Global Intersection of Long Non-Coding RNAs with Processed and Unprocessed Pseudogenes in the Human Genome

Directory of Open Access Journals (Sweden)

Michael John Milligan

2016-03-01

Full Text Available Pseudogenes are abundant in the human genome and had long been thought of purely as nonfunctional gene fossils. Recent observations point to a role for pseudogenes in regulating genes transcriptionally and post-transcriptionally in human cells. To computationally interrogate the network space of integrated pseudogene and long non-coding RNA regulation in the human transcriptome, we developed and implemented an algorithm to identify all long non-coding RNA (lncRNA transcripts that overlap the genomic spans, and specifically the exons, of any human pseudogenes in either sense or antisense orientation. As inputs to our algorithm, we imported three public repositories of pseudogenes: GENCODE v17 (processed and unprocessed, Ensembl 72; Retroposed Pseudogenes V5 (processed only and Yale Pseudo60 (processed and unprocessed, Ensembl 60; two public lncRNA catalogs: Broad Institute, GENCODE v17; NCBI annotated piRNAs; and NHGRI clinical variants. The data sets were retrieved from the UCSC Genome Database using the UCSC Table Browser. We identified 2277 loci containing exon-to-exon overlaps between pseudogenes, both processed and unprocessed, and long non-coding RNA genes. Of these loci we identified 1167 with Genbank EST and full-length cDNA support providing direct evidence of transcription on one or both strands with exon-to-exon overlaps. The analysis converged on 313 pseudogene-lncRNA exon-to-exon overlaps that were bidirectionally supported by both full-length cDNAs and ESTs. In the process of identifying transcribed pseudogenes, we generated a comprehensive, positionally non-redundant encyclopedia of human pseudogenes, drawing upon multiple, and formerly disparate public pseudogene repositories. Collectively, these observations suggest that pseudogenes are pervasively transcribed on both strands and are common drivers of gene regulation.

On the significance of ELF basins

Indian Academy of Sciences (India)

Unknown

to complement to chemical intuition (see, e.g., refs. 2, 3). In a mathematically more rigorous way, such regions, ELF basins,4 were defined following the spirit of Bader's Atoms in Molecules (AIM). All points in space which lead to the a given maximum of ELF, by following the gradient of ELF, belong to the same basin. Basins ...

LPG in the Totalfina-Elf merger; Le GPL dans la fusion Totalfina-Elf

Energy Technology Data Exchange (ETDEWEB)

Anon.

2000-04-01

Elf Aquitaine's take-over by TotalFina was approved on February 9, by the European Commission, with substantial changes to the project initially submitted. One of the main changes involves the sale of Elf Antargaz and of a part of Elf's associated LPG logistics. Rumors say that a dozen of potential buyers were on the ranks in February to acquire this company which is the second French LPG marketer. The sale seems to question the LPG scheme set by TotalFina at the end of 1999. We published in our previous issue this scheme which was designed to give a larger span to the product, with its own management apart from other specialties. (authors)

Accelerated pseudogenization on the neo-X chromosome in Drosophila miranda

KAUST Repository

Nozawa, Masafumi

2016-11-29

Y chromosomes often degenerate via the accumulation of pseudogenes and transposable elements. By contrast, little is known about X-chromosome degeneration. Here we compare the pseudogenization process between genes on the neo-sex chromosomes in Drosophila miranda and their autosomal orthologues in closely related species. The pseudogenization rate on the neo-X is much lower than the rate on the neo-Y, but appears to be higher than the rate on the orthologous autosome in D. pseudoobscura. Genes under less functional constraint and/or genes with male-biased expression tend to become pseudogenes on the neo-X, indicating the accumulation of slightly deleterious mutations and the feminization of the neo-X. We also find a weak trend that the genes with female-benefit/male-detriment effects identified in D. melanogaster are pseudogenized on the neo-X, implying the masculinization of the neo-X. These observations suggest that both X and Y chromosomes can degenerate due to a complex suite of evolutionary forces.

H2A/K pseudogene mutation may promote cell proliferation

Energy Technology Data Exchange (ETDEWEB)

Guo, Jisheng; Jing, Ruirui; Lv, Xin; Wang, Xiaoyue; Li, Junqiang; Li, Lin; Li, Cuiling; Wang, Daoguang; Bi, Baibing; Chen, Xinjun [Cancer Research Center, Shandong University School of Medicine, Jinan 250012 (China); Yang, Jing-Hua, E-mail: sdu_crc_group1@126.com [Cancer Research Center, Shandong University School of Medicine, Jinan 250012 (China); Department of Surgery, VA Boston Healthcare System, Boston University School of Medicine, Boston 510660, MA (United States)

2016-05-15

Highlights: • The mutant H2A/K pseudogene is active. • The mutant H2A/K pseudogene can promote cell proliferation. - Abstract: Little attention has been paid to the histone H2A/K pseudogene. Results from our laboratory showed that 7 of 10 kidney cancer patients carried a mutant H2A/K pseudogene; therefore, we were interested in determining the relationship between mutant H2A/K and cell proliferation. We used shotgun and label-free proteomics methods to study whether mutant H2A/K lncRNAs affected cell proliferation. Quantitative proteomic analysis indicated that the expression of mutant H2A/K lncRNAs resulted in the upregulation of many oncogenes, which promoted cell proliferation. Further interaction analyses revealed that a proliferating cell nuclear antigen (PCNA)-protein interaction network, with PCNA in the center, contributes to cell proliferation in cells expressing the mutant H2A/K lncRNAs. Western blotting confirmed the critical upregulation of PCNA by mutant H2A/K lncRNA expression. Finally, the promotion of cell proliferation by mutant H2A/K lncRNAs (C290T, C228A and A45G) was confirmed using cell proliferation assays. Although we did not determine the exact mechanism by which the oncogenes were upregulated by the mutant H2A/K lncRNAs, we confirmed that the mutant H2A/K lncRNAs promoted cell proliferation by upregulating PCNA and other oncogenes. The hypothesis that cell proliferation is promoted by the mutant H2A/K lncRNAs was supported by the protein expression and cell proliferation assay results. Therefore, mutant H2A/K lncRNAs may be a new factor in renal carcinogenesis.

NAS investigates ELF

International Nuclear Information System (INIS)

Gledhill, M.

1997-01-01

A report published in October 1996 by a committee appointed by the US National Research Council has concluded that 'no conclusive and consistent evidence shows that exposures to residential electric and magnetic fields produce cancer, adverse neurobehavioural effects, or reproductive and developmental effects'. However, the committee also noted that 'an association between residential wiring configurations ... and childhood leukemia persists in multiple studies, although the causative factor responsible for that statistical association has not been identified.' The committee was set up in 1991 at the request of the US Congress, and asked to concentrate on extremely low frequency (ELF) electric and magnetic field exposures found in residential settings. The expertise of its 16 members covered the wide range of disciplines necessary to evaluate the extensive research literature. Research into the possible health effects of ELF magnetic fields has been driven largely by epidemiology, and a comprehensive meta-analysis of 11 childhood leukemia studies forms a key part of the report. These studies have used several metrics to define 'exposure' of the study subjects to ELF fields. The meta-analysis combined the studies in a number of ways to evaluate their consistency and sensitivity to individual study results. (author). 1 ref

Accelerated pseudogenization on the neo-X chromosome in Drosophila miranda

KAUST Repository

Nozawa, Masafumi; Onizuka, Kanako; Fujimi, Mai; Ikeo, Kazuho; Gojobori, Takashi

2016-01-01

Y chromosomes often degenerate via the accumulation of pseudogenes and transposable elements. By contrast, little is known about X-chromosome degeneration. Here we compare the pseudogenization process between genes on the neo-sex chromosomes

ELF radiation from the Tromsoe super heater facility

International Nuclear Information System (INIS)

Barr, R.; Stubbe, P.

1991-01-01

Direct comparisons have been made of the ionospheric ELF radiation produced by the new (1 GW ERP) and old (250 MW ERP) antennas of the Tromsoe heater system, but no significant differences in the ELF signal strength have been detected. This initially surprising result is shown to require a value of unity for the index relating the received ELF signal strength to HF power input to the antenna. A series of experiments performed solely to derive more accurate values for this power index provided values ranging from 0.74 to 0.97, dependent on the ELF frequencies generated. It has been suggested that ELF radiation from the normal Tromsoe heater facility should be limited by saturation effects, even when operating well below the maximum HF power density (3mW/m 2 in the D-region). No evidence for such saturation effects has been found even at power densities greater than 10mW/m 2

Pseudogenes regulate parental gene expression via ceRNA network.

Science.gov (United States)

An, Yang; Furber, Kendra L; Ji, Shaoping

2017-01-01

The concept of competitive endogenous RNA (ceRNA) was first proposed by Salmena and colleagues. Evidence suggests that pseudogene RNAs can act as a 'sponge' through competitive binding of common miRNA, releasing or attenuating repression through sequestering miRNAs away from parental mRNA. In theory, ceRNAs refer to all transcripts such as mRNA, tRNA, rRNA, long non-coding RNA, pseudogene RNA and circular RNA, because all of them may become the targets of miRNA depending on spatiotemporal situation. As binding of miRNA to the target RNA is not 100% complementary, it is possible that one miRNA can bind to multiple target RNAs and vice versa. All RNAs crosstalk through competitively binding to miRNAvia miRNA response elements (MREs) contained within the RNA sequences, thus forming a complex regulatory network. The ratio of a subset of miRNAs to the corresponding number of MREs determines repression strength on a given mRNA translation or stability. An increase in pseudogene RNA level can sequester miRNA and release repression on the parental gene, leading to an increase in parental gene expression. A massive number of transcripts constitute a complicated network that regulates each other through this proposed mechanism, though some regulatory significance may be mild or even undetectable. It is possible that the regulation of gene and pseudogene expression occurring in this manor involves all RNAs bearing common MREs. In this review, we will primarily discuss how pseudogene transcripts regulate expression of parental genes via ceRNA network and biological significance of regulation. © 2016 The Authors. Journal of Cellular and Molecular Medicine published by John Wiley & Sons Ltd and Foundation for Cellular and Molecular Medicine.

Exposure of Extremely-Low Frequency (ELF magnetic field may cause human cancer

Directory of Open Access Journals (Sweden)

Daryoush Shahbazi-Gahrouei

2017-01-01

Full Text Available Introduction: Chronic exposure of non-ionizing extremely low-frequency magnetic fields (ELF-EMF is considered as a health hazard due to its adverse effects on human body such as generation of any type of cancer. Stem cells are appropriate models to assess the effects of ELF-EMF on other cell lines and human beings. Materials and methods: Adipose tissue has been known as source of multi potent stromal human mesenchymal stem cells (MSCs which can be obtained in less invasive method and in large amounts; so adipose-derived stem cells (ADSCs were used in this study. Effect of ELF-EMF (intensities of 0.5 and 1 mT and 50 Hz on proliferation rate of hADSCs was assessed in 20 and 40 min per day for 7 days. Trypan blue assay was performed to assess cell proliferation rate. Result: The results shown that 0.5 and 1 mT magnetic fields can promote the proliferation rate of adipose derived hMSCs according to the duration of exposure. Conclusion: These outcomes could approve the effect of ELF-EMF on cancer induction; although the effective mechanisms in this process are still unknown.

Viral unmasking of cellular 5S rRNA pseudogene transcripts induces RIG-I-mediated immunity.

Science.gov (United States)

Chiang, Jessica J; Sparrer, Konstantin M J; van Gent, Michiel; Lässig, Charlotte; Huang, Teng; Osterrieder, Nikolaus; Hopfner, Karl-Peter; Gack, Michaela U

2018-01-01

The sensor RIG-I detects double-stranded RNA derived from RNA viruses. Although RIG-I is also known to have a role in the antiviral response to DNA viruses, physiological RNA species recognized by RIG-I during infection with a DNA virus are largely unknown. Using next-generation RNA sequencing (RNAseq), we found that host-derived RNAs, most prominently 5S ribosomal RNA pseudogene 141 (RNA5SP141), bound to RIG-I during infection with herpes simplex virus 1 (HSV-1). Infection with HSV-1 induced relocalization of RNA5SP141 from the nucleus to the cytoplasm, and virus-induced shutoff of host protein synthesis downregulated the abundance of RNA5SP141-interacting proteins, which allowed RNA5SP141 to bind RIG-I and induce the expression of type I interferons. Silencing of RNA5SP141 strongly dampened the antiviral response to HSV-1 and the related virus Epstein-Barr virus (EBV), as well as influenza A virus (IAV). Our findings reveal that antiviral immunity can be triggered by host RNAs that are unshielded following depletion of their respective binding proteins by the virus.

Propagation of SLF/ELF electromagnetic waves

CERN Document Server

Pan, Weiyan

2014-01-01

This book deals with the SLF/ELF wave propagation, an important branch of electromagnetic theory. The SLF/ELF wave propagation theory is well applied in earthquake electromagnetic radiation, submarine communication, thunderstorm detection, and geophysical prospecting and diagnostics. The propagation of SLF/ELF electromagnetic waves is introduced in various media like the earth-ionospheric waveguide, ionospheric plasma, sea water, earth, and the boundary between two different media or the stratified media. Applications in the earthquake electromagnetic radiation and the submarine communications are also addressed. This book is intended for scientists and engineers in the fields of radio propagation and EM theory and applications. Prof. Pan is a professor at China Research Institute of Radiowave Propagation in Qingdao (China). Dr. Li is a professor at Zhejiang University in Hangzhou (China).

Isolation of CYP3A5P cDNA from human liver: a reflection of a novel cytochrome P-450 pseudogene.

Science.gov (United States)

Schuetz, J D; Guzelian, P S

1995-03-14

We have isolated, from a human liver cDNA library, a 1627 bp CYP3A5 cDNA variant (CYP3A5P) that contains several large insertions, deletions, and in-frame termination codons. By comparison with the genomic structure of other CYP3A genes, the major insertions in CYP3A5P cDNA demarcate the inferred sites of several CYP3A5 exons. The segments inserted in CYP3A5P have no homology with splice donor acceptor sites. It is unlikely that CYP3A5P cDNA represents an artifact of the cloning procedures since Southern blot analysis of human genomic DNA disclosed that CYP3A5P cDNA hybridized with a DNA fragment distinct from fragments that hybridized with either CYP3A5, CYP3A3 or CYP3A4. Moreover, analysis of adult human liver RNA on Northern blots hybridized with a CYP3A5P cDNA fragment revealed the presence of an mRNA with the predicted size of CYP3A5P. We conclude that CYP3A5P cDNA was derived from a separate gene, CYP3A5P, most likely a pseudogene evolved from CYP3A5.

ELF-MF exposure affects the robustness of epigenetic programming during granulopoiesis

Science.gov (United States)

Manser, Melissa; Sater, Mohamad R. Abdul; Schmid, Christoph D.; Noreen, Faiza; Murbach, Manuel; Kuster, Niels; Schuermann, David; Schär, Primo

2017-03-01

Extremely-low-frequency magnetic fields (ELF-MF) have been classified as “possibly carcinogenic” to humans on the grounds of an epidemiological association of ELF-MF exposure with an increased risk of childhood leukaemia. Yet, underlying mechanisms have remained obscure. Genome instability seems an unlikely reason as the energy transmitted by ELF-MF is too low to damage DNA and induce cancer-promoting mutations. ELF-MF, however, may perturb the epigenetic code of genomes, which is well-known to be sensitive to environmental conditions and generally deranged in cancers, including leukaemia. We examined the potential of ELF-MF to influence key epigenetic modifications in leukaemic Jurkat cells and in human CD34+ haematopoietic stem cells undergoing in vitro differentiation into the neutrophilic lineage. During granulopoiesis, sensitive genome-wide profiling of multiple replicate experiments did not reveal any statistically significant, ELF-MF-dependent alterations in the patterns of active (H3K4me2) and repressive (H3K27me3) histone marks nor in DNA methylation. However, ELF-MF exposure showed consistent effects on the reproducibility of these histone and DNA modification profiles (replicate variability), which appear to be of a stochastic nature but show preferences for the genomic context. The data indicate that ELF-MF exposure stabilizes active chromatin, particularly during the transition from a repressive to an active state during cell differentiation.

Photon tagging; considerations for an ELFE DESY proposal

International Nuclear Information System (INIS)

Mackenzie, J.A.

1996-01-01

Photon Tagging in the 5-15 GeV region is considered. The advantage of performing exclusive measurements in relation to obtainable photon flux in described. Finally some technical problems in relation to implementing a photon beam in the framework of the ELFE at DESY proposal are discussed. (author)

Investigation of the radiation properties of magnetospheric ELF waves induced by modulated ionospheric heating

Science.gov (United States)

Wang, Feng; Ni, Binbin; Zhao, Zhengyu; Zhao, Shufan; Zhao, Guangxin; Wang, Min

2017-05-01

Electromagnetic extremely low frequency (ELF) waves play an important role in modulating the Earth's radiation belt electron dynamics. High-frequency (HF) modulated heating of the ionosphere acts as a viable means to generate artificial ELF waves. The artificial ELF waves can reside in two different plasma regions in geo-space by propagating in the ionosphere and penetrating into the magnetosphere. As a consequence, the entire trajectory of ELF wave propagation should be considered to carefully analyze the wave radiation properties resulting from modulated ionospheric heating. We adopt a model of full wave solution to evaluate the Poynting vector of the ELF radiation field in the ionosphere, which can reflect the propagation characteristics of the radiated ELF waves along the background magnetic field and provide the initial condition of waves for ray tracing in the magnetosphere. The results indicate that the induced ELF wave energy forms a collimated beam and the center of the ELF radiation shifts obviously with respect to the ambient magnetic field with the radiation power inversely proportional to the wave frequency. The intensity of ELF wave radiation also shows a weak correlation with the size of the radiation source or its geographical location. Furthermore, the combination of ELF propagation in the ionosphere and magnetosphere is proposed on basis of the characteristics of the ELF radiation field from the upper ionospheric boundary and ray tracing simulations are implemented to reasonably calculate magnetospheric ray paths of ELF waves induced by modulated ionospheric heating.

TOTAL FINA ELF. Annual report 2002

International Nuclear Information System (INIS)

2003-01-01

This document is the annual report 2002 of Total-Fina-Elf society, great company on the hydrocarbons market. According to the company objective (set the standard not only with the financial performance, but also with stringent requirements in terms of social and environmental responsibility), it presents the Chairman message, the corporate governance, the social and environmental responsibility, the future of energy, the human resources policy, the investor relations, the overview of Total-Fina-Elf fiscal year with financial information and 2002 industrial events. (A.L.B.)

PMS2 gene mutational analysis: direct cDNA sequencing to circumvent pseudogene interference.

Science.gov (United States)

Wimmer, Katharina; Wernstedt, Annekatrin

2014-01-01

The presence of highly homologous pseudocopies can compromise the mutation analysis of a gene of interest. In particular, when using PCR-based strategies, pseudogene co-amplification has to be effectively prevented. This is often achieved by using primers designed to be parental gene specific according to the reference sequence and by applying stringent PCR conditions. However, there are cases in which this approach is of limited utility. For example, it has been shown that the PMS2 gene exchanges sequences with one of its pseudogenes, named PMS2CL. This results in functional PMS2 alleles containing pseudogene-derived sequences at their 3'-end and in nonfunctional PMS2CL pseudogene alleles that contain gene-derived sequences. Hence, the paralogues cannot be distinguished according to the reference sequence. This shortcoming can be effectively circumvented by using direct cDNA sequencing. This approach is based on the selective amplification of PMS2 transcripts in two overlapping 1.6-kb RT-PCR products. In addition to avoiding pseudogene co-amplification and allele dropout, this method has also the advantage that it allows to effectively identify deletions, splice mutations, and de novo retrotransposon insertions that escape the detection of most DNA-based mutation analysis protocols.

Noise-induced multistability in the regulation of cancer by genes and pseudogenes

Energy Technology Data Exchange (ETDEWEB)

Petrosyan, K. G., E-mail: pkaren@phys.sinica.edu.tw [Institute of Physics, Academia Sinica, Nankang, Taipei 11529, Taiwan (China); Hu, Chin-Kun, E-mail: huck@phys.sinica.edu.tw [Institute of Physics, Academia Sinica, Nankang, Taipei 11529, Taiwan (China); National Center for Theoretical Sciences, National Tsing Hua University, Hsinchu 30013, Taiwan (China); Business School, University of Shanghai for Science and Technology, Shanghai 200093 (China)

2016-07-28

We extend a previously introduced model of stochastic gene regulation of cancer to a nonlinear case having both gene and pseudogene messenger RNAs (mRNAs) self-regulated. The model consists of stochastic Boolean genetic elements and possesses noise-induced multistability (multimodality). We obtain analytical expressions for probabilities for the case of constant but finite number of microRNA molecules which act as a noise source for the competing gene and pseudogene mRNAs. The probability distribution functions display both the global bistability regime as well as even-odd number oscillations for a certain range of model parameters. Statistical characteristics of the mRNA’s level fluctuations are evaluated. The obtained results of the extended model advance our understanding of the process of stochastic gene and pseudogene expressions that is crucial in regulation of cancer.

Use of C. Elegans as a model organism for sensing the effects of ELF-EMFs

Energy Technology Data Exchange (ETDEWEB)

Lacchini, A H; Everington, M L; Augousti, A T; Walker, A J [School of Life Sciences, Kingston University London (United Kingdom)

2007-07-15

For the past two decades, there have been concerns and controversy about the effects on human health of the increased exposure to extremely-low-frequency (ELF) electromagnetic fields (EMFs) resulting from electrification, in both residential and industrial settings. Several epidemiological studies have implicated ELF-EMFs averaging 0.4 {mu}mUTesla (T) or more in increased risk of cancer, especially childhood leukaemia [1,2]; there have also been many reports demonstrating effects of power-frequency EMFs on cells [outlined in 1,3]. Unfortunately, however, the precise mechanisms by which ELF-EMFs exert biological effects have proven difficult to define and results of various studies have often been hard to reproduce [1]. We believe that C. elegans offers an exciting opportunity to elucidate the effects of power-frequency EMFs on cell signalling pathways within the whole organism and are therefore investigating the effects of ELF-EMF exposure on MAPK signalling in intact worms and fertilized embryos. Through taking a targeted approach to studying the effects of ELF-EMF's on MAPK signalling in C. elegans we aim to gather data that is physiologically relevant. Presently, this research is at a preliminary stage of preparation, and more detailed results on the exposure of Caenorhabditis elegans to ELF-EMF radiation will be presented at the conference itself.

Physics with a 15-30 GeV electron accelerator (ELFE)

International Nuclear Information System (INIS)

Frois, B.; Pire, B.

1993-01-01

Proposals for ELFE (Electron Laboratory For Europe), a 15-30 GeV high luminosity, continuous beam electron accelerator are discussed. These proposals form an extensive research program on exclusive reactions to probe the evolution of correlated quarks systems. Using the nucleus itself as a microscopic detector is one of the important ideas of this program. The same reaction is measured using nuclei of different sizes and thus the differences are observed in the evolution from quarks and gluons to hadrons in the nuclear medium. A brief overview of the physics with ELFE is presented. (R.P.) 1 tab

A genomic perspective on protein tyrosine phosphatases: gene structure, pseudogenes, and genetic disease linkage

DEFF Research Database (Denmark)

Andersen, Jannik N; Jansen, Peter G; Echwald, Søren M

2004-01-01

sequence databases, we discovered one novel human PTP gene and defined chromosomal loci and exon structure of the additional 37 genes encoding known PTP transcripts. Direct orthologs were present in the mouse genome for all 38 human PTP genes. In addition, we identified 12 PTP pseudogenes unique to humans...... that have probably contaminated previous bioinformatics analysis of this gene family. PCR amplification and transcript sequencing indicate that some PTP pseudogenes are expressed, but their function (if any) is unknown. Furthermore, we analyzed the enhanced diversity generated by alternative splicing...

ULF/ELF Waves in Near-Moon Space

Science.gov (United States)

Nakagawa, Tomoko

2016-02-01

The reflection of the solar wind protons is equivalent to a beam injection against the solar wind flow. It is expected to produce a ring beam with a 3D distribution function in many cases. The reflected protons are responsible for the generation of ultra-low-frequency (ULF) waves at ˜0.01 Hz and narrowband waves at ˜1 Hz in the extremely low frequency (ELF) range through resonant interaction with magnetohydrodynamic waves and whistler mode waves in the solar wind, respectively. This chapter discusses these commonly observed waves in the near-Moon space. The sinusoidal waveforms and sharp spectra of the monochromatic ELF waves are impressive, but commonly observed are non-monochromatic waves in the ELF range ˜0.03-10 Hz. Some of the solar wind protons reflected by the dayside lunar surface or crustal magnetic field gyrate around the solar wind magnetic field and can access the center of the wake owing to the large Larmour radius.

