Berg, W.J.

    2011-01-01

    The atmospheric circulation patterns over the Greenland ice sheet and its surrounding seas are studied by explicitly calculating the momentum budget components, using data of a high‐resolution regional atmospheric climate model. In winter (DJF), the katabatic pressure gradient force (PGF) dominates

  16. Mechanism of zonal disintegration in surrounding rock mass around deep rock engineering and its application

    Institute of Scientific and Technical Information of China (English)

    2011-01-01

    The mechanical behaviors of deep rock mass are different from those of shallow rock mass.Through cases of Jinping II Hydropower Station,the special phenomenon of zonal disintegration in the surrounding rock mass around the diversion tunnels,is analyzed.On the basis of fracture mechanics,a new strength criterion for deep rock mass is derived.The new nonlinear strength criterion that is relative to the rock mass rating classification can be applied to the study of the tensile failure of deep rock mass.Subsequently,zonal disintegration model is established,and the radius of fractured zone and none-fractured zone of deep surrounding rock mass around cylindrical tunnel are obtained,their exact positions and the evolution law of zonal disintegration of surrounding rock mass is determined.To validate the present model,comparison between calculation results and the experiment observation on facture and failure around underground openings is carried out.It is found that the numerical simulation result is in good agreement with the experimental one on failure modes around the hole.Through sensitivity analysis,the effects of stress condition,cohesion and the angle of internal friction on the phenomenon of zonal disintegration are determined.Finally,the present model is adopted in the analysis of the zonal disintegration in the surrounding rock mass around the diversion tunnels in Jinping II Hydropower Station.Meanwhile,the magnitude and distributions of fractured zones are determined by numerical simulation.

  17. Greenhouse Effect: Temperature of a Metal Sphere Surrounded by a Glass Shell and Heated by Sunlight

    Science.gov (United States)

    Nguyen, Phuc H.; Matzner, Richard A.

    2012-01-01

    We study the greenhouse effect on a model satellite consisting of a tungsten sphere surrounded by a thin spherical, concentric glass shell, with a small gap between the sphere and the shell. The system sits in vacuum and is heated by sunlight incident along the "z"-axis. This development is a generalization of the simple treatment of the…

  18. Can Centre Surround Model Explain the Enhancement of Visual Perception through Stochastic Resonance?

    CERN Document Server

    Kundu, Ajanta

    2010-01-01

    We demonstrate the ability of centre surround model for simulating the enhancement of contrast sensitivity through stochastic resonance observed in psychophysical experiments. We also show that this model could be used to simulate the contrast sensitivity function through stochastic resonance. The quality of the fit of measured contrast sensitivity function to the simulated data is very good.

  19. The Geomorphology of the surroundings of the Ría de Arosa (Galicia, NW Spain)

    NARCIS (Netherlands)

    Pannekoek, A.J.

    1966-01-01

    This paper is intended to provide a geomorphological introduction to a series of papers on the sedimentology and weathering phenomena of the Ría de Arosa area. The area contains a large mass of coarse-grained porphyritic granite surrounded by other crystalline rocks. The granite is deeply weathered

  20. Do personal conditions and circumstances surrounding partner loss explain loneliness in newly bereaved older adults?

    NARCIS (Netherlands)

    van Baarsen, B.; Smit, J.H; Snijders, T.A.B.; Knipscheer, K.P.M.

    1999-01-01

    This longitudinal study aims to explain loneliness in newly bereaved older adults, taking into account personal and circumstantial conditions surrounding the partner's death. A distinction is made between emotional and social loneliness. Data were gathered both before and after partner loss. Results