Global thunderstorm activity estimation based on number of transients in ELF-band

Science.gov (United States)

Ondraskova, Adriena; Sevcik, Sebastian

2017-04-01

Schumann resonances (SR) are resonant electromagnetic oscillations in extremely low frequency band (ELF, 3 Hz - 3 kHz), which arise in the Earth-ionosphere cavity due to lightning activity in planetary range. The time records in the ELF-band consist of background signals and ELF transients/Q-bursts superimposed on the background exceeding it by a factor of 5 - 10. The former are produced by the common worldwide thunderstorm activity (100 - 150 events per second), the latter origin from individual intense distant lightning discharges (100 - 120 powerful strokes per hour). A Q-burst is produced by a combination of direct and antipodal pulses and the decisive factor for its shape follows from the source-to-observer distance. Diurnal/seasonal variations of global thunderstorm activity can be deduced from spectral amplitudes of SR modes. Here we focus on diurnal/seasonal variations of the number of ELF-transients assuming that it is another way of lightning activity estimation. To search for transients, our own code was applied to the SR vertical electric component measured in October 2004 - October 2008 at the Astronomical and Geophysical Observatory of FMPI CU, Slovakia. Criteria for the identification of the burst are chosen on the basis of the transient amplitudes and their morphological features. Monthly mean daily variations in number of transients showed that African focus dominates at 14 - 16 h UT and it is more active in comparison with Asian source, which dominates at 5 - 8 h UT in dependence on winter or summer month. American source had surprisingly slight response. Meteorological observations in South America aiming to determine lightning hotspots on the Earth indicate that flash rate in this region is greatest during nocturnal 0 h - 3 h local standard time. This fact may be interpreted that Asian and South American sources contribute together in the same UT. Cumulative spectral amplitude of the first three SR modes compared with number of ELF-transients in

Expressing Disagreement in ELF Business Negotiations: Theory and Practice

Science.gov (United States)

Bjorge, Anne Kari

2012-01-01

English spoken by those who do not share their first language is increasingly referred to as English lingua franca (ELF). For ELF speakers, it can be a challenge to express conflicting opinions, as a common language and/or cultural background cannot be taken for granted. This is recognized by writers of business English textbooks, who provide…

ETS transcription factor ELF5 induces lumen formation in a 3D model of mammary morphogenesis and its expression is inhibited by Jak2 inhibitor TG101348.

Science.gov (United States)

Chean, Jennifer; Chen, Charng-Jui; Shively, John E

2017-10-01

The loss of expression of a single gene can revert normal tissue to a malignant phenotype. For example, while normal breast has high lumenal expression of CEACAM1, the majority of breast cancers exhibit the early loss of this gene with the concurrent loss of their lumenal phenotype. MCF7 cells that lack CEACAM1 expression and fail to form lumena in 3D culture, regain the normal phenotype when transfected with CEACAM1. In order to probe the mechanism of this gain of function, we treated these cells with the clinically relevant Jak2 inhibitor TG101348 (TG), expecting that disruption of the prolactin receptor signaling pathway would interfere with the positive effects of transfection of MCF7 cells with CEACAM1. Indeed, lumen formation was inhibited, resulting in the down regulation of a set of genes, likely involved in the complex process of lumen formation. As expected, inhibition of the expression of many of these genes also inhibited lumen formation, confirming their involvement in a single pathway. Among the genes identified by the inhibition assay, ETS transcription factor ELF5 stood out, since it has been identified as a master regulator of mammary morphogenesis, and is associated with prolactin receptor signaling. When ELF5 was transfected into the parental MCF7 cells that lack CEACAM1, lumen formation was restored, indicating that ELF5 can replace CEACAM1 in this model system of lumenogenesis. We conclude that the event(s) that led to the loss of expression of CEACAM1 is epistatic in that multiple genes associated with a critical pathway were affected, but that restoration of the normal phenotype can be achieved with reactivation of certain genes at various nodal points in tissue morphogenesis. Copyright © 2017 Elsevier Inc. All rights reserved.

Extremely low frequency electromagnetic field (ELF-EMF) reduces oxidative stress and improves functional and psychological status in ischemic stroke patients.

Science.gov (United States)

Cichoń, Natalia; Bijak, Michał; Miller, Elżbieta; Saluk, Joanna

2017-07-01

As a result of ischaemia/reperfusion, massive generation of reactive oxygen species occurs, followed by decreased activity of antioxidant enzymes. Extremely low frequency electromagnetic fields (ELF-EMF) can modulate oxidative stress, but there are no clinical antioxidant studies in brain stroke patients. The aim of our study was to investigate the effect of ELF-EMF on clinical and antioxidant status in post-stroke patients. Fifty-seven patients were divided into two groups: ELF-EMF and non-ELF-EMF. Both groups underwent the same 4-week rehabilitation program. Additionally, the ELF-EMF group was exposed to an ELF-EMF field of 40 Hz, 7 mT for 15 min/day for 4 weeks (5 days a week). The activity of catalase and superoxide dismutase was measured in hemolysates, and total antioxidant status (TAS) determined in plasma. Functional status was assessed before and after the series of treatments using Activities of Daily Living (ADL), Mini-Mental State Examination (MMSE), and Geriatric Depression Scale (GDS). Applied ELF-EMF significantly increased enzymatic antioxidant activity; however, TAS levels did not change in either group. Results show that ELF-EMF induced a significant improvement in functional (ADL) and mental (MMSE, GDS) status. Clinical parameters had positive correlation with the level of enzymatic antioxidant protection. Bioelectromagnetics. 38:386-396, 2017. © 2017 Wiley Periodicals, Inc. © 2017 Wiley Periodicals, Inc.

ELF Transients and Q-bursts Detected Around the Globe: First results from Palmer Station, Antarctica

Science.gov (United States)

Flint, Q. A.; Moore, R. C.

2016-12-01

We present the first analysis of data from the recently deployed broadband ELF (5-500 Hz) B-field receiver at Palmer Station, Antarctica together with observations at similar receivers located at Sondrestromfjord, Greenland and Arrival Heights, Antarctica. Such remote locations afford the unique opportunity to record signals that are essentially unperturbed by power line noise. As a result, using this multi-site global network of ELF/VLF receivers, we are able to easily detect a particular type of ELF transient that propagates around the world multiple times, known as the Q-burst. The Q-burst is characterized by a large increase in amplitude above the background at the Schumann Resonance modes and is believed to result from especially powerful cloud-to-ground lightning discharges. These powerful lightning discharges are likely responsible for a significant level of energetic coupling between the troposphere, the ionosphere, and the magnetosphere. The ELF and VLF waves excited by the lightning discharge propagate to great distances in the earth-ionosphere waveguide, and in fact propagate around the Earth multiple times. By measuring the received waveform at multiple distant sites around the globe, we can pinpoint the source lightning location, compare the changes in field strength and spectrum as a function of distance from the source, and evaluate modal propagation effects in the VLF range (that are not apparent in the ELF range).

A Novel Detection Method for Underwater Moving Targets by Measuring Their ELF Emissions with Inductive Sensors

Directory of Open Access Journals (Sweden)

Jinhong Wang

2017-07-01

Full Text Available In this article, we propose a novel detection method for underwater moving targets by detecting their extremely low frequency (ELF emissions with inductive sensors. The ELF field source of the targets is modeled by a horizontal electric dipole at distances more than several times of the targets’ length. The formulas for the fields produced in air are derived with a three-layer model (air, seawater and seafloor and are evaluated with a complementary numerical integration technique. A proof of concept measurement is presented. The ELF emissions from a surface ship were detected by inductive electronic and magnetic sensors as the ship was leaving a harbor. ELF signals are of substantial strength and have typical characteristic of harmonic line spectrum, and the fundamental frequency has a direct relationship with the ship’s speed. Due to the high sensitivity and low noise level of our sensors, it is capable of resolving weak ELF signals at long distance. In our experiment, a detection distance of 1300 m from the surface ship above the sea surface was realized, which shows that this method would be an appealing complement to the usual acoustic detection and magnetic anomaly detection capability.

Avoidance of pseudogene interference in the detection of 3' deletions in PMS2.

Science.gov (United States)

Vaughn, Cecily P; Hart, Kimberly J; Samowitz, Wade S; Swensen, Jeffrey J

2011-09-01

Lynch syndrome is characterized by mutations in the mismatch repair genes MLH1, MSH2, MSH6, and PMS2. In PMS2, detection of mutations is confounded by numerous pseudogenes. Detection of 3' deletions is particularly complicated by the pseudogene PMS2CL, which has strong similarity to PMS2 exons 9 and 11-15, due to extensive gene conversion. A newly designed multiplex ligation-dependent probe amplification (MLPA) kit incorporates probes for variants found in both PMS2 and PMS2CL. This provides detection of deletions, but does not allow localization of deletions to the gene or pseudogene. To address this, we have developed a methodology incorporating reference samples with known copy numbers of variants, and paired MLPA results with sequencing of PMS2 and PMS2CL. We tested a subset of clinically indicated samples for which mutations were either unidentified or not fully characterized using existing methods. We identified eight unrelated patients with deletions encompassing exons 9-15, 11-15, 13-15, 14-15, and 15. By incorporating specific, characterized reference samples and sequencing the gene and pseudogene it is possible to identify deletions in this region of PMS2 and provide clinically relevant results. This methodology represents a significant advance in the diagnosis of patients with Lynch syndrome caused by PMS2 mutations. © 2011 Wiley-Liss, Inc.

The small RNA content of human sperm reveals pseudogene-derived piRNAs complementary to protein-coding genes

DEFF Research Database (Denmark)

Pantano, Lorena; Jodar, Meritxell; Bak, Mads

2015-01-01

-specific genes. The most abundant class of small noncoding RNAs in sperm are PIWI-interacting RNAs (piRNAs). Surprisingly, we found that human sperm cells contain piRNAs processed from pseudogenes. Clusters of piRNAs from human testes contain pseudogenes transcribed in the antisense strand and processed...... into small RNAs. Several human protein-coding genes contain antisense predicted targets of pseudogene-derived piRNAs in the male germline and these piRNAs are still found in mature sperm. Our study provides the most extensive data set and annotation of human sperm small RNAs to date and is a resource...... for further functional studies on the roles of sperm small RNAs. In addition, we propose that some of the pseudogene-derived human piRNAs may regulate expression of their parent gene in the male germline....

Particle motion in the ELF wiggler

International Nuclear Information System (INIS)

Wurtele, J.S.; Sessler, A.M.

1982-06-01

Particle motion in the ELF wiggler was investigated numerically and analytically. A transport system was designed using continuous quadrupole focusing in the wiggle plane and natural wiggle focusing in the non-wiggle plane

Identification of Mycobacterium tuberculosis complex based on amplification and sequencing of the oxyR pseudogene from stored Ziehl-Neelsen-stained sputum smears in Brazil

Directory of Open Access Journals (Sweden)

Marcio Roberto Silva

2011-02-01

Full Text Available A cross-sectional analysis of stored Ziehl-Neelsen (ZN-stained sputum smear slides (SSS obtained from two public tuberculosis referral laboratories located in Juiz de Fora, Minas Gerais, was carried out to distinguish Mycobacterium bovis from other members of the Mycobacterium tuberculosis complex (MTC. A two-step approach was used to distinguish M. bovis from other members of MTC: (i oxyR pseudogene amplification to detect MTC and, subsequently, (ii allele-specific sequencing based on the polymorphism at position 285 of this gene. The oxyR pseudogene was successfully amplified in 100 of 177 (56.5% SSS available from 99 individuals. No molecular profile of M. bovis was found. Multivariate analysis indicated that acid-fast bacilli (AFB results and the source laboratory were associated (p < 0.05 with oxyR pseudogene amplification. SSS that were AFB++ SSS showed more oxyR pseudogene amplification than those with AFB0, possibly due to the amount of DNA. One of the two source laboratories presented a greater chance of oxyR pseudogene amplification, suggesting that differences in sputum conservation between laboratories could have influenced the preservation of DNA. This study provides evidence that stored ZN-SSS can be used for the molecular detection of MTC.

The HMGA1 Pseudogene 7 Induces miR-483 and miR-675 Upregulation by Activating Egr1 through a ceRNA Mechanism

Directory of Open Access Journals (Sweden)

Marco De Martino

2017-11-01

Full Text Available Several studies have established that pseudogene mRNAs can work as competing endogenous RNAs and, when deregulated, play a key role in the onset of human neoplasias. Recently, we have isolated two HMGA1 pseudogenes, HMGA1P6 and HMGA1P7. These pseudogenes have a critical role in cancer progression, acting as micro RNA (miRNA sponges for HMGA1 and other cancer-related genes. HMGA1 pseudogenes were found overexpressed in several human carcinomas, and their expression levels positively correlate with an advanced cancer stage and a poor prognosis. In order to investigate the molecular alterations following HMGA1 pseudogene 7 overexpression, we carried out miRNA sequencing analysis on HMGA1P7 overexpressing mouse embryonic fibroblasts. Intriguingly, the most upregulated miRNAs were miR-483 and miR-675 that have been described as key regulators in cancer progression. Here, we report that HMGA1P7 upregulates miR-483 and miR-675 through a competing endogenous RNA mechanism with Egr1, a transcriptional factor that positively regulates miR-483 and miR-675 expression.

Artificial excitation of ELF waves with frequency of Schumann resonance

Science.gov (United States)

Streltsov, A. V.; Guido, T.; Tulegenov, B.; Labenski, J.; Chang, C.-L.

2014-11-01

We report results from the experiment aimed at the artificial excitation of extremely low-frequency (ELF) electromagnetic waves with frequencies corresponding to the frequency of Schumann resonance. Electromagnetic waves with these frequencies can form a standing pattern inside the spherical cavity formed by the surface of the Earth and the ionosphere. In the experiment the ELF waves were excited by heating the ionosphere with X-mode HF electromagnetic waves generated at the High Frequency Active Auroral Research Program (HAARP) facility in Alaska. The experiment demonstrates that heating of the ionosphere can excite relatively large-amplitude electromagnetic waves with frequencies in the range 7.8-8.0 Hz when the ionosphere has a strong F layer, the frequency of the HF radiation is in the range 3.20-4.57 MHz, and the electric field greater than 5 mV/m is present in the ionosphere.

ELF4 Regulates GIGANTEA Chromatin Access through Subnuclear Sequestration

Directory of Open Access Journals (Sweden)

Yumi Kim

2013-03-01

Full Text Available Many organisms, including plants, use the circadian clock to measure the duration of day and night. Daily rhythms in the plant circadian system are generated by multiple interlocked transcriptional/translational loops and also by spatial regulations such as nuclear translocation. GIGANTEA (GI, one of the key clock components in Arabidopsis, makes distinctive nuclear bodies like other nuclear-localized circadian regulators. However, little is known about the dynamics or roles of GI subnuclear localization. Here, we characterize GI subnuclear compartmentalization and identify unexpected dynamic changes under diurnal conditions. We further identify EARLY FLOWERING 4 (ELF4 as a regulator of GI nuclear distribution through a physical interaction. ELF4 sequesters GI from the nucleoplasm, where GI binds the promoter of CONSTANS (CO, to discrete nuclear bodies. We suggest that the subnuclear compartmentalization of GI by ELF4 contributes to the regulation of photoperiodic flowering.

Frequency of intron loss correlates with processed pseudogene abundance: a novel strategy to test the reverse transcriptase model of intron loss.

Science.gov (United States)

Zhu, Tao; Niu, Deng-Ke

2013-03-05

Although intron loss in evolution has been described, the mechanism involved is still unclear. Three models have been proposed, the reverse transcriptase (RT) model, genomic deletion model and double-strand-break repair model. The RT model, also termed mRNA-mediated intron loss, suggests that cDNA molecules reverse transcribed from spliced mRNA recombine with genomic DNA causing intron loss. Many studies have attempted to test this model based on its predictions, such as simultaneous loss of adjacent introns, 3'-side bias of intron loss, and germline expression of intron-lost genes. Evidence either supporting or opposing the model has been reported. The mechanism of intron loss proposed in the RT model shares the process of reverse transcription with the formation of processed pseudogenes. If the RT model is correct, genes that have produced more processed pseudogenes are more likely to undergo intron loss. In the present study, we observed that the frequency of intron loss is correlated with processed pseudogene abundance by analyzing a new dataset of intron loss obtained in mice and rats. Furthermore, we found that mRNA molecules of intron-lost genes are mostly translated on free cytoplasmic ribosomes, a feature shared by mRNA molecules of the parental genes of processed pseudogenes and long interspersed elements. This feature is likely convenient for intron-lost gene mRNA molecules to be reverse transcribed. Analyses of adjacent intron loss, 3'-side bias of intron loss, and germline expression of intron-lost genes also support the RT model. Compared with previous evidence, the correlation between the abundance of processed pseudogenes and intron loss frequency more directly supports the RT model of intron loss. Exploring such a correlation is a new strategy to test the RT model in organisms with abundant processed pseudogenes.

Penetration of ELF currents and electromagnetic fields into the Earth's equatorial ionosphere

Science.gov (United States)

Eliasson, B.; Papadopoulos, K.

2009-10-01

The penetration of extremely low frequency (ELF) transient electromagnetic fields and associated currents in the Earth's equatorial E-region plasma is studied theoretically and numerically. In the low-frequency regime, the plasma dynamics of the E-region is characterized by helicon waves since the ions are viscously coupled to neutrals while the electrons remain mobile. For typical equatorial E-region parameters, the plasma is magnetically insulated from penetration of very long timescale magnetic fields by a thin diffusive sheath. Wave penetration driven by a vertically incident pulse localized in space and time leads to both vertical penetration and the triggering of ELF helicon/whistler waves that carry currents obliquely to the magnetic field lines. The study presented here may have relevance for ELF wave generation by lightning discharges and seismic activity and can lead to new concepts in ELF/ULF injection in the earth-ionosphere waveguide.

DNA micro array analysis of yeast global genome expression in response to ELF-MF exposure

International Nuclear Information System (INIS)

Shimizu, K.; Yamamoto, T.; Ishibashi, T.; Kyoh, B.

2002-01-01

There is wide spread public concern over the possible health risk of ELF-MF. Electromagnetic fields may produce a variety of effects in several biological systems, including the elevation of cancer risk and reduction of cell growth. Epidemiological studies have shown weak correlations between the exposure to ELF and the incidence of several cancers, but negative studies have also been reported. Moreover, there are some reports that basic biological events such as the cell cycle and DNA replication were affected by exposure to MF. However, to date the molecular mechanism of the MF effect on living organism is not clear. In this study, we used yeast DNA micro array to examine the transcriptional profile of all genes in response to ELF-MF. A few years ago it was difficult to carry out a global gene expression study to identify important genes regarding ELF-MF, however, today DNA micro arrays allow gene regulation in response to high density ELF-MF exposure. Thus we used micro array to analyze changes in mRNA abundance during ELF-MF exposure

Clinical analysis of PMS2: mutation detection and avoidance of pseudogenes.

Science.gov (United States)

Vaughn, Cecily P; Robles, Jorge; Swensen, Jeffrey J; Miller, Christine E; Lyon, Elaine; Mao, Rong; Bayrak-Toydemir, Pinar; Samowitz, Wade S

2010-05-01

Germline mutation detection in PMS2, one of four mismatch repair genes associated with Lynch syndrome, is greatly complicated by the presence of numerous pseudogenes. We used a modification of a long-range PCR method to evaluate PMS2 in 145 clinical samples. This modification avoids potential interference from the pseudogene PMS2CL by utilizing a long-range product spanning exons 11-15, with the forward primer anchored in exon 10, an exon not shared by PMS2CL. Large deletions were identified by MLPA. Pathogenic PMS2 mutations were identified in 22 of 59 patients whose tumors showed isolated loss of PMS2 by immunohistochemistry (IHC), the IHC profile most commonly associated with a germline PMS2 mutation. Three additional patients with pathogenic mutations were identified from 53 samples without IHC data. Thirty-seven percent of the identified mutations were large deletions encompassing one or more exons. In 27 patients whose tumors showed absence of either another protein or combination of proteins, no pathogenic mutations were identified. We conclude that modified long-range PCR can be used to preferentially amplify the PMS2 gene and avoid pseudogene interference, thus providing a clinically useful germline analysis of PMS2. Our data also support the use of IHC screening to direct germline testing of PMS2. (c) 2010 Wiley-Liss, Inc.

A survey of ELF and VLF research on lightning-ionosphere interactions and causative discharges

Science.gov (United States)

Inan, U. S.; Cummer, S. A.; Marshall, R. A.

2010-06-01

Extremely low frequency (ELF) and very low frequency (VLF) observations have formed the cornerstone of measurement and interpretation of effects of lightning discharges on the overlying upper atmospheric regions, as well as near-Earth space. ELF (0.3-3 kHz) and VLF (3-30 kHz) wave energy released by lightning discharges is often the agent of modification of the lower ionospheric medium that results in the conductivity changes and the excitation of optical emissions that constitute transient luminous events (TLEs). In addition, the resultant ionospheric changes are best (and often uniquely) observable as perturbations of subionospherically propagating VLF signals. In fact, some of the earliest evidence for direct disturbances of the lower ionosphere in association with lightning discharges was obtained in the course of the study of such VLF perturbations. Measurements of the detailed ELF and VLF waveforms of parent lightning discharges that produce TLEs and terrestrial gamma ray flashes (TGFs) have also been very fruitful, often revealing properties of such discharges that maximize ionospheric effects, such as generation of intense electromagnetic pulses (EMPs) or removal of large quantities of charge. In this paper, we provide a review of the development of ELF and VLF measurements, both from a historical point of view and from the point of view of their relationship to optical and other observations of ionospheric effects of lightning discharges.

Detection of endogenous alkaline phosphatase activity in intact cells by flow cytometry using the fluorogenic ELF-97 phosphatase substrate

Science.gov (United States)

Telford, W. G.; Cox, W. G.; Stiner, D.; Singer, V. L.; Doty, S. B.

1999-01-01

BACKGROUND: The alkaline phosphatase (AP) substrate 2-(5'-chloro-2'-phosphoryloxyphenyl)-6-chloro-4-(3H)-quinazolinone (ELF((R))-97 for enzyme-labeled fluorescence) has been found useful for the histochemical detection of endogenous AP activity and AP-tagged proteins and oligonucleotide probes. In this study, we evaluated its effectiveness at detecting endogenous AP activity by flow cytometry. METHODS: The ELF-97 phosphatase substrate was used to detect endogenous AP activity in UMR-106 rat osteosarcoma cells and primary cultures of chick chondrocytes. Cells were labeled with the ELF-97 reagent and analyzed by flow cytometry using an argon ultraviolet (UV) laser. For comparison purposes, cells were also assayed for AP using a Fast Red Violet LB azo dye assay previously described for use in detecting AP activity by flow cytometry. RESULTS: The ELF-97 phosphatase substrate effectively detected endogenous AP activity in UMR-106 cells, with over 95% of the resulting fluorescent signal resulting from AP-specific activity (as determined by levamisole inhibition of AP activity). In contrast, less than 70% of the fluorescent signal from the Fast Red Violet LB (FRV) assay was AP-dependent, reflecting the high intrinsic fluorescence of the unreacted components. The ELF-97 phosphatase assay was also able to detect very low AP activity in chick chondrocytes that was undetectable by the azo dye method. CONCLUSIONS: The ELF-97 phosphatase assay was able to detect endogenous AP activity in fixed mammalian and avian cells by flow cytometry with superior sensitivity to previously described assays. This work also shows the applicability of ELF-97 to flow cytometry, supplementing its previously demonstrated histochemical applications. Copyright 1999 Wiley-Liss, Inc.

Pseudogene accumulation might promote the adaptive microevolution of Yersinia pestis

DEFF Research Database (Denmark)

Tong, Zongzhong; Zhou, Dongsheng; Song, Yajun

2005-01-01

. pestis from different natural plague foci in China based on pseudogene profiles. Twenty-four mutations that led to inactivation in the corresponding genes were analysed, and a PCR-based screening method was employed to investigate the distribution of these mutations among Y. pestis isolates from...

Human Nanog pseudogene8 promotes the proliferation of gastrointestinal cancer cells

International Nuclear Information System (INIS)

Uchino, Keita; Hirano, Gen; Hirahashi, Minako; Isobe, Taichi; Shirakawa, Tsuyoshi; Kusaba, Hitoshi; Baba, Eishi; Tsuneyoshi, Masazumi; Akashi, Koichi

2012-01-01

There is emerging evidence that human solid tumor cells originate from cancer stem cells (CSCs). In cancer cell lines, tumor-initiating CSCs are mainly found in the side population (SP) that has the capacity to extrude dyes such as Hoechst 33342. We found that Nanog is expressed specifically in SP cells of human gastrointestinal (GI) cancer cells. Nucleotide sequencing revealed that NanogP8 but not Nanog was expressed in GI cancer cells. Transfection of NanogP8 into GI cancer cell lines promoted cell proliferation, while its inhibition by anti-Nanog siRNA suppressed the proliferation. Immunohistochemical staining of primary GI cancer tissues revealed NanogP8 protein to be strongly expressed in 3 out of 60 cases. In these cases, NanogP8 was found especially in an infiltrative part of the tumor, in proliferating cells with Ki67 expression. These data suggest that NanogP8 is involved in GI cancer development in a fraction of patients, in whom it presumably acts by supporting CSC proliferation. -- Highlights: ► Nanog maintains pluripotency by regulating embryonic stem cells differentiation. ► Nanog is expressed in cancer stem cells of human gastrointestinal cancer cells. ► Nucleotide sequencing revealed that Nanog pseudogene8 but not Nanog was expressed. ► Nanog pseudogene8 promotes cancer stem cells proliferation. ► Nanog pseudogene8 is involved in gastrointestinal cancer development.

What advice to give when ELF is classified as a possible human carcinogen

International Nuclear Information System (INIS)

Repacholi, M.

2002-01-01

In 1996, the World Health Organization (WHO) established the International Electromagnetic Fields (EMF) Project to address the health issues associated with exposure to EMF. This Project is intended to provide independent scientific assessment of health effects from exposure to EMF (0-300 GHz); identify gaps in knowledge requiring further research in order to improve health risk assessments; encourage focused, high quality research; and conduct formal WHO/IARC/ICNIRP health risk assessments after key research has been completed. The International EMF Project is currently reviewing research results and conducting risk assessments of exposure to static and extremely low frequency (ELF) electric and magnetic fields. WHO will be conducting an evaluation of all health effects from ELF field exposure during 2002-3. This paper summarizes what is known about ELF exposure on childhood leukaemia, what the IARC classification means and how some national authorities have responded. In addition, WHO recommendations are given to provide guidance to national authorities wanting to protect their populations against EMF exposure. Whenever electricity is conducted through transmission lines, distribution lines or is used in appliances, both electric and magnetic fields exist close to the lines or appliances. The power frequency used is 50 or 60 Hz. Use of electric power has become part of everyday life. However, questions have been raised as to whether these and other ELF fields are carcinogenic or can produce any other effects on health

Extremely Low Frequency (ELF) Communications System Ecological Monitoring Program: Plan and Summary of 1982 Progress.

Science.gov (United States)

1983-08-01

Scientific studies were funded through a peer-reviewed, competitive bidding process in mid-1982, and studies were initiated at the Wisconsin and Michigan ELF...Naval Electronic Systems Command (NESC) during and subsequent to the ELF Comunications Program environmental impact evaluation process, includ- ing the... scientific review of ELF electromagnetic field effects made by the National Academy of Sciences in 1977. This document generally describes the

Analysis of impulse signals with Hylaty ELF station

Science.gov (United States)

Kulak, A.; Mlynarczyk, J.; Ostrowski, M.; Kubisz, J.; Michalec, A.

2012-04-01

Lighting discharges generate electromagnetic field pulses that propagate in the Earth-ionosphere waveguide. The attenuation in the ELF range is so small that the pulses originating from strong atmospheric discharges can be observed even several thousand kilometers away from the individual discharge. The recorded waveform depends on the discharge process, the Earth-ionosphere waveguide properties on the source-receiver path, and the transfer function of the receiver. If the distance from the source is known, an inverse method can be used for reconstructing the current moment waveform and the charge moment of the discharge. In order to reconstruct the source parameters from the recorded signal a reliable model of the radio wave propagation in the Earth-ionosphere waveguide as well as practical signal processing techniques are necessary. We present two methods, both based on analytical formulas. The first method allows for fast calculation of the charge moment of relatively short atmospheric discharges. It is based on peak amplitude measurement of the recorded magnetic component of the ELF EM field and it takes into account the receiver characteristics. The second method, called "inverse channel method" allows reconstructing the complete current moment waveform of strong atmospheric discharges that exhibit the continuing current phase, such as Gigantic Jets and Sprites. The method makes it possible to fully remove from the observed waveform the distortions related to the receiver's impulse response as well as the influence of the Earth-ionosphere propagation channel. Our ELF station is equipped with two magnetic antennas for Bx and By components measurement in the 0.03 to 55 Hz frequency range. ELF Data recording is carried out since 1993, with continuous data acquisition since 2005. The station features low noise level and precise timing. It is battery powered and located in the sparsely populated area, far from major electric power lines, which results in high

Registration of ELF waves in rocket-satellite experiment with plasma injection

Science.gov (United States)

Korobeinikov, V. G.; Oraevskii, V. N.; Ruzhin, Iu. Ia.; Sobolev, Ia. P.; Skomarovskii, V. S.; Chmyrev, V. M.; Namazov, C. A.; Pokhunkov, A. A.; Nesmeianov, V. I.

1992-12-01

Two rocket KOMBI-SAMA experiments with plasma injection at height 100-240 km were performed in August 1987 in the region of Brazilian magnetic anomaly (L = 1.25). The launching time of the rocket was determined so that plasma injection was at the time when COSMOS 1809 satellite passed as close as possible to magnetic tube of injection. Caesium plasma jet was produced during not less than 300 s by an electric plasma generator separated from the payload. When the satellite passed the geomagnetic tube intersecting the injection region an enhancement of ELF emission at 140 Hz, 450 Hz by a factor of 2 was registered on board the satellite. An enhancement of energetic particle flux by a factor of 4-5 was registered on board the rocket. Observed ELF emission below 100 Hz is interpreted as the generation of oblique electromagnetic ion-cyclotron waves due to drift plasma instability at the front of the plasma jet.

Inactivation of TGF-β signaling in lung cancer results in increased CDK4 activity that can be rescued by ELF

International Nuclear Information System (INIS)

Baek, Hye Jung; Kim, Sang Soo; Silva, Fabio May da; Volpe, Eugene A.; Evans, Stephen; Mishra, Bibhuti; Mishra, Lopa; Blair Marshall, M.

2006-01-01

Escape from TGF-β inhibition of proliferation is a hallmark of multiple cancers including lung cancer. We explored the role of ELF, crucial TGF-β adaptor protein identified from endodermal progenitor cells, in lung carcinogenesis and cell-cycle regulation. Interestingly, elf -/- mice develop multiple defects that include lung, liver, and cardiac abnormalities. Four out of 6 lung cancer and mesothelioma cell lines displayed deficiency of ELF expression with increased CDK4 expression. Immunohistochemistry and Western blot analysis of primary human lung cancers also showed decreased ELF expression and overexpression of CDK4. Moreover, rescue of ELF in ELF-deficient cell lines decreased the expression of CDK4 and resulted in accumulation of G1/S checkpoint arrested cells. These results suggest that disruption in TGF-β signaling mediated by loss of ELF in lung cancer leads to cell-cycle deregulation by modulating CDK4 and ELF highlights a key role of TGF-β adaptor protein in suppressing early lung cancer

Human Nanog pseudogene8 promotes the proliferation of gastrointestinal cancer cells

Energy Technology Data Exchange (ETDEWEB)

Uchino, Keita, E-mail: uchino13@intmed1.med.kyushu-u.ac.jp [Department of Medicine and Biosystemic Science, Kyushu University Graduate School of Medical Sciences, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582 (Japan); Hirano, Gen [Department of Medicine and Biosystemic Science, Kyushu University Graduate School of Medical Sciences, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582 (Japan); Hirahashi, Minako [Department of Anatomic Pathology, Graduate School of Medical Sciences, Kyushu University, Fukuoka (Japan); Isobe, Taichi; Shirakawa, Tsuyoshi; Kusaba, Hitoshi; Baba, Eishi [Department of Medicine and Biosystemic Science, Kyushu University Graduate School of Medical Sciences, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582 (Japan); Tsuneyoshi, Masazumi [Department of Anatomic Pathology, Graduate School of Medical Sciences, Kyushu University, Fukuoka (Japan); Akashi, Koichi [Department of Medicine and Biosystemic Science, Kyushu University Graduate School of Medical Sciences, 3-1-1 Maidashi, Higashi-ku, Fukuoka 812-8582 (Japan)

2012-09-10

There is emerging evidence that human solid tumor cells originate from cancer stem cells (CSCs). In cancer cell lines, tumor-initiating CSCs are mainly found in the side population (SP) that has the capacity to extrude dyes such as Hoechst 33342. We found that Nanog is expressed specifically in SP cells of human gastrointestinal (GI) cancer cells. Nucleotide sequencing revealed that NanogP8 but not Nanog was expressed in GI cancer cells. Transfection of NanogP8 into GI cancer cell lines promoted cell proliferation, while its inhibition by anti-Nanog siRNA suppressed the proliferation. Immunohistochemical staining of primary GI cancer tissues revealed NanogP8 protein to be strongly expressed in 3 out of 60 cases. In these cases, NanogP8 was found especially in an infiltrative part of the tumor, in proliferating cells with Ki67 expression. These data suggest that NanogP8 is involved in GI cancer development in a fraction of patients, in whom it presumably acts by supporting CSC proliferation. -- Highlights: Black-Right-Pointing-Pointer Nanog maintains pluripotency by regulating embryonic stem cells differentiation. Black-Right-Pointing-Pointer Nanog is expressed in cancer stem cells of human gastrointestinal cancer cells. Black-Right-Pointing-Pointer Nucleotide sequencing revealed that Nanog pseudogene8 but not Nanog was expressed. Black-Right-Pointing-Pointer Nanog pseudogene8 promotes cancer stem cells proliferation. Black-Right-Pointing-Pointer Nanog pseudogene8 is involved in gastrointestinal cancer development.

Assessment of ELF magnetic fields produced by independent power lines

International Nuclear Information System (INIS)

Lucca, G.

2008-01-01

In this paper, the problem of assessing the ELF (extremely low-frequency) magnetic fields produced, in a certain area characterised by the presence of more than one independent power line, is faced. The use of the incoherent summation of the single contributions, as an advantageous estimator of the total magnetic field, is proposed and justified by means of a heuristic procedure. This kind of approach can be seen as a useful and practical tool to be employed in environmental impact analysis and in assessing long-term human exposure to ELF magnetic fields. (authors)

Is there ELF in ELT coursebooks?

Directory of Open Access Journals (Sweden)

Paola Vettorel

2013-10-01

Full Text Available This article aims to explore whether well-attested findings in the fields of World Englishes (WE and of English as a lingua franca (ELF have determined a shift in perspective in the overall approach to English language teaching (ELT, and how far this shift has permeated teaching materials and coursebooks. The research study was carried out in Italy, a country where ELT coursebooks have often played a relevant role in introducing innovations in language teaching methodology. The research design included a corpus of ten coursebooks that have been published and adopted in Italian secondary schools in the last 6 years. The coursebooks were evaluated in terms of the presence or absence of references to WE and/or ELF, of awareness-raising activities, of the promotion of using English outside the school environment and of the use of effective English communication and intercultural strategies among nonnative speakers. Findings show that there have been no significant changes in the inclusion of WE- and ELForiented materials and related tasks, apart from the area of promotion of cultural and intercultural awareness.

ELF magnetic therapy and oxidative balance.

Science.gov (United States)

Raggi, Francesco; Vallesi, Giuseppe; Rufini, Stefano; Gizzi, Stefania; Ercolani, Enrico; Rossi, Ruggero

2008-01-01

Knowledge about the relationship between exposure to extremely low-frequency (ELF) EMF and formation (or neutralization) of free radicals in the living cells is limited. Studies performed on animals and plants have shown conflicting effects on the relation between EMF and oxidative stress. Very few experiments have been performed on humans. The present study reports on the effects of an ELF magnetic therapy device (Seqex) on oxidative scale in humans. This device supplies complex magnetic signals with specific choices of frequency, intensity, and shape that are based on Liboff's ion cyclotron resonance hypothesis. Thirty-two healthy volunteers were treated using the Seqex cycle. A quantitative determination of oxidative stress was obtained at three time points by measuring Malondialdehyde (MDA) concentrations in peripheral blood before and after the cycle and one month following completion of the cycle. A highly significant reduction in mean MDA (53.8%, p = 0.0002) was found at the end of the treatment. One month later the mean MDA had again risen, but there was still a significant overall reduction of 15.6% (p = 0.010) compared to original values.

Structure of gene and pseudogenes of human apoferritin H

Energy Technology Data Exchange (ETDEWEB)

Costanzo, F; Colombo, M; Staempfli, S; Santoro, C; Marone, M; Frank, K; Delius, H; Cortese, R

1986-01-24

Ferritin is composed of two subunits, H and L. cDNA's coding for these proteins from human liver, lymphocytes and from the monocyte-like cell line U937 have been cloned and sequenced. Southern blot analysis on total human DNA reveals that there are many DNA segments hybridizing to the apoferritin H and L cDNA probes. In view of the tissue heterogeneity of ferritin molecules, it appeared possible that apoferritin molecules could be coded by a family of genes differentially expressed in various tissues. In this paper, the authors describe the cloning and sequencing of the gene coding for human apoferritin H. This gene has three introns; the exon sequence is identical to that of cDNAs isolated from human liver, lymphocytes, HeLa cells and endothelial cells. In addition they show that at least 15 intronless pseudogenes exist, with features suggesting that there were originated by reverse transcription and insertion. On the basis of these results they conclude that only one gene is responsible for the synthesis of the majority of apoferritin H mRNA in various tissues examined, and that probably all the other DNA segments hybridizing with apoferritin cDNA are pseudogenes.

Phosphorylation of protein synthesis initiation factor 2 (elF-2) in the yeast Saccharomyces cerevisiae

International Nuclear Information System (INIS)

Romero, D.P.

1986-01-01

Initiation Factor 2 (elF-2) in the yeast Saccharomyces cerevisiae is comprised of 3 subunits. The control of protein synthesis in mammalian cells have been shown to involve the phosphorylation of the small (alpha) subunit by a specific protein kinase. Phosphorylation results in an inhibition of protein synthesis. In order to determine whether or not an analogous system is operative in yeast, the phosphorylation state of the alpha subunit of elF-2 in Saccharomyces was determined during various growth and nongrowth conditions. Cells were radiolabelled with 32 P and 35 S, and the whole cell lysates were analyzed by two dimensional gel electrophoresis. These experiments revealed that the smallest subunit (alpha, M/sub r/ = 31,000) is a phosphoprotein in vivo under a variety of growth and nongrowth conditions. This is in direct contrast to the pattern exhibited in mammalian cells. The fact that the small subunit of elF-2 in yeast is phosphorylated under a variety of physiological conditions indicates that such a covalent modification is important for some aspects of elF-2 function. In order to investigate this problem further, a protein kinase that specifically labels the alpha subunit of elF-2 in vitro was isolated. The kinase is not autophosphorylating, utilizes ATP as a phosphate donor, phosphorylates an exogenous protein, casein, modifies serine residues in elF-2, is cyclic nucleotide-independent, and is strongly inhibited by heparin

Rapid differentiation of Staphylococcus aureus isolates harbouring egc loci with pseudogenes psient1 and psient2 and the selu or seluv gene using PCR-RFLP.

Science.gov (United States)

Collery, Mark M; Smyth, Cyril J

2007-02-01

The egc locus of Staphylococus aureus harbours two enterotoxin genes (seg and sei) and three enterotoxin-like genes (selm, seln and selo). Between the sei and seln genes are located two pseudogenes, psient1 and psient2, or the selu or seluv gene. While these two alternative sei-seln intergenic regions can be distinguished by PCR, to date, DNA sequencing has been the only confirmatory option because of the very high degree of sequence similarity between egc loci bearing the pseudogenes and the selu or seluv gene. In silico restriction enzyme digestion of genomic regions encompassing the egc locus from the 3' end of the sei gene through the 5' first quarter of the seln gene allowed pseudogene- and selu- or seluv-bearing egc loci to be distinguished by PCR-RFLP. Experimental application of these findings demonstrated that endonuclease HindIII cleaved PCR amplimers bearing pseudogenes but not those with a selu or seluv gene, while selu- or seluv-bearing amplimers were susceptible to cleavage by endonuclease HphI, but not by endonuclease HindIII. The restriction enzyme BccI cleaved selu- or seluv-harbouring amplimers at a unique restriction site created by their signature 15 bp insertion compared with pseudogene-bearing amplimers, thereby allowing distinction of these egc loci. PCR-RFLP analysis using these restriction enzymes provides a rapid, easy to interpret alternative to DNA sequencing for verification of PCR findings on the nature of an egc locus type, and can also be used for the primary identification of the intergenic sei-seln egc locus type.

Evolution of the paralogous hap and iga genes in Haemophilus influenzae: evidence for a conserved hap pseudogene associated with microcolony formation in the recently diverged Haemophilus aegyptius and H. influenzae biogroup aegyptius

DEFF Research Database (Denmark)

Kilian, Mogens; Poulsen, Knud; Lomholt, Hans Bredsted

2002-01-01

genetic polymorphism and pronounced mosaic-like patterns in both genes, but no evidence of intrastrain recombination between the two genes. A conserved hap pseudogene was present in all strains of H. aegyptius and H. influenzae biogroup aegyptius, each of which constituted distinct subpopulations...... on conjunctival cells, previously termed microcolony formation. The fact that individual hap pseudogenes differed from the ancestral sequence by zero to two positions within a 1.5 kb stretch suggests that the silencing event happened approximately 2000-11,000 years ago. Divergence of H. aegyptius and H...

Acyl-CoA-binding protein/diazepam-binding inhibitor gene and pseudogenes

DEFF Research Database (Denmark)

Mandrup, S; Hummel, R; Ravn, S

1992-01-01

Acyl-CoA-binding protein (ACBP) is a 10 kDa protein isolated from bovine liver by virtue of its ability to bind and induce the synthesis of medium-chain acyl-CoA esters. Surprisingly, it turned out to be identical to a protein named diazepam-binding Inhibitor (DBI) claimed to be an endogenous mod...... have molecularly cloned and characterized the ACBP/DBI gene family in rat. The rat ACBP/DBI gene family comprises one expressed gene and four processed pseudogenes of which one was shown to exist in two allelic forms. The expressed gene is organized into four exons and three introns...

Chaos control and synchronization of two neurons exposed to ELF external electric field

International Nuclear Information System (INIS)

Wang Jiang; Zhang Ting; Che Yanqiu

2007-01-01

Chaos control and synchronization of two unidirectional coupled neurons exposed to ELF electrical field via nonlinear control technique is investigated. Based on results of space-time characteristics of trans-membrane voltage, the variation of cell trans-membrane voltage exposed to extremely low frequency (ELF) electric field is analyzed. The dynamical behaviors of the modified Hodgkin-Huxley (HH) model are identified under the periodic ELF electric field using both analytical and numerical analysis. Then, using the results of the analysis, a nonlinear feedback linearization control scheme and a modified adaptive control strategy are designed to synchronize the two unidirectional coupled neurons and stabilize the chaotic trajectory of the slave system to desired periodic orbit of the master system. The simulation results demonstrated the efficiency of the proposed algorithms

Cytogenetic damage in adult and newborn mice exposed to Elf magnetic fields

Energy Technology Data Exchange (ETDEWEB)

Ieradi, L.A. [Istituto per lo Studio degli Ecosistemi, CNR, Rome (Italy); Udroiu, I.; Chiuchiarelli, G.; Migliorini, D.; Cristaldi, M. [Universite La Sapienza, Dipt. di Biologia Animale e dell' Uomo, Rome (Italy); Tanzarella, C. [Roma Univ., Dipt. di Biologia (Italy)

2006-07-01

Data obtained in newborn mice show that the chronic exposure during intra-uterine life to a 50 Hz, 650 {mu}T E.L.F. magnetic field induce a genetic damage. Nevertheless, the increase of DNA strand break in brain and in micronuclei frequency in peripheral blood and liver disagree with the data obtained by Abramsson-Zetterberg and Grawe (13) which did not find any genetic alterations in mice exposed to extremely low frequency (E.L.F.) magnetic field. In any case, along with other dissimilarities in the experimental design, the intensity of the field (14 {mu}T) and the time of sampling (35 days) were different. It is important to underline the four-fold increase in C.R.E.S.T.+ micronuclei frequency in circulating erythrocytes in the exposed group in comparison with the control group. Even though this value is quite low, it could indicate that E.L.F. magnetic fields may have different properties to damage the genome integrity. This stresses the need for further investigation on the possible link between electromagnetic fields and aneuploidy in order to elucidate the relationship with carcinogenesis. Preliminary data obtained with sperm abnormality assay show a significant increase of sperm abnormalities in mice exposed to E.L.F. magnetic fields and suggest a possible alteration to the spermatogenic process after exposure. This data agrees with data obtained by Tablado et al. (1998), in mice exposed continually for 35 days to a field of 1 T. Regarding the palatal ridges alterations assay, the results obtained show that the development of the secondary palate is not affected by E.L.F. magnetic field (50 Hz, 0,65 T). Nevertheless further studies at different frequency and intensity should be carried out to detect the possible epigenetic damage induced by E.L.F. exposure (Migliorini, 2005). With regard to the mechanism of action, it is generally believed that the damage induced by the magnetic field is an oxidative damage and that free radicals are involved. Some authors

Cytogenetic damage in adult and newborn mice exposed to Elf magnetic fields

International Nuclear Information System (INIS)

Ieradi, L.A.; Udroiu, I.; Chiuchiarelli, G.; Migliorini, D.; Cristaldi, M.; Tanzarella, C.

2006-01-01

Data obtained in newborn mice show that the chronic exposure during intra-uterine life to a 50 Hz, 650 μT E.L.F. magnetic field induce a genetic damage. Nevertheless, the increase of DNA strand break in brain and in micronuclei frequency in peripheral blood and liver disagree with the data obtained by Abramsson-Zetterberg and Grawe (13) which did not find any genetic alterations in mice exposed to extremely low frequency (E.L.F.) magnetic field. In any case, along with other dissimilarities in the experimental design, the intensity of the field (14 μT) and the time of sampling (35 days) were different. It is important to underline the four-fold increase in C.R.E.S.T.+ micronuclei frequency in circulating erythrocytes in the exposed group in comparison with the control group. Even though this value is quite low, it could indicate that E.L.F. magnetic fields may have different properties to damage the genome integrity. This stresses the need for further investigation on the possible link between electromagnetic fields and aneuploidy in order to elucidate the relationship with carcinogenesis. Preliminary data obtained with sperm abnormality assay show a significant increase of sperm abnormalities in mice exposed to E.L.F. magnetic fields and suggest a possible alteration to the spermatogenic process after exposure. This data agrees with data obtained by Tablado et al. (1998), in mice exposed continually for 35 days to a field of 1 T. Regarding the palatal ridges alterations assay, the results obtained show that the development of the secondary palate is not affected by E.L.F. magnetic field (50 Hz, 0,65 T). Nevertheless further studies at different frequency and intensity should be carried out to detect the possible epigenetic damage induced by E.L.F. exposure (Migliorini, 2005). With regard to the mechanism of action, it is generally believed that the damage induced by the magnetic field is an oxidative damage and that free radicals are involved. Some authors

Interaction of biological systems with static and ELF electric and magnetic fields

Energy Technology Data Exchange (ETDEWEB)

Anderson, L.E.; Kelman, B.J.; Weigel, R.J. (eds.)

1987-01-01

Although background levels of atmospheric electric and geomagnetic field levels are extremely low, over the past several decades, human beings and other life forms on this planet have been subjected to a dramatically changing electromagnetic milieu. An exponential increase in exposure to electromagnetic fields has occurred, largely because of such technological advances as the growth of electrical power generation and transmission systems, the increased use of wireless communications, and the use of radar. In addition, electromagnetic field generating devices have proliferated in industrial plants, office buildings, homes, public transportation systems, and elsewhere. Although significant increases have occurred in electromagnetic field strenghths spanning all frequency ranges, this symposium addresses only the impact of these fields at static and extremely low frequencies (ELF), primarily 50 and 60 Hz. This volume contains the proceedings of the symposium entitled /open quotes/Interaction of biological systems with static and ELF electric and magnetic fields/close quotes/. The purpose of the symposium was to provide a forum for discussions of all aspects of research on the interaction of static and ELF electromagnetic fields with biological systems. These systems include simple biophysical models, cell and organ preparations, whole animals, and man. Dosimetry, exposure system design, and artifacts in ELF bioeffects research were also addressed, along with current investigations that examine fundamental mechanisms of interactions between the fields and biological processes. Papers are indexed separately.

The ocean depths: Elf's target for 1997

International Nuclear Information System (INIS)

Anon.

1995-01-01

Elf has long since been aware of the potential of sedimentary basins in the ocean depths. For this reason, the group has been preparing to descend to these depths for many years. Today, it is setting itself the target of being ready to optimise as from 1997 a discovery made in the depth between 400 and 1500 m of water in Africa. In the Gulf of Guinea, most of the neighbouring countries have opened up their deep sea offshore areas, in order to try to renew their reserves on the verge of the third millennium. Indeed a great similarity can be seen between the West African and the Brazilian ocean depths. In the African offshore areas, Elf has acquired or renewed eight blocks, four of which are in Nigeria, one in the Congo, one in Gabon and two in Angola. The group is also interested in the ocean depths which are now accessible in the North Sea, whether in the Norwegian (Voring and More) of British (Western Shetlands) areas. (author). 1 fig

Fandom dan Konsumsi Media: Studi Etnografi Kelompok Penggemar Super Junior, ELF Jogja

OpenAIRE

Sari, Ratna Permata

2016-01-01

Korean Wave (music, movie, and drama), recently, accept a lot of attention from Indonesian teenagers. Thanks to the power of mass media, Korean music, or we called it KPop, beginning to spread it virus throughout the world by the emerging of Fandom. Super Junior as one of the pioneer of Korean boy band become the group that has the largest fan club in the world named ELF. This research examines the private media consumption behavior by ELF Jogja and the interaction between its members in orga...

Study of extremely low frequency electromagnetic field (ELF EMF) radiation produced by consumer products

International Nuclear Information System (INIS)

Roha Tukimin; Ahmad Fazli Ahmad Sanusi; Rozaimah Abd Rahim; Mohd Yusof Mohd Ali; Mohamad Amirul Nizam Mohamad Thari

2006-01-01

Extremely low frequency electromagnetic field ( ELF EMF) radiation falls under category of non-ionising radiation (NIR).ELF EMF consists of electric and magnetic fields. Excessive exposure to ELF EMF radiation may cause biological and health effects to human beings such as behavioral changes, stochastic and as initiator of cancer. In daily life, the main source of extremely low frequency electromagnetic radiation are consumer products in our home and office. Due to its ability to cause hazard, a study of ELF EMF radiation produced by consumer product was conducted. For this preliminary study, sample of 20 types electrical appliances were selected. The measurement was covered electric and magnetic field strength produced by the sample. PMM model EHP50A were used for measurement and data analysis. The results were compared with the permissible limits recommended by International Commission of Non-Ionising Radiation Protection (ICNIRP) for members of public (1000 mGauss and 5000 V/m). The results showed that all tested sample produced magnetic and electric field but still under the permissible limit recommended by ICNIRP. Besides that we found that field strengths can be very high at closer distance to the sample. (Author)

Pervasive survival of expressed mitochondrial rps14 pseudogenes in grasses and their relatives for 80 million years following three functional transfers to the nucleus

Directory of Open Access Journals (Sweden)

Palmer Jeffrey D

2006-07-01

Full Text Available Abstract Background Many mitochondrial genes, especially ribosomal protein genes, have been frequently transferred as functional entities to the nucleus during plant evolution, often by an RNA-mediated process. A notable case of transfer involves the rps14 gene of three grasses (rice, maize, and wheat, which has been relocated to the intron of the nuclear sdh2 gene and which is expressed and targeted to the mitochondrion via alternative splicing and usage of the sdh2 targeting peptide. Although this transfer occurred at least 50 million years ago, i.e., in a common ancestor of these three grasses, it is striking that expressed, nearly intact pseudogenes of rps14 are retained in the mitochondrial genomes of both rice and wheat. To determine how ancient this transfer is, the extent to which mitochondrial rps14 has been retained and is expressed in grasses, and whether other transfers of rps14 have occurred in grasses and their relatives, we investigated the structure, expression, and phylogeny of mitochondrial and nuclear rps14 genes from 32 additional genera of grasses and from 9 other members of the Poales. Results Filter hybridization experiments showed that rps14 sequences are present in the mitochondrial genomes of all examined Poales except for members of the grass subfamily Panicoideae (to which maize belongs. However, PCR amplification and sequencing revealed that the mitochondrial rps14 genes of all examined grasses (Poaceae, Cyperaceae, and Joinvilleaceae are pseudogenes, with all those from the Poaceae sharing two 4-NT frameshift deletions and all those from the Cyperaceae sharing a 5-NT insertion (only one member of the Joinvilleaceae was examined. cDNA analysis showed that all mitochondrial pseudogenes examined (from all three families are transcribed, that most are RNA edited, and that surprisingly many of the edits are reverse (U→C edits. Putatively nuclear copies of rps14 were isolated from one to several members of each of these

Prospects of hadron and quark physics with electromagnetic probes. Proceedings of the second ELFE workshop on Hadronic Physics

International Nuclear Information System (INIS)

D'Hose, N.; Frois, B.; Guichon, P.A.M.; Pire, B.; Van de Wiele, J.

1996-01-01

The last three days of the second ELFE workshop on confinement physics were devoted to the results of the work during the past year on the update and improvement of the physics case, the feasibility of the ELFE at DESY project (which combines the HERA ring used as a stretcher and a low duty factor 25 GeV electron linac which could be either a section of the TESLA collider or the injector of the foreseen short wave length free electron laser) as well as the development of the detectors. The participations have been decided into 5 copies: inclusive and semi-inclusive reactions; real photon physics, exclusive reactions; color transparency; detectors. (author)

Prospects of hadron and quark physics with electromagnetic probes. Proceedings of the second ELFE workshop on Hadronic Physics

Energy Technology Data Exchange (ETDEWEB)

D' Hose, N; Frois, B; Guichon, P A.M. [CEA Saclay, 91 - Gif-sur-Yvette (France). Dept. d' Astrophysique, de la Physique des Particules, de la Physique Nucleaire et de l' Instrumentation Associee; Pire, B [Ecole Polytechnique, 91 - Palaiseau (France). Centre de Physique Theorique; Van de Wiele, J [Institut de Physique Nucleaire, 91 - Orsay (France). Division de Recherche Experimentale

1996-07-01

The last three days of the second ELFE workshop on confinement physics were devoted to the results of the work during the past year on the update and improvement of the physics case, the feasibility of the ELFE at DESY project(which combines the HERA ring used as a stretcher and a low duty factor 25 GeV electron linac which could be either a section of the TESLA collider or the injector of the foreseen short wave length free electron laser) as well as the development of the detectors. The participations have been decided into 5 copies: inclusive and semi-inclusive reactions; real photon physics, exclusive reactions; color transparency; detectors. (author)

The small RNA content of human sperm reveals pseudogene-derived piRNAs complementary to protein-coding genes

Science.gov (United States)

Pantano, Lorena; Jodar, Meritxell; Bak, Mads; Ballescà, Josep Lluís; Tommerup, Niels; Oliva, Rafael; Vavouri, Tanya

2015-01-01

At the end of mammalian sperm development, sperm cells expel most of their cytoplasm and dispose of the majority of their RNA. Yet, hundreds of RNA molecules remain in mature sperm. The biological significance of the vast majority of these molecules is unclear. To better understand the processes that generate sperm small RNAs and what roles they may have, we sequenced and characterized the small RNA content of sperm samples from two human fertile individuals. We detected 182 microRNAs, some of which are highly abundant. The most abundant microRNA in sperm is miR-1246 with predicted targets among sperm-specific genes. The most abundant class of small noncoding RNAs in sperm are PIWI-interacting RNAs (piRNAs). Surprisingly, we found that human sperm cells contain piRNAs processed from pseudogenes. Clusters of piRNAs from human testes contain pseudogenes transcribed in the antisense strand and processed into small RNAs. Several human protein-coding genes contain antisense predicted targets of pseudogene-derived piRNAs in the male germline and these piRNAs are still found in mature sperm. Our study provides the most extensive data set and annotation of human sperm small RNAs to date and is a resource for further functional studies on the roles of sperm small RNAs. In addition, we propose that some of the pseudogene-derived human piRNAs may regulate expression of their parent gene in the male germline. PMID:25904136

ELF in English language teaching: Researching attitudes of Serbian academic community

Directory of Open Access Journals (Sweden)

Ošmjanski Vera B.

2016-01-01

Full Text Available The aim of the empirical part of the research was to explore the attitude of the Serbian academic community towards the English language used as lingua franca (ELF, i.e. neutral variety of the English language. The results might be a starting point in considering whether to include ELF in the language policy and, consequently, into English curricula in Serbia. The research included members of Serbian academic community, students of different departments, and English language teachers in the state owned and privately owned universities in Belgrade, Novi Sad and Nis. After examining their attitudes towards key postulates of ELF the conclusions are that it is necessary to start discussions about the concepts of the variety and to reassess current deeply rooted ideas about the English language from the perspective of modern linguistic trends. The need for a more liberal approach to the variety is not generated only in the needs of the market, i.e. those people to whom English is a practical means of international communication, but also the need to adjust ELT (English Language Teaching to modern linguistic tendencies and the European Council recommendations.

Residential exposure from extremely low frequency electromagnetic field (ELF EMF) radiation

Science.gov (United States)

Parthasarathy, Shamesh Raj; Tukimin, Roha

2018-01-01

ELF EMF radiation have received considerable attention as a potential threat to the safety and health of people living in the vicinity of high voltage transmission lines, electric distribution substations, power stations and even in close proximity to electronics and electrical household appliances. The paper highlights the study on the ELF EMF safety assessment performed at residences comprising of an owner-occupied house, a completed vacant house and an under construction condominium. The objectives of this study were to determine the ELF EMF radiation exposure level from the high voltage transmission line, electric distribution substation, power station and electrical household appliances in the residences, and to assess the potential exposure received by the occupants at the assessed locations. The results were logged in the electric and magnetic field strength with the units of volt per meter (V/m) and miliGauss (mG) respectively. The instrument setup and measurement protocols during the assessment were adopted from standard measurement method and procedures stipulated under the Institute of Electrical and Electronics Engineers (IEEE) Standard. The results were compared with the standards recommended in the International Commission on Non-Ionizing Radiation Protection (ICNIRP) guidelines.

The Deceiving ELF? Can Englsh fulfil the role of a Lingua Franca?

Directory of Open Access Journals (Sweden)

Richard Chapman

2016-01-01

Full Text Available Abstract – The debate which surrounds the role of English as a lingua franca has been lively and extensive over the last twenty years or so. Numerous conferences and specific publications in the field testify to the interest and importance that the question of the development of a possible international functional language has stimulated. The present article aims to critically reassess the claims made for ELF and, at the same time, highlight the profound significance of the issues the debate has raised. Discussion of ELF has touched upon the perception of linguistic diversity, (inaccuracy and variation, intelligibility and the potential functions of an international language. Other topics of profound importance that are part of the debate relate to the role of any language in creating and maintaining identity, enabling social mobility and empowering its users. Some criticisms of ELF proposals have been easily rebutted, but this paper aims to underline the serious linguistic and socio-linguistic aspects of the debate in order to emphasize the need for a theoretical underpinning to our understanding of how language can operate in the global environment. Clarification of what we can and cannot know about language change and behavior will also contribute to ideas as to future research in ELF but will also bring us to the conclusion that predictions of the future development of ELF are of little purpose beyond the curiosity value they may possess. Keywords: English1; lingua franca2; non-native speaker3.     Abstract– Il dibattito intorno al ruolo di inglese intesa come lingua franca è vivace e largo da almeno venti anni. Le conferenze e pubblicazioni specifiche sull’argomento sono numerose e sono testimone di quanto è interessante e importante la questione dello sviluppo di una lingua internazionale funzionale e utile. L’articolo qui presentato ha lo scopo di valutare a rivalutare le speranze che si sono formate per l’inglese come

Effects of extremely low frequency electromagnetic field (ELF-EMF) on catalase, cytochrome P450 and nitric oxide synthase in erythro-leukemic cells.

Science.gov (United States)

Patruno, Antonia; Tabrez, Shams; Pesce, Mirko; Shakil, Shazi; Kamal, Mohammad A; Reale, Marcella

2015-01-15

Extremely low frequency electromagnetic fields (ELF-EMFs) are widely employed in electrical appliances and different equipment such as television sets, mobile phones, computers and microwaves. The molecular mechanism through which ELF-EMFs can influence cellular behavior is still unclear. A hypothesis is that ELF-EMFs could interfere with chemical reactions involving free radical production. Under physiologic conditions, cells maintain redox balance through production of ROS/RNS and antioxidant molecules. The altered balance between ROS generation and elimination plays a critical role in a variety of pathologic conditions including neurodegenerative diseases, aging and cancer. Actually, there is a disagreement as to whether there is a causal or coincidental relationship between ELF-EMF exposure and leukemia development. Increased ROS levels have been observed in several hematopoietic malignancies including acute and chronic myeloid leukemias. In our study, the effect of ELF-EMF exposure on catalase, cytochrome P450 and inducible nitric oxide synthase activity and their expression by Western blot analysis in myelogenous leukemia cell line K562 was evaluated. A significant modulation of iNOS, CAT and Cyt P450 protein expression was recorded as a result of ELF-EMF exposure in both phorbol 12-myristate 13-acetate (PMA)-stimulated and non-stimulated cell lines. Modulation in kinetic parameters of CAT, CYP-450 and iNOS enzymes in response to ELF-EMF indicates an interaction between the ELF-EMF and the enzymological system. These new insights might be important in establishing a mechanistic framework at the molecular level within which the possible effects of ELF-EMF on health can be understood. Copyright © 2014 Elsevier Inc. All rights reserved.

Artificial neural networks to estimate the EMF ELF on car travelling near power transmission line

Energy Technology Data Exchange (ETDEWEB)

Al-Sayegh, O.A.; Qabazard, A.M. [Kuwait Inst. for Scientific Research, Safat (Kuwait). advanced Systems Division of Environment and Urban

2007-07-01

An artificial neural network (ANN) was developed to determine the electromagnetic field (EMF) and extremely low frequency (ELF) intensity on a vehicle body at different distances from a high tension power line and at varying power loads. EMF radiated emissions from ELF source power transmission lines can produce interference in the electric components in vehicles traveling at variable speed near the power lines. The passengers in the vehicle may also experience EMF-related health problems. Although EMF has been recently categorized as a new form of pollution, the situation has been largely ignored by the industry. Typically, electromagnetic fields at different frequencies show the fastest growing environmental influences. All populations are now exposed to varying degrees of EMF and the levels will continue to increase as technology advances. The purpose of this work was to promote discussion and help find design solutions to manufacture a new device for measuring the EMF at variable speed. In this study, a set of near field measurements outside the vehicle were used to train ANN. Estimations of the EMF ELF for various distances from the high tension power line were presented. It was determined that the most important factors affecting the electric field model include exposure conditions; size, shape and position of the exposed body in the field; and, surface charge density. The EMF ELF was found to increase near sagging areas of the overhead power transmission line. The EMF ELF was found to be proportional to the total amps flowing through the line at the time of measurement. 14 refs., 3 figs.

ELFE at DESY, status of machine studies

International Nuclear Information System (INIS)

Tkatchenko, A.

1996-01-01

In this paper, the main outlines of the ELFE at DESY project are describes and the problems associated with the scenario proposed in july 1995 are reviewed. The results of the feasibility study recently carried out are presented and the achievable performances of the extracted beam in terms of emittance, energy spread and duty factor are given. (author)

ELFE at DESY, status of machine studies

Energy Technology Data Exchange (ETDEWEB)

Tkatchenko, A.

1996-12-31

In this paper, the main outlines of the ELFE at DESY project are describes and the problems associated with the scenario proposed in july 1995 are reviewed. The results of the feasibility study recently carried out are presented and the achievable performances of the extracted beam in terms of emittance, energy spread and duty factor are given. (author).

Utility of the ELF Test for Detecting Steatohepatitis in Morbid Obese Patients with Suspicion of Nonalcoholic Fatty Liver Disease.

Science.gov (United States)

López, Iria Cebreiros; Aroca, Florentina Guzmán; Bernal, Maria Dolores Frutos; Mompeán, Juan Antonio Luján; Bernal, Águeda Bas; Martínez, Antonio Miguel Hernández; Barba, Enrique Martínez; Velasco, Jose Antonio Noguera; Paricio, Pascual Parilla

2017-09-01

Morbid obese patients have a high rate of nonalcoholic fatty liver disease (NAFLD) and nonalcoholic steatohepatitis (NASH). NASH is related to the progression and poor evolution of chronic hepatopathy in NAFLD, so that its detection makes it possible to identify the subjects who are most at risk in order to prioritize treatment. The ELF test (Enhanced Liver Fibrosis test; Siemens Diagnostics, NY, USA) has been assessed for its capacity to detect fibrosis in patients with NAFLD, but its capacity for diagnosing NASH has not been checked. Our objective is to determine the utility of the ELF test for detecting NASH in morbid obese patients with suspected NAFLD. ELF values were determined in a cohort of obese patients who underwent bariatric surgery with suspected NAFLD. Liver biopsy was used as the reference standard. The values of ELF were significantly higher in patients with NASH (p = 0.002) and in those who presented with metabolic syndrome (p = 0.047). An ELF cut-off point of 8.72 allows the detection of patients with NASH with a sensitivity of 71.4% and a specificity of 74.1% (AUC = 0.742, p = 0.002). The ELF test is efficient for the identification of obese patients with NAFLD and early signs of steatohepatitis and fibrosis.

ELF and VLF signatures of sprites registered onboard the low altitude satellite DEMETER

Directory of Open Access Journals (Sweden)

J. Błęcki

2009-06-01

Full Text Available We report the observation of ELF and VLF signature of sprites recorded on the low altitude satellite DEMETER during thunderstorm activity. At an altitude of ~700 km, waves observed on the E-field spectrograms at mid-to-low latitudes during night time are mainly dominated by up-going 0+ whistlers. During the night of 20 July 2007 two sprites have been observed around 20:10:08 UT from the observatory located on the top of the mountain Śnieżka in Poland (50°44'09" N, 15°44'21" E, 1603 m and, ELF and VLF data have been recorded by the satellite at about 1200 km from the region of thunderstorm activity. During this event, the DEMETER instruments were switched in the burst mode and it was possible to register the wave forms. It is shown that the two sprites have been triggered by two intense +CG lightning strokes (100 kA occurring during the same millisecond but not at the same location. Despite the distance DEMETER has recorded at the same time intense and unusual ELF and VLF emissions. It is shown that the whistler wave propagates from the thunderstorm regions in the Earth-ionosphere guide and enters in the ionosphere below the satellite. They last several tens of milliseconds and the intensity of the ELF waveform is close to 1 mV/m. A particularly intense proton whistler is also associated with these emissions.

Properties of ELF electromagnetic waves in and above the earth's ionosphere deduced from plasma wave experiments on the OV1-17 and Ogo 6 satellites

International Nuclear Information System (INIS)

Kelley, M.C.; Tsurutani, B.T.; Mozer, F.S.

1975-01-01

An analysis of ac electric field data obtained on board the OV1-17 satellite and ac magnetic field data obtained on board the Ogo 6 satellite has been made during the northern hemisphere spring and summer of 1969 with the purpose of studying extreme low frequency (ELF) electromagnetic waves above the earth's ionosphere. The results are in basic agreement with a number of previous ground-based and low-altitude satellite experiments in that the peak signal was observed at high latitudes outside the statistical location of the plasmapause on the day side of the earth, that ELF chorus was very often observed in conjunction with the steady ELF hiss emissions, that the winter hemisphere signal was considerably smaller than that observed in summer or in equinoctial months, and that the emission strength and region of occurrence are asymmetric about magnetic noon. Observations of such strong hiss signals outside the plasmasphere are somewhat surprising in light of Ogo 3 and Ogo 5 measurements which show steady ELF hiss to be closely confined to the plasmasphere at high altitudes during normal circumstances. The present study supports the hypothesis that hiss leaks out of the plasmasphere and refracts downward into the lower ionosphere; such a model predicts the observed summer-winter asymmetry and the poleward skewing of the ELF peak signal strength with decreasing altitude

Excitation of the Magnetospheric Cavity by Space-Based ELF/VLF Transmitters

National Research Council Canada - National Science Library

Bell, Timothy F; Inan, Umran; Kulkarni, P

2004-01-01

During the period of performance Stanford University: 1. Developed an analytical model describing the distribution of current along a dipole antenna radiating ELF/VLF waves in the magnetospheric cavity...

Integration of mtDNA pseudogenes into the nuclear genome coincides with speciation of the human genus. A hypothesis.

Science.gov (United States)

Gunbin, Konstantin; Peshkin, Leonid; Popadin, Konstantin; Annis, Sofia; Ackermann, Rebecca R; Khrapko, Konstantin

2017-05-01

Fragments of mitochondrial DNA are known to get inserted into nuclear DNA to form NUMTs, i.e. nuclear pseudogenes of the mtDNA. The insertion of a NUMT is a rare event. Hundreds of pseudogenes have been cataloged in the human genome. NUMTs are, in essence, a special type of mutation with their own internal timer, which is synchronized with an established molecular clock, the mtDNA. Thus insertion of NUMTs can be timed with respect to evolution milestones such as the emergence of new species. We asked whether NUMTs were inserted uniformly over time or preferentially during certain periods of evolution, as implied by the "punctuated evolution" model. To our surprise, the NUMT insertion times do appear nonrandom with at least one cluster positioned at around 2.8 million years ago (Ma). Interestingly, 2.8Ma closely corresponds to the time of emergence of the genus Homo, and to a well-documented period of major climate change ca. 2.9-2.5Ma. It is tempting to hypothesize that the insertion of NUMTs is related to the speciation process. NUMTs could be either "riders", i.e., their insertion could be facilitated by the overall higher genome rearrangement activity during speciation, or "drivers", i.e. they may more readily get fixed in the population due to positive selection associated with speciation. If correct, the hypothesis would support the idea that evolution of our genus may have happened in a rapid, punctuated manner. Copyright © 2016 Elsevier B.V. and Mitochondria Research Society. All rights reserved.

Genotoxicity and ELF-magnetic fields: a review through the micronucleus assay

International Nuclear Information System (INIS)

Alcaraz, M.; Andreu-Galvez, M.; Sanchez-Villalobos, J. M.; Achel, D. G.; Olmos, E.; Martinez-Hernandez, C. M.

2012-01-01

Thirty for (34) published studies, conducted from 1994 to the present to evaluate the genotoxic effect of magnetic fields using ELF-EMF and diagnostic resonance on humans by the micronucleus assay have been reviewed. some characteristics of the assay methods, their significance to genotoxicity and basic interpretations of the results of these assays are discussed. of the studies analysed 70.5% implicated genotoxic effects induced by these magnetic fields: 52.9% were due to exposure to magnetic fields only and 17,6% by exposure to magnetic fields in combination with some treatment types, resulting in additive or synergistic effect. Evidence exist to support the notion that exposure of humans to magnetic fields stimulates genotoxic effects, although the actual mechanisms of action or even the true human health consequences resulting from these exposure still remain unclear. (Author) 80 refs.

Fostering awareness of the pedagogical implications of World Englishes and ELF in teacher education in Italy

Directory of Open Access Journals (Sweden)

Paola Vettorel

2016-09-01

Full Text Available Teacher education represents an essential step to raise awareness of the sociolinguistic changes brought about by the current pluralization of English and by its lingua franca role. Within the pre-service teacher education programs run at the Department of Foreign Languages and Literatures, University of Verona, Italy, part of the English language course focused on issues related to World Englishes (WE and English as a lingua franca (ELF, aiming at fostering awareness of and active reflection upon their pedagogical implications. After taking into consideration recent developments in WE- and ELF-aware teacher education, we will report on findings from a research study involving trainee teachers attending the aforementioned courses for English in academic years 2012-13 to 2014-15. The main aim of the study has been to investigate whether, how and to what extent trainee teachers’ pedagogical knowledge and reasoning about a WE and ELF-informed perspective in teaching practices may undergo a change after attending these courses. Drawing upon different sets of data (questionnaires, reflections in e-learning discussion forums, interviews and final reports, the trainees’ increased awareness of and readiness to include a WE- and ELF-informed didactic approach after attending the course will be discussed, together with implications for foreign language teacher education.

ELFE{alpha}DESY: an electron laboratory for Europe at DESY

Energy Technology Data Exchange (ETDEWEB)

Frois, B.; Brinkmann, R.; Kose, R.; Maidment, J.; Bruinsma, P.; Wu, Y.; Conto, J.M. de; Faure, J.; Gentner, M.; Husmann, D.; Tazzioli, F.

1997-12-01

ELFE is a project to develop a 15 to 30 GeV, high luminosity, continuous beam electron accelerator for scattering experiments from fixed nuclear targets. The goal is to explore the quark and gluon structure of matter by exclusive and semi-exclusive electron scattering from nuclei. The idea of integrating ELFE into TESLA facility is based on the fact that the superconducting linac is operated at a low duty cycle, about 0.4%, for the electron-positron collider mode and the machine is available for other tasks during the time between collider pulses. A fraction of the beam pulses produced by TESLA could be injected into the HERA ring until the ring is filled. The authors show that it is possible to extract the electrons from HERA used as a stretcher ring and produce a high luminosity quasi continuous beam suitable for nuclear physics experiments. The performances of the extracted beam in term of emittance, energy spread and duty factor have been evaluated. (N.T.).

Investigation of exposure to Extremely Low Frequency (ELF) magnetic and electric fields: Ongoing animal studies

Energy Technology Data Exchange (ETDEWEB)

Anderson, L.E.

1994-03-01

There is now convincing evidence from a large number of laboratories, that exposure to extremely low frequency (ELF) magnetic and electric fields produces biological responses in animals. Many of the observed effects appear to be directly or indirectly associated with the neural or neuroendocrine systems. Such effects include increased neuronal excitability, chemical and hormonal changes in the nervous system, altered behavioral responses, some of which are related to sensing the presence of the field, and changes in endogenous biological rhythms. Additional indices of general physiological status appear relatively unaffected by exposure, although effects have occasionally been described in bone growth and fracture repair, reproduction and development, and immune system function. A major current emphasis in laboratory research is to determine whether or not the reported epidemiological studies that suggest an association between EMF exposure and risk of cancer are supported in studies using animal models. Three major challenges exist for ongoing research: (1) knowledge about the mechanisms underlying observed bioeffects is incomplete, (2) researchers do not as yet understand what physical aspects of exposure produce biological responses, and (3) health consequences resulting from ELF exposure are unknown. Although no animal studies clearly demonstrate deleterious effects of ELF fields, several are suggestive of potential health impacts. From the perspective of laboratory animal studies, this paper will discuss biological responses to ELF magnetic and/or electric field exposures.

Exposure estimates based on broadband elf magnetic field measurements versus the ICNIRP multiple frequency rule

International Nuclear Information System (INIS)

Paniagua, Jesus M.; Rufo, Montana; Jimenez, Antonio; Pachon, Fernando T.; Carrero, Julian

2015-01-01

The evaluation of exposure to extremely low-frequency (ELF) magnetic fields using broadband measurement techniques gives satisfactory results when the field has essentially a single frequency. Nevertheless, magnetic fields are in most cases distorted by harmonic components. This work analyses the harmonic components of the ELF magnetic field in an outdoor urban context and compares the evaluation of the exposure based on broadband measurements with that based on spectral analysis. The multiple frequency rule of the International Commission on Non-ionizing Radiation Protection (ICNIRP) regulatory guidelines was applied. With the 1998 ICNIRP guideline, harmonics dominated the exposure with a 55 % contribution. With the 2010 ICNIRP guideline, however, the primary frequency dominated the exposure with a 78 % contribution. Values of the exposure based on spectral analysis were significantly higher than those based on broadband measurements. Hence, it is clearly necessary to determine the harmonic components of the ELF magnetic field to assess exposure in urban contexts. (authors)

Extremely Low Frequency-Magnetic Fields (ELF-EMF) occupational exposure and natural killer activity in peripheral blood lymphocytes

International Nuclear Information System (INIS)

Gobba, Fabriziomaria; Bargellini, Annalisa; Scaringi, Meri; Bravo, Giulia; Borella, Paola

2009-01-01

Extremely Low Frequency-Magnetic Fields (ELF-MF) are possible carcinogens to humans and some data suggest that they can act as promoters or progressors. Since NK cells play a major role in the control of cancer development, an adverse effect on ELF-MF on NK function has been hypothesized. We examined NK activity in 52 workers exposed to different levels of ELF-MF in various activities. Individual exposure was monitored during 3 complete work-shifts using personal dosimeters. Environmental exposure was also monitored. ELF-MF levels in the workers were expressed as Time-Weighted Average (TWA) values. NK activity was measured in peripheral blood lymphocytes (PBL). In the whole group the median occupational TWA was 0.21 μT. According to the TWA levels, workers were classified as low exposed (26 subjects, TWA ≤ 0.2 μT) and higher exposed workers (26 subjects; TWA > 0.2 μT). In higher exposed workers, we observed a trend to reduce NK activity compared to low exposed, but the difference was not significant. Then we selected a subgroup of highest exposed workers (12 subjects; TWA > 1 μT); no difference was observed between low and highest exposed subjects in the main personal variables. Considering both E:T ratios from 12:1 to 50:1 and Lytic Units, a significant reduction in NK activity was observed in the highest exposed workers compared to the low exposed. Multivariate analysis showed a significant negative correlation between exposure and LU, while no correlation was evidenced with other personal characteristics. ELF-MF are considered possible carcinogens, and existing data suggest that they can act as promoters. Due to the role of NK activity in host defence against cancer, the results obtained in this study in workers exposed to ELF-MF levels exceeding 1 μT are in agreement with this hypothesis, and support the need for further investigation in this field

A genetic linkage map of the chromosome 4 short arm

Energy Technology Data Exchange (ETDEWEB)

Locke, P.A.; MacDonald, M.E.; Srinidhi, J.; Tanzi, R.E.; Haines, J.L. (Massachusetts General Hospital, Boston (United States)); Gilliam, T.C. (Columbia Univ., New York, NY (United States)); Conneally, P.M. (Indiana Univ. Medical Center, Indianapolis (United States)); Wexler, N.S. (Columbia Univ., New York, NY (United States) Hereditary Disease Foundation, Santa Monica, CA (United States)); Gusella, J.F. (Massachusetts General Hospital, Boston (United States) Harvard Univ., Boston, MA (United States))

1993-01-01

The authors have generated an 18-interval contiguous genetic linkage map of human chromosome 4 spanning the entire short arm and proximal long arm. Fifty-seven polymorphisms, representing 42 loci, were analyzed in the Venezuelan reference pedigree. The markers included seven genes (ADRA2C, ALB, GABRB1, GC, HOX7, IDUA, QDPR), one pseudogene (RAF1P1), and 34 anonymous DNA loci. Four loci were represented by microsatellite polymorphisms and one (GC) was expressed as a protein polymorphism. The remainder were genotyped based on restriction fragment length polymorphism. The sex-averaged map covered 123 cM. Significant differences in sex-specific rates of recombination were observed only in the pericentromeric and proximal long arm regions, but these contributed to different overall map lengths of 115 cM in males and 138 cM in females. This map provides 19 reference points along chromosome 4 that will be particularly useful in anchoring and seeding physical mapping studies and in aiding in disease studies. 26 refs., 1 fig., 1 tab.

Conflict or Cooperation: The Use of Backchannelling in ELF Negotiations

Science.gov (United States)

Bjorge, Anne Kari

2010-01-01

The international business community relies heavily on English Lingua Franca (ELF) as a shared means of communication, and English business language programmes thus feature prominently within the field of English for Specific Purposes (ESP). Business ESP programmes, however, have little focus on active listening, which previous research has…

Sources of Exposure to ELF Fields at Workplaces (invited paper)

International Nuclear Information System (INIS)

Vecchia, P.

1999-01-01

In most workplaces people are exposed to a variety of extremely low frequency (ELF) fields. So-called 'electric jobs' have been identified, where the exposure is likely to significantly exceed average residential and occupational levels. The classification is, however, questionable, and no reliable exposure data may in general be associated with different jobs. Most recent epidemiological studies have been focused on areas where ELF fields are quite intense, sources are clearly identified, and actual field levels can be measured. Such areas include electric power generation, transmission and distribution, electric transport, and arc welding. In this paper, typical values of magnetic fields in these workplaces are presented and discussed. The time-weighted magnetic field values for the same jobs are not very consistent across the studies. This indicates that not only job titles, but also measurements of the magnetic field, are poor surrogates for the actual exposure, which is best assessed by the use of dosemeters. (author)

Loss of Octarepeats in Two Processed Prion Pseudogenes in the Red Squirrel, Sciurus vulgaris

Science.gov (United States)

Kortum, Timothy T.; Hupkes, Marlinda; Kohlen, Wouter; van Rheede, Teun; de Jong, Wilfried W.

2010-01-01

The N-terminal region of the mammalian prion protein (PrP) contains an ‘octapeptide’ repeat which is involved in copper binding. This eight- or nine-residue peptide is repeated four to seven times, depending on the species, and polymorphisms in repeat number do occur. Alleles with three repeats are very rare in humans and goats, and deduced PrP sequences with two repeats have only been reported in two lemur species and in the red squirrel, Sciurus vulgaris. We here describe that the red squirrel two-repeat PrP sequence actually represents a retroposed pseudogene, and that an additional and older processed pseudogene with three repeats also occurs in this species as well as in ground squirrels. We argue that repeat numbers may tend to contract rather than expand in prion retropseudogenes, and that functional prion genes with two repeats may not be viable. Electronic supplementary material The online version of this article (doi:10.1007/s00239-010-9390-7) contains supplementary material, which is available to authorized users. PMID:20878152

Design and fabrication of a microplatform for the proximity effect study of localized ELF-EMF on the growth of in vitro HeLa and PC-12 cells

International Nuclear Information System (INIS)

Chen, Y C; Chen, C C; Cheng, Y T; Tu, W; Tseng, F G

2010-01-01

This paper presents a platform technology with experimental results that show the scientists and biologists a way to rapidly investigate and analyze the biological effects of localized extremely low frequency (ELF) electromagnetic field (EMF) on living cells. The proximity effect of the localized ELF-EMF on living cells is revealed using the bio-compatible microplatform on which an on-glass inductive coil array, the source of the localized ELF-EMF in micro scale, is designed, fabricated and operated with a field strength of 1.2 ± 0.1 mT at 60 Hz for cell culturing study. After a 72 h ELF-EMF exposure, HeLa (human cervical cancer) and PC-12 (rat pheochromocytoma) cells exhibit about 18.4% and 12.9% cell proliferation rate reduction, respectively. Furthermore, according to the presented dynamic model, the reduction of the proliferation can be attributed to the interference of signal transduction processes due to the tangential currents induced around the cells

Evolution of a pseudogene: exclusive survival of a functional mitochondrial nad7 gene supports Haplomitrium as the earliest liverwort lineage and proposes a secondary loss of RNA editing in Marchantiidae.

Science.gov (United States)

Groth-Malonek, Milena; Wahrmund, Ute; Polsakiewicz, Monika; Knoop, Volker

2007-04-01

Gene transfer from the mitochondrion into the nucleus is a corollary of the endosymbiont hypothesis. The frequent and independent transfer of genes for mitochondrial ribosomal proteins is well documented with many examples in angiosperms, whereas transfer of genes for components of the respiratory chain is a rarity. A notable exception is the nad7 gene, encoding subunit 7 of complex I, in the liverwort Marchantia polymorpha, which resides as a full-length, intron-carrying and transcribed, but nonspliced pseudogene in the chondriome, whereas its functional counterpart is nuclear encoded. To elucidate the patterns of pseudogene degeneration, we have investigated the mitochondrial nad7 locus in 12 other liverworts of broad phylogenetic distribution. We find that the mitochondrial nad7 gene is nonfunctional in 11 of them. However, the modes of pseudogene degeneration vary: whereas point mutations, accompanied by single-nucleotide indels, predominantly introduce stop codons into the reading frame in marchantiid liverworts, larger indels introduce frameshifts in the simple thalloid and leafy jungermanniid taxa. Most notably, however, the mitochondrial nad7 reading frame appears to be intact in the isolated liverwort genus Haplomitrium. Its functional expression is shown by cDNA analysis identifying typical RNA-editing events to reconstitute conserved codon identities and also confirming functional splicing of the 2 liverwort-specific group II introns. We interpret our results 1) to indicate the presence of a functional mitochondrial nad7 gene in the earliest land plants and strongly supporting a basal placement of Haplomitrium among the liverworts, 2) to indicate different modes of pseudogene degeneration and chondriome evolution in the later branching liverwort clades, 3) to suggest a surprisingly long maintenance of a nonfunctional gene in the presumed oldest group of land plants, and 4) to support the model of a secondary loss of RNA-editing activity in marchantiid

ELF-test less accurately identifies liver cirrhosis diagnosed by liver stiffness measurement in non-Asian women with chronic hepatitis B

NARCIS (Netherlands)

Harkisoen, S.; Boland, G. J.; van den Hoek, J. A. R.; van Erpecum, K. J.; Hoepelman, A. I. M.; Arends, J. E.

2014-01-01

The enhanced liver fibrosis test (ELF-test) has been validated for several hepatic diseases. However, its performance in chronic hepatitis B virus (CHB) infected patients is uncertain. This study investigates the diagnostic value of the ELF test for cirrhosis identified by liver stiffness

How TotalFinaElf will reinforce its downstream leadership; Comment TotalFinaElf entend renforcer son leadership en aval

Energy Technology Data Exchange (ETDEWEB)

Legros, E.

2002-06-01

Invited by the 'para-petroleum industry club' of the French group of para-petroleum and para-gas companies (GEP) on April 2, 2002, J.P. Vettier, general director of the refining-marketing activity of TotalFinaElf company, described the new configuration of the downstream strategy of the French group, now the fourth biggest oil company in the world. This downstream activity seems to have profited from the different fusions that have led to the present day structure. (J.S.)

Characterization of the human laminin beta2 chain locus (LAMB2): linkage to a gene containing a nonprocessed, transcribed LAMB2-like pseudogene (LAMB2L) and to the gene encoding glutaminyl tRNA synthetase (QARS)

DEFF Research Database (Denmark)

Durkin, M E; Jäger, A C; Khurana, T S

1999-01-01

The laminin beta2 chain is an important constituent of certain kidney and muscle basement membranes. We have generated a detailed physical map of a 110-kb genomic DNA segment surrounding the human laminin beta2 chain gene (LAMB2) on chromosome 3p21.3-->p21.2, a region paralogous with the chromosome...... 7q22-->q31 region that contains the laminin beta1 chain gene locus (LAMB1). Several CpG islands and a novel polymorphic microsatellite marker (D3S4594) were identified. The 3' end of LAMB2 lies 16 kb from the 5' end of the glutaminyl tRNA synthetase gene (QARS). About 20 kb upstream of LAMB2 we...... found a gene encoding a transcribed, non-processed LAMB2-like pseudogene (LAMB2L). The sequence of 1.75 kb of genomic DNA at the 3' end of LAMB2L was similar to exons 8-12 of the laminin beta2 chain gene. The LAMB2L-LAMB2-QARS cluster lies telomeric to the gene encoding the laminin-binding protein...

Bespoke Language Teaching (BLT): A Proposal for a Theoretical Framework. the Case of EFL/ELF for Italians

Science.gov (United States)

Santipolo, Matteo

2017-01-01

This paper deals with the problems of teaching English as a foreign language (EFL) and as a lingua franca (ELF) in the Italian educational system and, in particular, with introducing language variation in the English class. After briefly illustrating how English teaching has changed in the last few decades, an outline is drawn of what happens in…

Rapporteur Report: Sources and Exposure Metrics for ELF Epidemiology (Part 1) (invited paper)

International Nuclear Information System (INIS)

Matthes, R.

1999-01-01

High quality epidemiological studies on the possible link between exposure to non-ionizing radiation and human health effects are of great importance for radiation protection in this area. The main sources of ELF fields are domestic appliances, different electrical energy distribution systems and all kinds of electrical machinery and devices at the workplace. In general, ELF fields present in the environment, show complex temporal patterns and spatial distributions, depending on the generating source. The complete characterisation of the different field sources often requires highly sophisticated instrumentation, and this is therefore not feasible within the scope of epidemiological studies. On average, individual exposure from ELF fields is low in both the working environment and in residential areas. Only at certain workplaces are people subject to significant ELF exposure with regard to biological effects. Different methods have been developed to determine levels of exposure received by study subjects, with the aim to rank exposed and non-exposed groups in epidemiological studies. These include spot measurements, calculations or modelling. The different methods used to estimate total exposure in epidemiological studies may result to a differing extent in a misclassification of the study subjects. Equally important for future studies is the selection of the appropriate exposure metric. The most widely used metric so far is the time-weighted average and thus represents a quasi standard metric for use in epidemiological studies. Beside, wire codes have been used for a long time in residential studies and job titles are often used in occupational studies. On the basis of the experience gained in previous studies, it would be desirable to develop standardised, state-of-the-art protocols to improve exposure assessment. New surrogates and metrics were proposed as the basis for further studies. But only few of these have recently undergone preliminary testing. A

Exposure to power frequency magnetic fields suppresses X-ray-induced apoptosis transiently in Ku80-deficient xrs5 cells

International Nuclear Information System (INIS)

Tian, Furong; Nakahara, Takehisa; Yoshida, Masami; Honda, Naoko; Hirose, Hideki; Miyakoshi, Junji

2002-01-01

In an attempt to determine whether exposure to extremely low frequency (ELF) electromagnetic fields can affect cells, Ku80-deficient cells (xrs5) and Ku80-proficient cells (CHO-K1) were exposed to ELF electromagnetic fields. Cell survival, and the levels of the apoptosis-related genes p21, p53, phospho-p53 (Ser 15 ), caspase-3 and the anti-apoptosis gene bcl-2 were determined in xrs5 and CHO-K1 cells following exposure to ELF electromagnetic fields and X-rays. It was found that exposure of xrs5 and CHO-K1 cells to 60 Hz ELF electromagnetic fields had no effect on cell survival, cell cycle distribution and protein expression. Exposure of xrs5 cells to 60 Hz ELF electromagnetic fields for 5 h after irradiation significantly inhibited G 1 cell cycle arrest induced by X-rays (1 Gy) and resulted in elevated bcl-2 expression. A significant decrease in the induction of p53, phospho-p53, caspase-3 and p21 proteins was observed in xrs5 cells when irradiation by X-rays (8 Gy) was followed by exposure to 5 mT ELF magnetic fields. Exposure of xrs5 cells to the ELF electromagnetic fields for 10 h following irradiation significantly decreased X-ray-induced apoptosis from about 1.7% to 0.7%. However, this effect was not found in CHO-K1 cells within 24 h of irradiation by X-rays alone and by X-rays combined with ELF electromagnetic fields. Exposure of xrs5 cells to 60 Hz ELF electromagnetic fields following irradiation can affect cell cycle distribution and transiently suppress apoptosis by decreasing the levels of caspase-3, p21, p53 and phospho-p53 and by increasing bcl-2 expression

TotalFina+Elf, how to fight against the evidence?; TotalFina+Elf, comment lutter contre l'evidence?

Energy Technology Data Exchange (ETDEWEB)

Marion, G. [Ecole Nationale Superieure des Mines, 69 - Lyon (France)

2000-09-01

TotaIFina's successful bid for taking over Elf represents the victory of a certain type of 'discourse'. The strategist's ability to market his views resembles the marketer's ability to promote a product through packaging and advertising. Analyzing the publicity war between these two firms during the summer of 1999 sheds light on the strategist's ability to 'make strategy with words'. Out of the variety of explanatory factors and arguments for the success of such a takeover bid. 'managerial discourse' is not to be overlooked as a means for 'enacting' a strategy. (author)

On the observations of unique low latitude whistler-triggered VLF/ELF emissions

Science.gov (United States)

Altaf, M.; Singh, K. K.; Singh, A. K.; Lalmani

A detailed analysis of the VLF/ELF wave data obtained during a whistler campaign under All India Coordinated Program of Ionosphere Thermosphere Studies (AICPITS) at our low latitude Indian ground station Jammu (geomag. lat. = 22° 26‧ N, L = 1.17) has yielded two types of unusual and unique whistler-triggered VLF/ELF emissions. These include (1) whistler-triggered hook emissions and (2) whistler-triggered long enduring discrete chorus riser emissions in VLF/ELF frequency range during night time. Such types of whistler-triggered emissions have not been reported earlier from any of the ground observations at low latitudes. In the present study, the observed characteristics of these emissions are described and interpreted. Dispersion analysis of these emissions show that the whistlers as well as emissions have propagated along a higher geomagnetic field line path with L-values lying ∼L = 4, suggesting that these triggered emissions are to be regarded as mid-latitude emissions. These waves could have propagated along the geomagnetic field lines either in a ducted mode or in a pro-longitudinal (PL) mode. The measured intensity of the triggered emissions is almost equal to that of the source waves and does not vary throughout the period of observation on that day. It is speculated that these emissions may have been generated through a process of resonant interaction of the whistler waves with energetic electrons. Parameters related to this interaction are computed for different values of L and wave amplitude. The proposed mechanism explains some aspects of the dynamic spectra.

Exposure of ELF-EMF and RF-EMF Increase the Rate of Glucose Transport and TCA Cycle in Budding Yeast.

Science.gov (United States)

Lin, Kang-Wei; Yang, Chuan-Jun; Lian, Hui-Yong; Cai, Peng

2016-01-01

In this study, we investigated the transcriptional response to 50 Hz extremely low frequency electromagnetic field (ELF-EMF) and 2.0 GHz radio frequency electromagnetic field (RF-EMF) exposure by Illumina sequencing technology using budding yeast as the model organism. The transcription levels of 28 genes were upregulated and those of four genes were downregulated under ELF-EMF exposure, while the transcription levels of 29 genes were upregulated and those of 24 genes were downregulated under RF-EMF exposure. After validation by reverse transcription quantitative polymerase chain reaction (RT-qPCR), a concordant direction of change both in differential gene expression (DGE) and RT-qPCR was demonstrated for nine genes under ELF-EMF exposure and for 10 genes under RF-EMF exposure. The RT-qPCR results revealed that ELF-EMF and RF-EMF exposure can upregulate the expression of genes involved in glucose transportation and the tricarboxylic acid (TCA) cycle, but not the glycolysis pathway. Energy metabolism is closely related with the cell response to environmental stress including EMF exposure. Our findings may throw light on the mechanism underlying the biological effects of EMF.

Physical Mapping of Bread Wheat Chromosome 5A: An Integrated Approach

Directory of Open Access Journals (Sweden)

Delfina Barabaschi

2015-11-01

Full Text Available The huge size, redundancy, and highly repetitive nature of the bread wheat [ (L.] genome, makes it among the most difficult species to be sequenced. To overcome these limitations, a strategy based on the separation of individual chromosomes or chromosome arms and the subsequent production of physical maps was established within the frame of the International Wheat Genome Sequence Consortium (IWGSC. A total of 95,812 bacterial artificial chromosome (BAC clones of short-arm chromosome 5A (5AS and long-arm chromosome 5A (5AL arm-specific BAC libraries were fingerprinted and assembled into contigs by complementary analytical approaches based on the FingerPrinted Contig (FPC and Linear Topological Contig (LTC tools. Combined anchoring approaches based on polymerase chain reaction (PCR marker screening, microarray, and sequence homology searches applied to several genomic tools (i.e., genetic maps, deletion bin map, neighbor maps, BAC end sequences (BESs, genome zipper, and chromosome survey sequences allowed the development of a high-quality physical map with an anchored physical coverage of 75% for 5AS and 53% for 5AL with high portions (64 and 48%, respectively of contigs ordered along the chromosome. In the genome of grasses, [ (L. Beauv.], rice ( L., and sorghum [ (L. Moench] homologs of genes on wheat chromosome 5A were separated into syntenic blocks on different chromosomes as a result of translocations and inversions during evolution. The physical map presented represents an essential resource for fine genetic mapping and map-based cloning of agronomically relevant traits and a reference for the 5A sequencing projects.

Effects of whole body exposure to extremely low frequency electromagnetic fields (ELF-EMF on serum and liver lipid levels, in the rat

Directory of Open Access Journals (Sweden)

Elias-Viñas David

2007-11-01

Full Text Available Abstract Backgound The effects of extremely low-frequency electromagnetic fields (ELF-EMF on the blood serum and liver lipid concentrations of male Wistar rats were assessed. Methods Animals were exposed to a single stimulation (2 h of ELF-EMF (60 Hz, 2.4 mT or sham-stimulated and thereafter sacrificed at different times (24, 48 or 96 h after beginning the exposure. Results Blood lipids showed, at 48 h stimulated animals, a significant increase of cholesterol associated to high density lipoproteins (HDL-C than those observed at any other studied time. Free fatty acid serum presented at 24 h significant increases in comparison with control group. The other serum lipids, triacylglycerols and total cholesterol did not show differences between groups, at any time evaluated. No statistical differences were shown on total lipids of the liver but total cholesterol was elevated at 24 h with a significant decrease at 96 h (p = 0.026. The ELF-EMF stimulation increased the liver content of lipoperoxides at 24 h. Conclusion Single exposures to ELF-EMF increases the serum values of HDL-C, the liver content of lipoperoxides and decreases total cholesterol of the liver. The mechanisms for the effects of ELF-EMF on lipid metabolism are not well understand yet, but could be associated to the nitric oxide synthase EMF-stimulation.

Dunkerque`s refinery. Mobil-BP-Elf: matrimonial triangle with background anxiety; Raffinerie de Dunkerque. Mobil-BP-Elf: menage a trois sur fond d`inquietude

Energy Technology Data Exchange (ETDEWEB)

Vogue, A. de

1997-08-01

The annual production of the Dunkerque`s refinery (France) represents 330000 t of lubricants, 16000 t of paraffins, 17000 t of wax, 34000 t of extracts, 304000 t of diesel fuel and 300000 t of bitumens. From the legal aspect, Mobil is operator of the unit which belongs to an independent company held by BP (60%) and Elf (40%). After the BP-Mobil agreement was signed, the Dunkerque`s refinery entered into new Mobil`s network of 6 lubricants refineries which represent an overall over-capacity of 400000 t/year. This over-capacity is a consequence of export limitations due to profits reduction. (J.S.)

A health examination of railway high-voltage substation workers exposed to ELF electromagnetic fields.

Science.gov (United States)

Baroncelli, P; Battisti, S; Checcucci, A; Comba, P; Grandolfo, M; Serio, A; Vecchia, P

1986-01-01

This is a cross-sectional survey on the health conditions of railways workers active in 258 interconnection and conversion substations all over Italy. Measurements performed in both kinds of substations operating at 220 kV have shown that maximum levels of the electric field strength and of the magnetic flux density at 50 Hz are of the order of 5 kV/m and 15 microT, respectively. Three subject groups, differently exposed (1, 10, 20 h/week), and an unexposed control group, for a total number of 627 workers, constitute the population at study. All subjects underwent a general medical examination, laboratory investigations, and a series of selected examinations relative to three systems (nervous, cardiovascular, and haematopoietic) considered at higher risk. No differences have been found between the exposed and the control groups. It is concluded that workers exposed to ELF electromagnetic fields of moderate strength do not show the presence of clear effects on their state of health.

Isolation and characterization of the human homologue of rig and its pseudogenes: The functional gene has features characteristic of housekeeping genes

International Nuclear Information System (INIS)

Shiga, Kiyoto; Yamamoto, Hiroshi; Okamoto, Hiroshi

1990-01-01

Rig (rat insulinoma gene) was first isolated from a cDNA library of rat insulinomas and has been found to be activated in various human tumors such as insulinomas, esophageal cancers, and colon cancers. Here the authors isolated the human homologue of rig from a genomic DNA library constructed from a human esophageal carcinoma and determined its complete nucleotide sequence. The gene is composed of about 3,000 nucleotides and divided into four exons separated by three introns: exon 3 encodes the nuclear location signal and the DNA-binding domain of the RIG protein. The transcription initiation site was located at -46 base pairs upstream from the first ATG codon. The 5'-flanking region of the gene has no apparent TATA-box or CAAT-box sequence. However, two GC boxes are found at -189 and -30 base pairs upstream from the transcription initiation site and five GC boxes are also found in introns 1 and 2. The gene is bounded in the 5' region by CpG islands, regions of DNA with a high GC content and a high frequency of CpG dinucleotides relative to the bulk genome. Furthermore, the human genome contains at least six copies of RIG pseudogenes, and four of them have the characteristics of processed pseudogenes. From these results together with the finding that RIG is expressed in a wide variety of tissues and cells, they speculate that RIG belongs to the class of housekeeping genes, whose products are necessary for the growth of all cell types

Polymorphisms in the glucocerebrosidase gene and pseudogene urge caution in clinical analysis of Gaucher disease allele c.1448T>C (L444P

Directory of Open Access Journals (Sweden)

Lahey Cora

2006-08-01

Full Text Available Abstract Background Gaucher disease is a potentially severe lysosomal storage disorder caused by mutations in the human glucocerebrosidase gene (GBA. We have developed a multiplexed genetic assay for eight diseases prevalent in the Ashkenazi population: Tay-Sachs, Gaucher type I, Niemann-Pick types A and B, mucolipidosis type IV, familial dysautonomia, Canavan, Bloom syndrome, and Fanconi anemia type C. This assay includes an allelic determination for GBA allele c.1448T>C (L444P. The goal of this study was to clinically evaluate this assay. Methods Biotinylated, multiplex PCR products were directly hybridized to capture probes immobilized on fluorescently addressed microspheres. After incubation with streptavidin-conjugated fluorophore, the reactions were analyzed by Luminex IS100. Clinical evaluations were conducted using de-identified patient DNA samples. Results We evaluated a multiplexed suspension array assay that includes wild-type and mutant genetic determinations for Gaucher disease allele c.1448T>C. Two percent of samples reported to be wild-type by conventional methods were observed to be c.1448T>C heterozygous using our assay. Sequence analysis suggested that this phenomenon was due to co-amplification of the functional gene and a paralogous pseudogene (ΨGBA due to a polymorphism in the primer-binding site of the latter. Primers for the amplification of this allele were then repositioned to span an upstream deletion in the pseudogene, yielding a much longer amplicon. Although it is widely reported that long amplicons negatively impact amplification or detection efficiency in recently adopted multiplex techniques, this assay design functioned properly and resolved the occurrence of false heterozygosity. Conclusion Although previously available sequence information suggested GBA gene/pseudogene discrimination capabilities with a short amplified product, we identified common single-nucleotide polymorphisms in the pseudogene that

Innovative use of ICT in schools based on the findings in ELFE project

NARCIS (Netherlands)

Frederiksson, Ulf; Jedeskog, Gunilla; Plomp, T.

2008-01-01

The European e-Learning Forum for Education (ELFE) is a project initiated by the ETUCE (European Trade Union Committee on Education). An important objective of the project has been to study good experiences with implementing the use of ICT in schools. This objective has been broken down in seven

Parallel origins of duplications and the formation of pseudogenes in mitochondrial DNA from parthenogenetic lizards (Heteronotia binoei; Gekkonidae).

Science.gov (United States)

Zevering, C E; Moritz, C; Heideman, A; Sturm, R A

1991-11-01

Analysis of mitochondrial DNAs (mtDNAs) from parthenogenetic lizards of the Heteronotia binoei complex with restriction enzymes revealed an approximately 5-kb addition present in all 77 individuals. Cleavage site mapping suggested the presence of a direct tandem duplication spanning the 16S and 12S rRNA genes, the control region and most, if not all, of the gene for the subunit 1 of NADH dehydrogenase (ND1). The location of the duplication was confirmed by Southern hybridization. A restriction enzyme survey provided evidence for modifications to each copy of the duplicated sequence, including four large deletions. Each gene affected by a deletion was complemented by an intact version in the other copy of the sequence, although for one gene the functional copy was heteroplasmic for another deletion. Sequencing of a fragment from one copy of the duplication which encompassed the tRNA(leu)(UUR) and parts of the 16S rRNA and ND1 genes, revealed mutations expected to disrupt function. Thus, evolution subsequent to the duplication event has resulted in mitochondrial pseudogenes. The presence of duplications in all of these parthenogens, but not among representatives of their maternal sexual ancestors, suggests that the duplications arose in the parthenogenetic form. This provides the second instance in H. binoei of mtDNA duplication associated with the transition from sexual to parthenogenetic reproduction. The increased incidence of duplications in parthenogenetic lizards may be caused by errors in mtDNA replication due to either polyploidy or hybridity of their nuclear genomes.

Investigations of Relatively Easy To Construct Antennas With Efficiency in Receiving Schumann Resonances: Preparations for a Miniaturized Reconfigurable ELF Receiver

Science.gov (United States)

Farmer, Brian W.; Hannan, Robert C.

2003-01-01

Relatively little is known about the cavity between the Earth and the ionosphere, which opens opportunities for technological advances and unique ideas. One effective means to study this cavity is with extremely low frequency (ELF) antennas. Possible applications of these antennas are global weather prediction, earthquake prediction, planetary exploration, communication, wireless transmission of power, or even a free energy source. The superconducting quantum interference device SQUID) and the coil antenna are the two most acceptable receivers discovered for picking up ELF magnetic fields. Both antennas have the potential for size reduction, allowing them to be portable enough for access to space and even for personal ware. With improvements of these antennas and signal processing, insightful analysis of Schumann resonance (SR) can give the science community a band of radio frequency (RF) signals for improving life here on Earth and exploring beyond.

Situation and perspectives in refrigerating and air-conditioning. The point of view of Elf Atochem; Situation et perspectives en refrigeration et air conditionne. Point de vue d`Elf Atochem

Energy Technology Data Exchange (ETDEWEB)

NONE

1996-12-31

This paper is a series of transparencies which explains the engagements of Elf Atochem company in the replacement of chlorofluorocarbons (CFCs): development of HFCs, production of FORANE, safety and environmental criteria, main refrigerants and their application in new installations, perspectives in reconversion, replacement of R-22, CFC-12 and R-502 fluids with respect to their applications. (J.S.)

The Barley Chromosome 5 Linkage Map

DEFF Research Database (Denmark)

Jensen, J.; Jørgensen, Jørgen Helms

1975-01-01

The distances between nine loci on barley chromosome 5 have been studied in five two-point tests, three three-point tests, and one four-point test. Our previous chromosome 5 linkage map, which contained eleven loci mapped from literature data (Jensen and Jørgensen 1975), is extended with four loci......-position is fixed on the map by a locus (necl), which has a good marker gene located centrally in the linkage group. The positions of the other loci are their distances in centimorgans from the 0-position; loci in the direction of the short chromosome arm are assigned positive values and those...

Conjunctions in ELF academic discourse: a corpus-based analysis

Directory of Open Access Journals (Sweden)

Laura Centonze

2014-03-01

Full Text Available Abstract – Conjunctions as fundamental elements in the construction of discourse cohesion represent a relatively neglected research area, due to their complexity and the bewildering number of “conjunctive relations” (Halliday and Hasan 1976: 226 that they may express in context, as also highlighted in Christiansen (2011. In addition to this, there does not seem to be a shared view as far as the classification and denomination of the different kinds of conjunctions are concerned (cf. Halliday and Hasan 1976; Vande Kopple 1985; Martin and Rose 2003; Hyland 2005b. The selection of a specific type of conjunction acquires more importance because they are typically open to so many different interpretations, especially when the participants in the speech event come from diverse lingua-cultural backgrounds (cf. Guido 2007; Guido 2008; Cogo et al. 2011.Following the taxonomy provided by Halliday and Hasan (1976 for conjunctions, our study attempts to shed light on the usage of conjunctions by ELF speakers in specific contexts. We shall consider ten transcripts taken from the VOICE Corpus (Seidlhofer et. al 2013, namely five interviews and five conversations in multicultural academic contexts (approximately 4,000 words each, and analyze the number of instances for each type of conjunction (additive, adversative, clausal, temporal as well as continuatives in depth, by adopting a quantitative as well as a qualitative method and by using TextSTAT 2.9 (Huning 2012. We shall then move on to the analysis of conjunctions with respect to their internal properties/collocates and eventually see the occurrence of conjunctions by comparing them with the two different speech events which are chosen as the subject of our study, i.e. interviews and conversations. We shall see the extent to which certain conjunctions are more restricted than others in terms of usage (cf. Leung 2005 in both types of speech events, despite the great number of options available to the

Angola. Petroleum discovery by Elf on the block number 17 in deep water

International Nuclear Information System (INIS)

Anon.

1996-01-01

This article describes the petroleum discovery in deep water in Angola. The drilling was executed by 1365 meters deep and gave a petroleum of good quality. The Elf company emphasizes that it is its third discovery in deep water in the Guinea gulf after Nkossa and Moho in Congo. (N.C.)

ELF waves and ion resonances produced by an electron beam emitting rocket in the ionosphere

International Nuclear Information System (INIS)

Winckler, J.R.; Abe, Y.; Erickson, K.N.

1986-01-01

Results are reported from the ECHO-6 electron-beam-injection experiment, performed in the auroral-zone ionosphere on March 30, 1983 using a sounding rocket equipped with two electron guns and a free-flying plasma-diagnostics instrument package. The data are presented in extensive graphs and diagrams and characterized in detail. Large ELF wave variations, superposed on the strong beam-sector-directed quasi-dc component, are observed in the 100-eV beam-induced plasma when the beam is injected in a transverse spiral, but not when it is injected upward parallel to the magnetic-field line. ELF activity is found to be suppressed whenever the rocket passed through field lines with auroral activity, suggesting that the waves are produced by the interaction of the beam potentials, plasma currents, and return currents neutralizing the accelerator payload. 12 references

ELF exposure from mobile and cordless phones for the epidemiological MOBI-Kids study

NARCIS (Netherlands)

Calderón, Carolina; Ichikawa, Hiroki; Taki, Masao; Wake, Kanako; Addison, Darren; Mee, Terry; Maslanyj, Myron; Kromhout, Hans; Lee, Ae Kyoung; Sim, Malcolm R.; Wiart, Joe; Cardis, Elisabeth

2017-01-01

This paper describes measurements and computational modelling carried out in the MOBI-Kids case-control study to assess the extremely low frequency (ELF) exposure of the brain from use of mobile and cordless phones. Four different communication systems were investigated: Global System for Mobile

Klucel™ EF and ELF polymers for immediate-release oral dosage forms prepared by melt extrusion technology.

Science.gov (United States)

Mohammed, Noorullah Naqvi; Majumdar, Soumyajit; Singh, Abhilasha; Deng, Weibin; Murthy, Narasimha S; Pinto, Elanor; Tewari, Divya; Durig, Thomas; Repka, Michael A

2012-12-01

The objective of this research work was to evaluate Klucel™ hydroxypropylcellulose (HPC) EF and ELF polymers, for solubility enhancement as well as to address some of the disadvantages associated with solid dispersions. Ketoprofen (KPR), a Biopharmaceutics Classification System class II drug with poor solubility, was utilized as a model compound. Preliminary thermal studies were performed to confirm formation of a solid solution/dispersion of KPR in HPC matrix and also to establish processing conditions for hot-melt extrusion. Extrudates pelletized and filled into capsules exhibited a carrier-dependent release with ELF polymer exhibiting a faster release. Tablets compressed from milled extrudates exhibited rapid release owing to the increased surface area of the milled extrudate. Addition of mannitol (MNT) further enhanced the release by forming micro-pores and increasing the porosity of the extrudates. An optimized tablet formulation constituting KPR, MNT, and ELF in a 1:1:1 ratio exhibited 90% release in 15 min similar to a commercial capsule formulation. HPC polymers are non-ionic hydrophilic polymers that undergo polymer-chain-length-dependent solubilization and can be used to enhance solubility or dissolution rate of poorly soluble drugs. Dissolution/release rate could be tailored for rapid-release applications by selecting a suitable HPC polymer and altering the final dosage form. The release obtained from pellets was carrier-dependent and not drug-dependent, and hence, such a system can be effectively utilized to address solubility or precipitation issues with poorly soluble drugs in the gastrointestinal environment.

ELF-VLF communications through-the-Earth

Science.gov (United States)

Buettner, H. M.; Burke, G. J.; Didwall, E. M.; Holladay, G.; Lytle, R. J.

1985-06-01

We use computer models and experiments to explore the feasibility of communication between points underground and on the Earth's surface. Emphasis is placed on ELF-VLF electromagnetic propagation through the Earth; nominally, we investigated propagation in the 200 Hz-30 kHz frequency range. The computer modeling included calculations of the fields of a point electric or magnetic source in a homogeneous half space or a stratified Earth. Initial results for an insulated antenna of finite length are also considered. The experiments involved through-the-Earth transmissions at two locations in Pennsylvania, both of which had large formations of limestone. Initial results indicate that information rates as high as kbits/s may be possible for subsurface depths of 300 m or less. Accuracy of these estimates depends on the electromagnetic propagation constants of the rock, the noise characteristics, and modulation scheme. Although a nuisance for evaluating through-the-Earth propagation, the existence of subsurface metal conductors can improve the transmission character of the site.

Orbital localization criterion as a complementary tool in the bonding analysis by means of electron localization function: study of the Si(n)(BH)(5-n)(2-) (n = 0-5) clusters.

Science.gov (United States)

Oña, Ofelia B; Alcoba, Diego R; Torre, Alicia; Lain, Luis; Torres-Vega, Juan J; Tiznado, William

2013-12-05

A recently proposed molecular orbital localization procedure, based on the electron localization function (ELF) technique, has been used to describe chemical bonding in the cluster series Sin(BH)(5-n)(2-) (n = 0-5). The method combines the chemically intuitive information obtained from the traditional ELF analysis with the flexibility and generality of canonical molecular orbital theory. This procedure attempts to localize the molecular orbitals in regions that have the highest probability for finding a pair of electrons, providing a chemical bonding description according to the classical Lewis theory. The results confirm that conservation of the structures upon isoelectronic replacement of a B-H group by a Si atom, allowing evolution from B5H5(2-) to Si5(2-), is in total agreement with the preservation of the chemical bonding pattern.

Phytoplankton extracellular phosphatases: investigation using the ELF (Enzyme Labelled Fluorescence) technique

Czech Academy of Sciences Publication Activity Database

Štrojsová, Alena; Vrba, Jaroslav

2006-01-01

Roč. 54, č. 4 (2006), s. 715-723 ISSN 1505-2249. [Symposium on European Freshwater Sciences /4./. Krakow, 22.08.2005-26.08.2005] R&D Projects: GA AV ČR(CZ) IAA6017202 Grant - others:FRVŠ(CZ) G4 1841 Institutional research plan: CEZ:AV0Z60170517 Keywords : algae * cyanobacteria * ELF97 phosphate * cell-specific activity Subject RIV: EH - Ecology, Behaviour Impact factor: 0.306, year: 2006

2002 results: TotalFinaElf makes a ''much better performance'' than the overall international oil groups

International Nuclear Information System (INIS)

Salles, E.

2003-01-01

T. Desmarest, head of TotalFinaElf oil and gas company, has presented the 2002 results of his company in the particular context of a moving international oil situation (the Iraq crisis and the situation in Venezuela) with important consequences on markets. At the same time, the company decided to change its name into 'Total' and to adopt a new logo. The results show a 17% drop with respect to 2001 but a 10% increase of the production. The high rate of exploration successes has led to the discovery of about 1 billion of bpe with a 0.8 US$ cost per bpe, which represents the best performance of the 5 world oil majors. The rate of reserves renewal reached 151% (11.2 billions of bpe at the end of 2002). The downstream activities (refining/distribution and basic chemistry) encountered much more problems for various reasons: low economic growth, climate warmth, international instability etc.. (J.S.)

Phylogenetic relationships among Brazilian howler monkeys, genus Alouatta (Platyrrhini, Atelidae, based on g1-globin pseudogene sequences

Directory of Open Access Journals (Sweden)

Carla Maria Meireles

1999-09-01

Full Text Available The genus Alouatta (howler monkeys is the most widely distributed of New World primates, and has been arranged in three species groups: the Central American Alouatta palliata group and the South American Alouatta seniculus and Alouatta caraya groups. While the latter is monotypic, the A. seniculus group encompasses at least three species (A. seniculus, A. belzebul and A. fusca. In the present study, approximately 600 base pairs of the g1-globin pseudogene were sequenced in the four Brazilian species (A. seniculus, A. belzebul, A. fusca and A. caraya. Maximum parsimony and maximum likelihood methods yielded phylogenetic trees with the same arrangement: {A. caraya [A. seniculus (A. fusca, A. belzebul]}. The most parsimonious tree had bootstrap values greater than 82% for all groupings, and strength of grouping values of at least 2, supporting the sister clade of A. fusca and A. belzebul. The study also confirmed the presence of a 150-base pair Alu insertion element and a 1.8-kb deletion in the g1-globin pseudogene in A. fusca, features found previously in the remaining three species. The cladistic classification based on molecular data agrees with those of morphological studies, with the monospecific A. caraya group being clearly differentiated from the A. seniculus group.Os guaribas, do gênero Alouatta, que são os primatas do Novo Mundo com maior distribuição geográfica, têm sido colocados em três grupos de espécies: o grupo Alouatta palliata da América central, e os grupos sulamericanos Alouatta seniculus e Alouatta caraya. Este último é monotípico, mas o grupo A. seniculus inclui pelo menos três espécies (A. seniculus, A. belzebul e A. fusca. Neste estudo, foram seqüenciados aproximadamente 600 pares de base do pseudogene globina g1 nas quatro espécies brasileiras (A. seniculus, A. belzebul, A. fusca e A. caraya. Os métodos de máxima parcimônia e máxima verossimilhança produziram árvores filogenéticas com o mesmo arranjo

Generation and reactivation of T-cell receptor A joining region pseudogenes in primates

Energy Technology Data Exchange (ETDEWEB)

Thiel, C.; Lanchbury, J.S. [Guy`s Hospital, London (United Kingdom); Otting, N. [Biomedical Primate Research Centre, Rijswijk (Netherlands)] [and others

1996-06-01

Tandemly duplicated T-cell receptor (Tcr) AJ (J{alpha}) segments contribute significantly to TCRA chain junctional region diversity in mammals. Since only limited data exists on TCRA diversity in nonhuman primates, we examined the TCRAJ regions of 37 chimpanzee and 71 rhesus macaque TCRA cDNA clones derived from inverse polymerase chain reaction on peripheral blood mononuclear cell cDNA of healthy animals. Twenty-five different TCRAJ regions were characterized in the chimpanzee and 36 in the rhesus macaque. Each bears a close structural relationship to an equivalent human TCRAJ region. Conserved amino acid motifs are shared between all three species. There are indications that differences between nonhuman primates and humans exist in the generation of TCRAJ pseudogenes. The nucleotide and amino acid sequences of the various characterized TCRAJ of each species are reported and we compare our results to the available information on human genomic sequences. Although we provide evidence of dynamic processes modifying TCRAJ segments during primate evolution, their repertoire and primary structure appears to be relatively conserved. 21 refs., 2 figs.

Extremely Low Frequency Electromagnetic Field (ELF-EMF and childhood leukemia near transmission lines: a review

Directory of Open Access Journals (Sweden)

P. A. Kokate

2016-04-01

Full Text Available This article presents a systematic review of most cited studies from developed countries those shed light on the potential relation between childhood leukemia and extremely low frequency electromagnetic field (ELF-EMF. All the findings of articles critically segregated as per some neglected parameters like number of samples, exposure duration, frequency range, distance from the radiation sources, and location during measurement of magnetic field density near power lines. Literature of major 50 studies are divided according to pooled analysis / meta-analysis, residential zone assessment and case-control studies.

The human cytochrome P450 3A locus. Gene evolution by capture of downstream exons.

Science.gov (United States)

Finta, C; Zaphiropoulos, P G

2000-12-30

Using a bacterial artificial chromosome (BAC) clone, we have mapped the human cytochrome P450 3A (CYP3A) locus containing the genes encoding for CYP3A4, CYP3A5 and CYP3A7. The genes lie in a head-to-tail orientation in the order of 3A4, 3A7 and 3A5. In both intergenic regions (3A4-3A7 and 3A7-3A5), we have detected several additional cytochrome P450 3A exons, forming two CYP3A pseudogenes. These pseudogenes have the same orientation as the CYP3A genes. To our surprise, a 3A7 mRNA species has been detected in which the exons 2 and 13 of one of the pseudogenes (the one that is downstream of 3A7) are spliced after the 3A7 terminal exon. This results in an mRNA molecule that consists of the 13 3A7 exons and two additional exons at the 3' end. The additional two exons originating from the pseudogene are in an altered reading frame and consequently have the capability to code a completely different amino acid sequence than the canonical CYP3A exons 2 and 13. These findings may represent a generalized evolutionary process with genes having the potential to capture neighboring sequences and use them as functional exons.

Transition-transversion bias is not universal: a counter example from grasshopper pseudogenes.

Directory of Open Access Journals (Sweden)

Irene Keller

2007-02-01

Full Text Available Comparisons of the DNA sequences of metazoa show an excess of transitional over transversional substitutions. Part of this bias is due to the relatively high rate of mutation of methylated cytosines to thymine. Postmutation processes also introduce a bias, particularly selection for codon-usage bias in coding regions. It is generally assumed, however, that there is a universal bias in favour of transitions over transversions, possibly as a result of the underlying chemistry of mutation. Surprisingly, this underlying trend has been evaluated only in two types of metazoan, namely Drosophila and the Mammalia. Here, we investigate a third group, and find no such bias. We characterize the point substitution spectrum in Podisma pedestris, a grasshopper species with a very large genome. The accumulation of mutations was surveyed in two pseudogene families, nuclear mitochondrial and ribosomal DNA sequences. The cytosine-guanine (CpG dinucleotides exhibit the high transition frequencies expected of methylated sites. The transition rate at other cytosine residues is significantly lower. After accounting for this methylation effect, there is no significant difference between transition and transversion rates. These results contrast with reports from other taxa and lead us to reject the hypothesis of a universal transition/transversion bias. Instead we suggest fundamental interspecific differences in point substitution processes.

Pseudogene of dihydrolipoyl succinyltransferase (E2k) found by PCR amplification and direct sequencing of rodent-human cell hybrid DNAs

Energy Technology Data Exchange (ETDEWEB)

Cai, X.; Ali, G.; Blass, J.P. [Cornell Univ. Medical College, White Plains, NY (United States); Szabo, P. [Cornell Univ. Medical College, New York, NY (United States); Tanzi, R.E. [Massachusetts General Hospital, Boston, MA (United States)

1994-07-01

Previous studies have indicated that the cDNA for the E2k component of the human {alpha}-ketoglutarate dehydrogenase complex (KGDHC) hybridized not only to a major locus on chromosome 14q24.3 in a region associated with familial Alzheimer`s disease and with Joseph-Machado disease, but also to another locus on chromosome 1p31. The authors now report that PCR of genomic DNA and direct sequencing indicated that the chromosome 1 locus is an intronless pseudogene. PCR of genomic DNA amplified E2k fragments from mouse-human cell hybrids containing human chromosome 1 DNA but not from hybrids containing human chromosome 14 DNA. The resulting amplicons were of comparable sizes to those when the cDNA was used to template. The direct sequencing of these amplicons confirmed the lack of introns and indicated a frame shift, which led to the presence of four termination codons early in the coding region. PCR followed by direct sequencing of the amplicons appears to be a convenient method for identifying intronless pseudogenes.

Evaluation of occupational exposure to ELF magnetic fields at power plants in Greece in the context of European directives

International Nuclear Information System (INIS)

Christopoulou, Maria; Govari, Chrysa; Tsaprouni, Panagiota; Karabetsos, Efthymios

2015-01-01

The scope of this paper is to comparatively present the extremely low-frequency (ELF) measurements performed at four power plants in Greece, focusing on: (a) the worst-case exposure conditions, (b) the existence of magnetic field harmonic components, (c) the technical similarities among the power plants and (d) comparison of the measured percentages of reference levels at typical working areas in the power plants. A detailed measurement methodology is proposed, including broadband on-site inspection of the working areas, weighted averaged root-mean-square and peak values of magnetic flux density, percentage of reference levels, according to 1998 ICNIRP guidelines and harmonic analysis of the multi-frequency magnetic fields. During the analysis of the occupational exposure in all power plants, the new Directive 2013/35/EU has been taken into account. The study concludes by proposing a mapping procedure of working areas into certain zones, in order to take measures for workers safety. (authors)

Anaphora in question-answer sessions in university ELF contexts.

Directory of Open Access Journals (Sweden)

Thomas Wulstan Christiansen

2015-07-01

Full Text Available Abstract - Identity chains (Hasan 1984 ˗ strings of co-referential noun phrases ˗ constitute a lesser researched area in the field of ELF, as has the more general area of cohesion (but see Hüttner 2009, Christiansen 2011. Following on the work on anaphora of such scholars as Reinhart (1983 and Cornish (1999, and on cohesion (e.g. Halliday and Hasan 1976, Halliday 2004, Christiansen (2009a/b, 2011 focuses on the link between text cohesion and discourse coherence. The interactive perspective of discourse (seen as the process of which text is the product: see Widdowson 1984: 100 is especially relevant to an ELF context of spontaneous spoken interaction. As Guido (2008 evidences, different inter-cultural concerns constitute a crucial dimension to the complex multi-code interaction. Consequently, the diverse ways in which speakers from different L1 backgrounds employ anaphors and construct identity chains are key elements in the co-construction of a dialogic text. In this case study, six extracts of transcripts taken from the VOICE corpus (2011 of conference question and answer sessions set in multicultural contexts are analysed qualitatively. The different ways that participants construct identity chains (e.g. whether they use full forms of various kinds or anaphoric pro-forms are classified. The analysis focuses on both how individual anaphors are resolved and how relations between anaphors and antecedent triggers are encoded, and how identity chains are constructed and organized individually. The objective is to identify which kinds of noun phrase (various subtypes of full and pro-forms are used by diverse groups of EFL speakers both in relation to their own contributions and to those of other speakers (with a threefold distinction made between the same turn of the same speaker, a different turn of the same speaker, and a different turn by a different speaker.

Inhibition of Salmonella typhi growth using extremely low frequency electromagnetic (ELF-EM) waves at resonance frequency.

Science.gov (United States)

Fadel, M A; Mohamed, S A; Abdelbacki, A M; El-Sharkawy, A H

2014-08-01

Typhoid is a serious disease difficult to be treated with conventional drugs. The aim of this study was to demonstrate a new method for the control of Salmonella typhi growth, through the interference with the bioelectric signals generated from the microbe during cell division by extremely low frequency electromagnetic waves (ELF-EMW-ELF-EM) at resonance frequency. Isolated Salmonella typhi was subjected to square amplitude modulated waves (QAMW) with different modulation frequencies from two generators with constant carrier frequency of 10 MHz, amplitude of 10 Vpp, modulating depth ± 2 Vpp and constant field strength of 200 V m(-1) at 37°C. Both the control and exposed samples were incubated at the same conditions during the experiment. The results showed that there was highly significant inhibition effect for Salm. typhi exposed to 0·8 Hz QAMW for a single exposure for 75 min. Dielectric relaxation, TEM and DNA results indicated highly significant changes in the molecular structure of the DNA and cellular membrane resulting from the exposure to the inhibiting EM waves. It was concluded that finding out the inhibiting resonance frequency of ELF-EM waves that deteriorates Salm. typhi growth will be promising method for the treatment of Salm. typhi infection either in vivo or in vitro. This new non-invasive technique for treatment of bacterial infections is of considerable interest for the use in medical and biotechnological applications. © 2014 The Society for Applied Microbiology.

ELF wave generation in the ionosphere using pulse modulated HF heating: initial tests of a technique for increasing ELF wave generation efficiency

Directory of Open Access Journals (Sweden)

R. Barr

1999-06-01

Full Text Available This paper describes the results of a preliminary study to determine the effective heating and cooling time constants of ionospheric currents in a simulated modulated HF heating, `beam painting' configuration. It has been found that even and odd harmonics of the fundamental ELF wave used to amplitude modulate the HF heater are sourced from different regions of the ionosphere which support significantly different heating and cooling time constants. The fundamental frequency and its odd harmonics are sourced in a region of the ionosphere where the heating and cooling time constants are about equal. The even harmonics on the other hand are sourced from regions of the ionosphere characterised by ratios of cooling to heating time constant greater than ten. It is thought that the even harmonics are sourced in the lower ionosphere (around 65 km where the currents are much smaller than at the higher altitudes around 78 km where the currents at the fundamental frequency and odd harmonics maximise.Key words. Electromagnetics (antennae · Ionosphere (active experiments · Radio science (non linear phenomena

The peculiarities of power terrestrial ELF emission in the Earth's ionosphere

Science.gov (United States)

Korepanov, Valery; Dudkin, Fedir; Pronenko, Vira; Chvach, Valery

2016-04-01

The near-Earth space is saturated with electromagnetic (EM) waves of terrestrial origin in a wide frequency range. The most powerful natural sources of EM emission are thunderstorms and triggered by them Schumann resonance (SR) radiation which is the narrowband EM noise that occurs due to the global thunderstorm activity in the Earth-ionosphere cavity in frequency range about 7-100 Hz. The considerable part of the terrestrial EM emission belongs to everyday human activity which increases year by year with unpredictable consequences. At the beginning of space exploration era it was considered that high frequency EM waves freely penetrate through the Earth's ionosphere, but the terrestrial EM emission below very low frequency range is limited by ionospheric F2 layer boundary due to great EM losses in plasma. About 40 years ago the power lines harmonic radiation (multiple of 50/60 Hz) was found at satellite observations in a few kilohertz range, nevertheless the ionosphere was considered fully opaque for extremely low frequency (ELF) EM emission. However recently, in spite of theoretical estimations, the SR harmonics and power line emission (PLE) 50/60 Hz were discovered during flights of low Earth orbiting satellites C/NOFS (Simões et al., 2011) and Chibis-M (Dudkin et al., 2015) at heights 400-800 km, i.e. over F2-layer. Last results are a great challenge to the theory of ELF EM emission propagation in the Earth's ionosphere as well as for study of long-term influence of constantly increasing electric energy consumption by human civilization in the Earth's environment. We present the analysis of the space and time distribution for observed PLE and SR harmonics, their connection with power terrestrial sources of ELF emission and possible relation between measured values and ionosphere conditions. Also some electromagnetic parameters have been estimated. Simões, F. A., R. F. Pfaff, and H. T. Freudenreich (2011), Satellite observations of Schumann resonances in the

Identification of four genomic loci highly related to casein-kinase-2-alpha cDNA and characterization of a casein kinase-2-alpha pseudogene within the mouse genome

DEFF Research Database (Denmark)

Boldyreff, B; Wehr, K; Hecht, R

1992-01-01

positive clone was further analyzed by sequencing a 3.1 kb XbaI fragment. This clone displays the characteristics of a pseudogene, i.e. lack of introns and several nucleotide insertions and deletions. In its 3' region it contains a 91 bp large CT-rich stretch which consists of (CCTT) and (CT) repeats...

Complex group-I introns in nuclear SSU rDNA of red and green algae: evidence of homing-endonuclease pseudogenes in the Bangiophyceae

DEFF Research Database (Denmark)

Haugen, P; Huss, V A; Nielsen, Henrik

1999-01-01

on the complementary strand. A comparison between related group-I introns in the Bangiophyceae revealed homing-endonuclease-like pseudogenes due to frame-shifts and deletions in Porphyra and Bangia. The Scenedesmus and Porphyra introns provide new insights into the evolution and possible novel functions of nuclear...

The macrophage activation marker sCD163 combined with markers of the Enhanced Liver Fibrosis (ELF) score predicts clinically significant portal hypertension in patients with cirrhosis

DEFF Research Database (Denmark)

Sandahl, T D; McGrail, R; Møller, H J

2016-01-01

BACKGROUND: Noninvasive identification of significant portal hypertension in patients with cirrhosis is needed in hepatology practice. AIM: To investigate whether the combination of sCD163 as a hepatic inflammation marker and the fibrosis markers of the Enhanced Liver Fibrosis score (ELF) can...... predict portal hypertension in patients with cirrhosis. METHODS: We measured sCD163 and the ELF components (hyaluronic acid, tissue inhibitor of metalloproteinase-1 and procollagen-III aminopeptide) in two separate cohorts of cirrhosis patients that underwent hepatic vein catheterisation. To test...... the predictive accuracy we developed a CD163-fibrosis portal hypertension score in an estimation cohort (n = 80) and validated the score in an independent cohort (n = 80). A HVPG ≥10 mmHg was considered clinically significant. RESULTS: Both sCD163 and the ELF components increased in a stepwise manner...

A gonococcal homologue of meningococcal γ-glutamyl transpeptidase gene is a new type of bacterial pseudogene that is transcriptionally active but phenotypically silent

Directory of Open Access Journals (Sweden)

Watanabe Haruo

2005-10-01

Full Text Available Abstract Background It has been speculated that the γ-glutamyl transpeptidase (ggt gene is present only in Neisseria meningitidis and not among related species such as Neisseria gonorrhoeae and Neisseria lactamica, because N. meningitidis is the only bacterium with GGT activity. However, nucleotide sequences highly homologous to the meningococcal ggt gene were found in the genomes of N. gonorrhoeae isolates. Results The gonococcal homologue (ggt gonococcal homologue; ggh was analyzed. The nucleotide sequence of the ggh gene was approximately 95 % identical to that of the meningococcal ggt gene. An open reading frame in the ggh gene was disrupted by an ochre mutation and frameshift mutations induced by a 7-base deletion, but the amino acid sequences deduced from the artificially corrected ggh nucleotide sequences were approximately 97 % identical to that of the meningococcal ggt gene. The analyses of the sequences flanking the ggt and ggh genes revealed that both genes were localized in a common DNA region containing the fbp-ggt (or ggh-glyA-opcA-dedA-abcZ gene cluster. The expression of the ggh RNA could be detected by dot blot, RT-PCR and primer extension analyses. Moreover, the truncated form of ggh-translational product was also found in some of the gonococcal isolates. Conclusion This study has shown that the gonococcal ggh gene is a pseudogene of the meningococcal ggt gene, which can also be designated as Ψggt. The gonococcal ggh (Ψggt gene is the first identified bacterial pseudogene that is transcriptionally active but phenotypically silent.

Cohesion as interaction in ELF spoken discourse

Directory of Open Access Journals (Sweden)

T. Christiansen

2013-10-01

Full Text Available Hitherto, most research into cohesion has concentrated on texts (usually written only in standard Native Speaker English – e.g. Halliday and Hasan (1976. By contrast, following on the work in anaphora of such scholars as Reinhart (1983 and Cornish (1999, Christiansen (2011 describes cohesion as an interac­tive process focusing on the link between text cohesion and discourse coherence. Such a consideration of cohesion from the perspective of discourse (i.e. the process of which text is the product -- Widdowson 1984, p. 100 is especially relevant within a lingua franca context as the issue of different variations of ELF and inter-cultural concerns (Guido 2008 add extra dimensions to the complex multi-code interaction. In this case study, six extracts of transcripts (approximately 1000 words each, taken from the VOICE corpus (2011 of conference question and answer sessions (spoken interaction set in multicultural university con­texts are analysed in depth by means of a qualitative method.

All in a day’s work ... or, ELF in a day’s work: meeting the changing needs of learners and users of English in Higher Education

Directory of Open Access Journals (Sweden)

Patricia Pullin

2011-08-01

Full Text Available English as a lingua franca (ELF has been described as “… the fastest-growing and at the same time the least recognised function of English in the world.” (Mauranen 2009. As a shared language used between speakers who do not have the same lingua cultural backgrounds, English has been the global language of business for some time (Charles 2008 and is increasingly used in academia, not only as the lingua franca of research, but also for teaching and administrative work. As a field of research, ELF focuses on language use in context, notably showing how flexible users of ELF are in negotiating meaning and achieving understanding, despite differences in cultural and linguistic backgrounds (Firth 1996, 2008. Yet, using English as a lingua franca can present challenges, and the research findings have implications not only for users of English in a range of contexts, but also for teachers and learners of English. The focus of this article is on the effect of change with regard to English on curriculum development and syllabus design at the University of Zurich and Federal Institute of Technology (ETH Zurich Language Center. Drawing on Richards (2001, curriculum development refers here to an overall process of educational planning and implementation, comprising needs analysis, situation analysis, setting of aims and learning outcomes, course design, delivery and assessment. These elements are seen as a “network of interacting systems.” (Richards 2001:41. Syllabus design, on the other hand, deals with the specific content covered in a given course.

Attenuation bands and cut-off frequencies for ELF electromagnetic waves

International Nuclear Information System (INIS)

Rauch, J.L.; Lefeuvre, F.; Cerisier, J.C.; Berthelier, J.J.; Boud'ko, N.; Michailova, G.; Kapustina, O.

1985-01-01

The propagation characteristic of ELF (10 Hz - 1500 Hz) electromagnetic waves observed on ARCAD 3, in three different zones: low L value (L 6). Unambiguous determinations of the wave normal directions are obtained from the interpretations of the measurements of four (3 magnetic, 1 electric) wave field components. The technique that is used, is based on the Means method in the cases of highly polarized waves and on the Storey and Lefeuvre WDF method in the other cases. A particular emphasis is put on the propagation characteristics of the waves, in a multiple ion plasma, and on the cut-off frequencies which appear at and below the local proton gyrofrequency

The ZNF75 zinc finger gene subfamily: Isolation and mapping of the four members in humans and great apes

Energy Technology Data Exchange (ETDEWEB)

Villa, A.; Strina, D.; Frattini, A. [Consiglio Nazionale delle Ricerche, Milan (Italy)] [and others

1996-07-15

We have previously reported the characterization of the human ZNF75 gene located on Xq26, which has only limited homology (less than 65%) to other ZF genes in the databases. Here, we describe three human zinc finger genes with 86 to 95% homology to ZNF75 at the nucleotide level, which represent all the members of the human ZNF75 subfamily. One of these, ZNF75B, is a pseudogene mapped to chromosome 12q13. The other two, ZNF75A and ZNF75C, maintain on ORF in the sequenced region, and at least the latter is expressed in the U937 cell line. They were mapped to chromosomes 16 and 11, respectively. All these genes are conserved in chimpanzees, gorillas, and orangutans. The ZNF75B homologue is a pseudogene in all three great apes, and in chimpanzee it is located on chromosome 10 (phylogenetic XII), at p13 (corresponding to the human 12q13). The chimpanzee homologue of ZNF75 is also located on the Xq26 chromosome, in the same region, as detected by in situ hybridization. As expected, nucleotide changes were clearly more abundant between human and organutan than between human and chimpanzee or gorilla homologues. Members of the same class were more similar to each other than to the other homologues within the same species. This suggests that the duplication and/or retrotranscription events occurred in a common ancestor long before great ape speciation. This, together with the existance of at least two genes in cows and horses, suggests a relatively high conservation of this gene family. 20 refs., 5 figs., 1 tab.

Genital and extra-genital screening for gonorrhoea using the BD Probetec ET system with an in-house PCR method targeting the porA pseudogene as confirmatory test

DEFF Research Database (Denmark)

Skovgaard, Sissel; Larsen, Helle Kiellberg; Sand, Carsten

2012-01-01

for Chlamydia trachomatis testing were also examined for GC on the BD Viper™ platform using the BD Probetec ET system. In order to avoid false-positive results all GC BD reactive samples were re-tested using a PCR method with the porA pseudogene as target. Using this method we screened 170% more samples for GC...

The European Location Framework - from National to European

Science.gov (United States)

Pauknerova, E.; Sidlichovsky, P.; Urbanas, S.; Med, M.

2016-06-01

The European Location Framework (ELF) means a technical infrastructure which will deliver authoritative, interoperable geospatial reference data from all over Europe for analysing and understanding information connected to places and features. The ELF has been developed and set up through the ELF Project, which has been realized by a consortium of partners (public, private and academic organisations) since March 2013. Their number increased from thirty to forty in the year 2016, together with a project extension from 36 to 44 months. The project is co-funded by the European Commission's Competitiveness and Innovation Framework Programme (CIP) and will end in October 2016. In broad terms, the ELF Project will deliver a unique gateway to the authoritative reference geospatial information for Europe (harmonised pan-European maps, geographic and land information) sourced from the National Mapping and Cadastral Authorities (NMCAs) around Europe and including transparent licensing. This will be provided as an online ELF web service that will deliver an up-to-date topographic base map and also as view & download services for access to the ELF datasets. To develop and build up the ELF, NMCAs are accompanied and collaborate with several research & academia institutes, a standardisation body, system integrators, software developers and application providers. The harmonisation is in progress developing and triggering a number of geo-tools like edge-matching, generalisation, transformation and others. ELF will provide also some centralised tools like Geo Locator for searching location based on geographical names, addresses and administrative units, and GeoProduct Finder for discovering the available web-services and licensing them. ELF combines national reference geo-information through the ELF platform. ELF web services will be offered to users and application developers through open source (OSKARI) and proprietary (ArcGIS Online) cloud platforms. Recently, 29 NMCAs plus the

Assessing occupational and domestic ELF magnetic field exposure in the UK Adult Brain Tumour Study: Results of a feasibility study

International Nuclear Information System (INIS)

Van Tongeren, M.; Mee, T.; Whatmough, P.; Broad, L.; Mashlanyj, M.; Allen, S.; Muir, K.; McKinney, P.

2004-01-01

The feasibility of measuring exposure to extremely low frequency magnetic fields (ELF MF) in the UK Adult Brain Tumour Study (UKABTS) was examined. During the study, 81 individuals and 30 companies were approached with 79 individuals and 25 companies agreeing to participate. Exposure data were collected using EMDEX II dosemeters worn by the participants for 3-4 consecutive days. Data were collected over a total of 321 d, including non-occupational periods. The results showed occupational exposure to be the main determinant of overall exposure. Moderate to strong correlations were found between arithmetic mean exposure and all other metrics with the possible exception of maximum exposure. Significant differences in exposure were found between job categories with large variability in certain categories. Highest average exposures were found for security officers (arithmetic mean, AM: 0.78 μT), secretaries (AM: 0.48 μT) and dentists (AM: 0.42 μT). Welding and working near high-voltage power lines were associated with elevated exposure. In summary, acceptably precise measures of ELF MF exposure are feasible at relatively moderate cost. The results were used to develop a protocol for data collection from subjects in the UKABTS. (authors)

Uncovering the molecular organization of unusual highly scattered 5S rDNA: The case of Chariesterus armatus (Heteroptera).

Science.gov (United States)

Bardella, Vanessa Bellini; Cabral-de-Mello, Diogo Cavalcanti

2018-03-10

One cluster of 5S rDNA per haploid genome is the most common pattern among Heteroptera. However, in Chariesterus armatus, highly scattered signals were noticed. We isolated and characterized the entire 5S rDNA unit of C. armatus aiming to a deeper knowledge of molecular organization of the 5S rDNA among Heteroptera and to understand possible causes and consequences of 5S rDNA chromosomal spreading. For a comparative analysis, we performed the same approach in Holymenia histrio with 5S rDNA restricted to one bivalent. Multiple 5S rDNA variants were observed in both species, though they were more variable in C. armatus, with some of variants corresponding to pseudogenes. These pseudogenes suggest birth-and-death mechanism, though homogenization was also observed (concerted evolution), indicating evolution through mixed model. Association between transposable elements and 5S rDNA was not observed, suggesting spreading of 5S rDNA through other mechanisms, like ectopic recombination. Scattered organization is a rare example for 5S rDNA, and such organization in C. armatus genome could have led to the high diversification of sequences favoring their pseudogenization. Copyright © 2017. Published by Elsevier B.V.

Mapping onto Eq-5 D for patients in poor health

Directory of Open Access Journals (Sweden)

Brazier John E

2010-11-01

Full Text Available Abstract Background An increasing amount of studies report mapping algorithms which predict EQ-5 D utility values using disease specific non-preference-based measures. Yet many mapping algorithms have been found to systematically overpredict EQ-5 D utility values for patients in poor health. Currently there are no guidelines on how to deal with this problem. This paper is concerned with the question of why overestimation of EQ-5 D utility values occurs for patients in poor health, and explores possible solutions. Method Three existing datasets are used to estimate mapping algorithms and assess existing mapping algorithms from the literature mapping the cancer-specific EORTC-QLQ C-30 and the arthritis-specific Health Assessment Questionnaire (HAQ onto the EQ-5 D. Separate mapping algorithms are estimated for poor health states. Poor health states are defined using a cut-off point for QLQ-C30 and HAQ, which is determined using association with EQ-5 D values. Results All mapping algorithms suffer from overprediction of utility values for patients in poor health. The large decrement of reporting 'extreme problems' in the EQ-5 D tariff, few observations with the most severe level in any EQ-5 D dimension and many observations at the least severe level in any EQ-5 D dimension led to a bimodal distribution of EQ-5 D index values, which is related to the overprediction of utility values for patients in poor health. Separate algorithms are here proposed to predict utility values for patients in poor health, where these are selected using cut-off points for HAQ-DI (> 2.0 and QLQ C-30 ( Conclusion Mapping algorithms overpredict utility values for patients in poor health but are used in cost-effectiveness analyses nonetheless. Guidelines can be developed on when the use of a mapping algorithms is inappropriate, for instance through the identification of cut-off points. Cut-off points on a disease specific questionnaire can be identified through association

Intron-exon organization of the active human protein S gene PS. alpha. and its pseudogene PS. beta. : Duplication and silencing during primate evolution

Energy Technology Data Exchange (ETDEWEB)

Ploos van Amstel, H.; Reitsma, P.H.; van der Logt, C.P.; Bertina, R.M. (University Hospital, Leiden (Netherlands))

1990-08-28

The human protein S locus on chromosome 3 consists of two protein S genes, PS{alpha} and PS{beta}. Here the authors report the cloning and characterization of both genes. Fifteen exons of the PS{alpha} gene were identified that together code for protein S mRNA as derived from the reported protein S cDNAs. Analysis by primer extension of liver protein S mRNA, however, reveals the presence of two mRNA forms that differ in the length of their 5{prime}-noncoding region. Both transcripts contain a 5{prime}-noncoding region longer than found in the protein S cDNAs. The two products may arise from alternative splicing of an additional intron in this region or from the usage of two start sites for transcription. The intron-exon organization of the PS{alpha} gene fully supports the hypothesis that the protein S gene is the product of an evolutional assembling process in which gene modules coding for structural/functional protein units also found in other coagulation proteins have been put upstream of the ancestral gene of a steroid hormone binding protein. The PS{beta} gene is identified as a pseudogene. It contains a large variety of detrimental aberrations, viz., the absence of exon I, a splice site mutation, three stop codons, and a frame shift mutation. Overall the two genes PS{alpha} and PS{beta} show between their exonic sequences 96.5% homology. Southern analysis of primate DNA showed that the duplication of the ancestral protein S gene has occurred after the branching of the orangutan from the African apes. A nonsense mutation that is present in the pseudogene of man also could be identified in one of the two protein S genes of both chimpanzee and gorilla. This implicates that silencing of one of the two protein S genes must have taken place before the divergence of the three African apes.

Simultaneous observations of quasi-periodic ELF/VLF wave emissions and electron precipitation by DEMETER satellite: A case study

Czech Academy of Sciences Publication Activity Database

Hayosh, Mykhaylo; Pasmanik, D. L.; Demekhov, A. G.; Santolík, Ondřej; Parrot, M.; Titova, E. E.

2013-01-01

Roč. 118, č. 7 (2013), s. 4523-4533 ISSN 2169-9380 R&D Projects: GA ČR(CZ) GAP209/11/2280; GA MŠk LH12231 Institutional support: RVO:68378289 Keywords : quasi-periodic ELF/VLF emission s in the magnetosphere * wave-particle interactions * demeter spacecraft measurements * whistler-mode waves Subject RIV: DG - Athmosphere Sciences, Meteorology Impact factor: 3.440, year: 2013 http://onlinelibrary.wiley.com/doi/10.1002/jgra.50179/abstract

An active antenna for ELF magnetic fields

Science.gov (United States)

Sutton, John F.; Spaniol, Craig

1994-01-01

The work of Nikola Tesla, especially that directed toward world-wide electrical energy distribution via excitation of the earth-ionosphere cavity resonances, has stimulated interest in the study of these resonances. Not only are they important for their potential use in the transmission of intelligence and electrical power, they are important because they are an integral part of our natural environment. This paper describes the design of a sensitive, untuned, low noise active antenna which is uniquely suited to modern earth-ionosphere cavity resonance measurements employing fast-Fourier transform techniques for near-real-time data analysis. It capitalizes on a little known field-antenna interaction mechanism. Recently, the authors made preliminary measurements of the magnetic fields in the earth-ionosphere cavity. During the course of this study, the problem of designing an optimized ELF magnetic field sensor presented itself. The sensor would have to be small, light weight (for portable use), and capable of detecting the 5-50 Hz picoTesla-level signals generated by the natural excitations of the earth-ionosphere cavity resonances. A review of the literature revealed that past researchers had employed very large search coils, both tuned and untuned. Hill and Bostick, for example, used coils of 30,000 turns wound on high permeability cores of 1.83 m length, weighing 40 kg. Tuned coils are unsuitable for modern fast-Fourier transform data analysis techniques which require a broad spectrum input. 'Untuned' coils connected to high input impedance voltage amplifiers exhibit resonant responses at the resonant frequency determined by the coil inductance and the coil distributed winding capacitance. Also, considered as antennas, they have effective areas equal only to their geometrical areas.

Elf measurements in Greece conducted by the Greek Atomic Energy Commission

International Nuclear Information System (INIS)

Karabetsos, E.; Filippopoulos, G.; Koutounidis, D.; Govari, Ch.; Skamnakis, N.

2006-01-01

The Greek Atomic Energy Commission (E.E.A.E.) is the competent national authority for the protection of the general public and the environment from artificially produced non-ionizing radiation. To this end, E.E.A.E. carries out measurements in the vicinity of all kinds of facilities emitting E.L.F. electric and magnetic fields (e.g. power lines, high voltage substations) and RF electromagnetic fields (e.g. audio, radio and television antennas, mobile phone base stations, radar and satellite earth stations and other microwave communication systems), in order to monitor whether the general public exposure limits are being adhered to. Regarding the electromagnetic fields emitted by antenna stations, the safety limits in Greek legislation were recently set to 70% of the I.C.N.I.R.P. values and to 60% of them if the antenna station is closer than 300 m from the perimeter of day nurseries, schools, hospitals or elder-care facilities, while in the case of extremely low frequency fields, the limit values are set exactly the same as the reference levels in I.C.N.I.R.P. guidelines. Regarding the levels of E.L.F. electric and magnetic fields in Greece E.E.A.E. has conducted many measurements around the elements of the electric grid where the main interest of the public is focused. Theoretical estimations and typical values based on actual measurements of the fields in the vicinity of the power lines used in Greece are presented. Measurement results in the vicinity of substations are also presented. In general, the levels of the magnetic field in the vicinity of the power grid elements are well below the established safety limits; whereas the levels of the electric field may reach values comparable to the safety limits very close to extremely high voltage lines. However, there is no case where the measured values of elf electric or magnetic fields were higher than the safety limits. There are a few exceptional cases where measurements of RF fields conducted by E.E.A.E. in the

Elf measurements in Greece conducted by the Greek Atomic Energy Commission

Energy Technology Data Exchange (ETDEWEB)

Karabetsos, E.; Filippopoulos, G.; Koutounidis, D.; Govari, Ch.; Skamnakis, N. [Greek Atomic Energy Commission, Non Ionizing Radiation Office, (Greece)

2006-07-01

The Greek Atomic Energy Commission (E.E.A.E.) is the competent national authority for the protection of the general public and the environment from artificially produced non-ionizing radiation. To this end, E.E.A.E. carries out measurements in the vicinity of all kinds of facilities emitting E.L.F. electric and magnetic fields (e.g. power lines, high voltage substations) and RF electromagnetic fields (e.g. audio, radio and television antennas, mobile phone base stations, radar and satellite earth stations and other microwave communication systems), in order to monitor whether the general public exposure limits are being adhered to. Regarding the electromagnetic fields emitted by antenna stations, the safety limits in Greek legislation were recently set to 70% of the I.C.N.I.R.P. values and to 60% of them if the antenna station is closer than 300 m from the perimeter of day nurseries, schools, hospitals or elder-care facilities, while in the case of extremely low frequency fields, the limit values are set exactly the same as the reference levels in I.C.N.I.R.P. guidelines. Regarding the levels of E.L.F. electric and magnetic fields in Greece E.E.A.E. has conducted many measurements around the elements of the electric grid where the main interest of the public is focused. Theoretical estimations and typical values based on actual measurements of the fields in the vicinity of the power lines used in Greece are presented. Measurement results in the vicinity of substations are also presented. In general, the levels of the magnetic field in the vicinity of the power grid elements are well below the established safety limits; whereas the levels of the electric field may reach values comparable to the safety limits very close to extremely high voltage lines. However, there is no case where the measured values of elf electric or magnetic fields were higher than the safety limits. There are a few exceptional cases where measurements of RF fields conducted by E.E.A.E. in the

Chromosome mapping of dragline silk genes in the genomes of widow spiders (Araneae, Theridiidae.

Directory of Open Access Journals (Sweden)

Yonghui Zhao

Full Text Available With its incredible strength and toughness, spider dragline silk is widely lauded for its impressive material properties. Dragline silk is composed of two structural proteins, MaSp1 and MaSp2, which are encoded by members of the spidroin gene family. While previous studies have characterized the genes that encode the constituent proteins of spider silks, nothing is known about the physical location of these genes. We determined karyotypes and sex chromosome organization for the widow spiders, Latrodectus hesperus and L. geometricus (Araneae, Theridiidae. We then used fluorescence in situ hybridization to map the genomic locations of the genes for the silk proteins that compose the remarkable spider dragline. These genes included three loci for the MaSp1 protein and the single locus for the MaSp2 protein. In addition, we mapped a MaSp1 pseudogene. All the MaSp1 gene copies and pseudogene localized to a single chromosomal region while MaSp2 was located on a different chromosome of L. hesperus. Using probes derived from L. hesperus, we comparatively mapped all three MaSp1 loci to a single region of a L. geometricus chromosome. As with L. hesperus, MaSp2 was found on a separate L. geometricus chromosome, thus again unlinked to the MaSp1 loci. These results indicate orthology of the corresponding chromosomal regions in the two widow genomes. Moreover, the occurrence of multiple MaSp1 loci in a conserved gene cluster across species suggests that MaSp1 proliferated by tandem duplication in a common ancestor of L. geometricus and L. hesperus. Unequal crossover events during recombination could have given rise to the gene copies and could also maintain sequence similarity among gene copies over time. Further comparative mapping with taxa of increasing divergence from Latrodectus will pinpoint when the MaSp1 duplication events occurred and the phylogenetic distribution of silk gene linkage patterns.

Background ELF magnetic fields in incubators: a factor of importance in cell culture work.

Science.gov (United States)

Mild, Kjell Hansson; Wilén, Jonna; Mattsson, Mats-Olof; Simko, Myrtill

2009-07-01

Extremely low frequency (ELF) magnetic fields in cell culture incubators have been measured. Values of the order of tens of muT were found which is in sharp contrast to the values found in our normal environment (0.05-0.1microT). There are numerous examples of biological effects found after exposure to MF at these levels, such as changes in gene expression, blocked cell differentiation, inhibition of the effect of tamoxifen, effects on chick embryo development, etc. We therefore recommend that people working with cell culture incubators check for the background magnetic field and take this into account in performing their experiments, since this could be an unrecognised factor of importance contributing to the variability in the results from work with cell cultures.

Ribosomal RNA Genes Contribute to the Formation of Pseudogenes and Junk DNA in the Human Genome.

Science.gov (United States)

Robicheau, Brent M; Susko, Edward; Harrigan, Amye M; Snyder, Marlene

2017-02-01

Approximately 35% of the human genome can be identified as sequence devoid of a selected-effect function, and not derived from transposable elements or repeated sequences. We provide evidence supporting a known origin for a fraction of this sequence. We show that: 1) highly degraded, but near full length, ribosomal DNA (rDNA) units, including both 45S and Intergenic Spacer (IGS), can be found at multiple sites in the human genome on chromosomes without rDNA arrays, 2) that these rDNA sequences have a propensity for being centromere proximal, and 3) that sequence at all human functional rDNA array ends is divergent from canonical rDNA to the point that it is pseudogenic. We also show that small sequence strings of rDNA (from 45S + IGS) can be found distributed throughout the genome and are identifiable as an "rDNA-like signal", representing 0.26% of the q-arm of HSA21 and ∼2% of the total sequence of other regions tested. The size of sequence strings found in the rDNA-like signal intergrade into the size of sequence strings that make up the full-length degrading rDNA units found scattered throughout the genome. We conclude that the displaced and degrading rDNA sequences are likely of a similar origin but represent different stages in their evolution towards random sequence. Collectively, our data suggests that over vast evolutionary time, rDNA arrays contribute to the production of junk DNA. The concept that the production of rDNA pseudogenes is a by-product of concerted evolution represents a previously under-appreciated process; we demonstrate here its importance. © The Author(s) 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

RNA editing makes mistakes in plant mitochondria: editing loses sense in transcripts of a rps19 pseudogene and in creating stop codons in coxI and rps3 mRNAs of Oenothera.

Science.gov (United States)

Schuster, W; Brennicke, A

1991-01-01

An intact gene for the ribosomal protein S19 (rps19) is absent from Oenothera mitochondria. The conserved rps19 reading frame found in the mitochondrial genome is interrupted by a termination codon. This rps19 pseudogene is cotranscribed with the downstream rps3 gene and is edited on both sides of the translational stop. Editing, however, changes the amino acid sequence at positions that were well conserved before editing. Other strange editings create translational stops in open reading frames coding for functional proteins. In coxI and rps3 mRNAs CGA codons are edited to UGA stop codons only five and three codons, respectively, downstream to the initiation codon. These aberrant editings in essential open reading frames and in the rps19 pseudogene appear to have been shifted to these positions from other editing sites. These observations suggest a requirement for a continuous evolutionary constraint on the editing specificities in plant mitochondria. Images PMID:1762921

RNA-based mutation analysis identifies an unusual MSH6 splicing defect and circumvents PMS2 pseudogene interference.

Science.gov (United States)

Etzler, J; Peyrl, A; Zatkova, A; Schildhaus, H-U; Ficek, A; Merkelbach-Bruse, S; Kratz, C P; Attarbaschi, A; Hainfellner, J A; Yao, S; Messiaen, L; Slavc, I; Wimmer, K

2008-02-01

Heterozygous germline mutations in one of the mismatch repair (MMR) genes MLH1, MSH2, MSH6, and PMS2 cause hereditary nonpolyposis colorectal cancer (HNPCC) or Lynch syndrome, a dominantly inherited cancer susceptibility syndrome. Recent reports provide evidence for a novel recessively inherited cancer syndrome with constitutive MMR deficiency due to biallelic germline mutations in one of the MMR genes. MMR-deficiency (MMR-D) syndrome is characterized by childhood brain tumors, hematological and/or gastrointestinal malignancies, and signs of neurofibromatosis type 1 (NF1). We established an RNA-based mutation detection assay for the four MMR genes, since 1) a number of splicing defects may escape detection by the analysis of genomic DNA, and 2) DNA-based mutation detection in the PMS2 gene is severely hampered by the presence of multiple highly similar pseudogenes, including PMS2CL. Using this assay, which is based on direct cDNA sequencing of RT-PCR products, we investigated two families with children suspected to suffer from MMR-D syndrome. We identified a homozygous complex MSH6 splicing alteration in the index patients of the first family and a novel homozygous PMS2 mutation (c.182delA) in the index patient of the second family. Furthermore, we demonstrate, by the analysis of a PMS2/PMS2CL "hybrid" allele carrier, that RNA-based PMS2 testing effectively avoids the caveats of genomic DNA amplification approaches; i.e., pseudogene coamplification as well as allelic dropout, and will, thus, allow more sensitive mutation analysis in MMR deficiency and in HNPCC patients with PMS2 defects. (c) 2007 Wiley-Liss, Inc.

On the efficiency of ELF/VLF generation using HF heating of the auroral electrojet

International Nuclear Information System (INIS)

Papadopoulos, K.; Milikh, G.M.; Wallace, T.; McCarrick, M.; Yang, X.

2003-01-01

Using experimental measurements and theoretical analysis, it is shown that the HF/ELF conversion efficiency is controlled by the timescale for electron temperature saturation. This is a function of the ERP and frequency of the heater and the ionospheric electron density profile. For the current HAARP parameters, this corresponds to frequencies between 2 and 4 kHz. Efficiency optimization techniques as applied to the projected upgrading of the HAARP heater to its design power of 3.6 MW are discussed

Functional PMS2 hybrid alleles containing a pseudogene-specific missense variant trace back to a single ancient intrachromosomal recombination event.

Science.gov (United States)

Ganster, Christina; Wernstedt, Annekatrin; Kehrer-Sawatzki, Hildegard; Messiaen, Ludwine; Schmidt, Konrad; Rahner, Nils; Heinimann, Karl; Fonatsch, Christa; Zschocke, Johannes; Wimmer, Katharina

2010-05-01

Sequence exchange between PMS2 and its pseudogene PMS2CL, embedded in an inverted duplication on chromosome 7p22, has been reported to be an ongoing process that leads to functional PMS2 hybrid alleles containing PMS2- and PMS2CL-specific sequence variants at the 5'-and the 3'-end, respectively. The frequency of PMS2 hybrid alleles, their biological significance, and the mechanisms underlying their formation are largely unknown. Here we show that overall hybrid alleles account for one-third of 384 PMS2 alleles analyzed in individuals of different ethnic backgrounds. Depending on the population, 14-60% of hybrid alleles carry PMS2CL-specific sequences in exons 13-15, the remainder only in exon 15. We show that exons 13-15 hybrid alleles, named H1 hybrid alleles, constitute different haplotypes but trace back to a single ancient intrachromosomal recombination event with crossover. Taking advantage of an ancestral sequence variant specific for all H1 alleles we developed a simple gDNA-based polymerase chain reaction (PCR) assay that can be used to identify H1-allele carriers with high sensitivity and specificity (100 and 99%, respectively). Because H1 hybrid alleles harbor missense variant p.N775S of so far unknown functional significance, we assessed the H1-carrier frequency in 164 colorectal cancer patients. So far, we found no indication that the variant plays a major role with regard to cancer susceptibility. (c) 2010 Wiley-Liss, Inc.

ELF/VLF wave propagation at subauroral latitudes: Conjugate observation between the ground and Van Allen Probes

Czech Academy of Sciences Publication Activity Database

Martinez‐Calderon, C.; Shiokawa, K.; Miyoshi, Y.; Keika, K.; Ozaki, M.; Schofield, I.; Connors, M.; Kletzing, C.; Hanzelka, Miroslav; Santolík, Ondřej; Kurth, W. S.

2016-01-01

Roč. 121, č. 6 (2016), s. 5384-5393 ISSN 2169-9380 R&D Projects: GA ČR(CZ) GA14-31899S Institutional support: RVO:68378289 Keywords : QP * conjugate event * VLF/ELF * propagation * time delay * ray tracing Subject RIV: BL - Plasma and Gas Discharge Physics Impact factor: 2.733, year: 2016 http://onlinelibrary.wiley.com/doi/10.1002/2015JA022264/full

HAM-5 functions as a MAP kinase scaffold during cell fusion in Neurospora crassa.

Directory of Open Access Journals (Sweden)

Wilfried Jonkers

2014-11-01

Full Text Available Cell fusion in genetically identical Neurospora crassa germlings and in hyphae is a highly regulated process involving the activation of a conserved MAP kinase cascade that includes NRC-1, MEK-2 and MAK-2. During chemotrophic growth in germlings, the MAP kinase cascade members localize to conidial anastomosis tube (CAT tips every ∼8 minutes, perfectly out of phase with another protein that is recruited to the tip: SOFT, a recently identified scaffold for the MAK-1 MAP kinase pathway in Sordaria macrospora. How the MAK-2 oscillation process is initiated, maintained and what proteins regulate the MAP kinase cascade is currently unclear. A global phosphoproteomics approach using an allele of mak-2 (mak-2Q100G that can be specifically inhibited by the ATP analog 1NM-PP1 was utilized to identify MAK-2 kinase targets in germlings that were potentially involved in this process. One such putative target was HAM-5, a protein of unknown biochemical function. Previously, Δham-5 mutants were shown to be deficient for hyphal fusion. Here we show that HAM-5-GFP co-localized with NRC-1, MEK-2 and MAK-2 and oscillated with identical dynamics from the cytoplasm to CAT tips during chemotropic interactions. In the Δmak-2 strain, HAM-5-GFP localized to punctate complexes that did not oscillate, but still localized to the germling tip, suggesting that MAK-2 activity influences HAM-5 function/localization. However, MAK-2-GFP showed cytoplasmic and nuclear localization in a Δham-5 strain and did not localize to puncta. Via co-immunoprecipitation experiments, HAM-5 was shown to physically interact with NRC-1, MEK-2 and MAK-2, suggesting that it functions as a scaffold/transport hub for the MAP kinase cascade members for oscillation and chemotropic interactions during germling and hyphal fusion in N. crassa. The identification of HAM-5 as a scaffold-like protein will help to link the activation of MAK-2 cascade to upstream factors and proteins involved in this

RFLPs for ATP1BL1 (. beta. subunit Na sup + /K sup + ATPase pseudogene) on chromosome 4

Energy Technology Data Exchange (ETDEWEB)

Georgiou, C.; Shull, M. (Univ. of Iowa Hospitals, Iowa City (USA)); Lingrel, J.B.; Murray, J.C.; Lane, L.K. (Univ. of Cincinnati College of Medicine, OH (USA))

1989-11-11

{beta}51-1(1.4) contains a 1.4kb EcoRI fragment, free of repetitive elements, from the {beta} subunit Na{sup +}/K{sup +} ATPase pseudogene (ATP1BL1). The vector is pUG18. EcoRI identifies 2 allelic bands of 7.0 and 14.0 kb. KpnI identifies 2 allelic bands of 19.0 and 23.0 kb. The probe was localized to chromosome 4 by linkage to chromosome 4 markers (D4S35, KIT) and somatic cell hybrid analysis. Co-dominant segregation was shown in 32 and 16 CEPH families for EcoRI and KpnI respectively.

O-GlcNAc inhibits interaction between Sp1 and Elf-1 transcription factors

International Nuclear Information System (INIS)

Lim, Kihong; Chang, Hyo-Ihl

2009-01-01

The novel protein modification, O-linked N-acetylglucosamine (O-GlcNAc), plays an important role in various aspects of cell regulation. Although most of nuclear transcription regulatory factors are modified by O-GlcNAc, O-GlcNAc effects on transcription remain largely undefined yet. In this study, we show that O-GlcNAc inhibits a physical interaction between Sp1 and Elf-1 transcription factors, and negatively regulates transcription of placenta and embryonic expression oncofetal protein gene (Pem). These findings suggest that O-GlcNAc inhibits Sp1-mediated gene transcription possibly by interrupting Sp1 interaction with its cooperative factor.

Processing LiDAR Data to Predict Natural Hazards

Science.gov (United States)

Fairweather, Ian; Crabtree, Robert; Hager, Stacey

2008-01-01

ELF-Base and ELF-Hazards (wherein 'ELF' signifies 'Extract LiDAR Features' and 'LiDAR' signifies 'light detection and ranging') are developmental software modules for processing remote-sensing LiDAR data to identify past natural hazards (principally, landslides) and predict future ones. ELF-Base processes raw LiDAR data, including LiDAR intensity data that are often ignored in other software, to create digital terrain models (DTMs) and digital feature models (DFMs) with sub-meter accuracy. ELF-Hazards fuses raw LiDAR data, data from multispectral and hyperspectral optical images, and DTMs and DFMs generated by ELF-Base to generate hazard risk maps. Advanced algorithms in these software modules include line-enhancement and edge-detection algorithms, surface-characterization algorithms, and algorithms that implement innovative data-fusion techniques. The line-extraction and edge-detection algorithms enable users to locate such features as faults and landslide headwall scarps. Also implemented in this software are improved methodologies for identification and mapping of past landslide events by use of (1) accurate, ELF-derived surface characterizations and (2) three LiDAR/optical-data-fusion techniques: post-classification data fusion, maximum-likelihood estimation modeling, and hierarchical within-class discrimination. This software is expected to enable faster, more accurate forecasting of natural hazards than has previously been possible.

Indoor transformer stations and ELF magnetic field exposure: use of transformer structural characteristics to improve exposure assessment.

Science.gov (United States)

Okokon, Enembe Oku; Roivainen, Päivi; Kheifets, Leeka; Mezei, Gabor; Juutilainen, Jukka

2014-01-01

Previous studies have shown that populations of multiapartment buildings with indoor transformer stations may serve as a basis for improved epidemiological studies on the relationship between childhood leukaemia and extremely-low-frequency (ELF) magnetic fields (MFs). This study investigated whether classification based on structural characteristics of the transformer stations would improve ELF MF exposure assessment. The data included MF measurements in apartments directly above transformer stations ("exposed" apartments) in 30 buildings in Finland, and reference apartments in the same buildings. Transformer structural characteristics (type and location of low-voltage conductors) were used to classify exposed apartments into high-exposure (HE) and intermediate-exposure (IE) categories. An exposure gradient was observed: both the time-average MF and time above a threshold (0.4 μT) were highest in the HE apartments and lowest in the reference apartments, showing a statistically significant trend. The differences between HE and IE apartments, however, were not statistically significant. A simulation exercise showed that the three-category classification did not perform better than a two-category classification (exposed and reference apartments) in detecting the existence of an increased risk. However, data on the structural characteristics of transformers is potentially useful for evaluating exposure-response relationship.

Theoretical analysis of the binding of iron(III) protoporphyrin IX to 4-methoxyacetophenone thiosemicarbazone via DFT-D3, MEP, QTAIM, NCI, ELF, and LOL studies.

Science.gov (United States)

Nkungli, Nyiang Kennet; Ghogomu, Julius Numbonui

2017-07-01

Thiosemicarbazones display diverse pharmacological properties, including antimalarial activities. Their pharmacological activities have been studied in depth, but little of this research has focused on their antimalarial mode of action. To elucidate this antimalarial mechanism, we investigated the nature of the interactions between iron(III) protoporphyrin IX (Fe(III)PPIX) and the thione-thiol tautomers of 4-methoxyacetophenone thiosemicarbazone (MAPTSC). Dispersion-corrected density functional theory (DFT-D3), the quantum theory of atoms in molecules (QTAIM), the noncovalent interaction (NCI) index, the electron localization function (ELF), the localized orbital locator (LOL), and thermodynamic calculations were employed in this work. Fe(III)PPIX-MAPTSC binding is expected to inhibit hemozoin formation, thereby preventing Fe(III)PPIX detoxification in plasmodia. Preliminary studies geared toward the identification of atomic binding sites in the thione-thiol tautomers of MAPTSC were carried out using molecular electrostatic potential (MEP) maps and conceptual DFT-based local reactivity indices. The thionic sulfur and the 2 N-azomethine nitrogen/thiol sulfur of, respectively, the thione and thiol tautomers of MAPTSC were identified as the most favorable nucleophilic sites for electrophilic attack. The negative values of the computed Fe(III)PPIX-MAPTSC binding energies, enthalpies, and Gibbs free energies are indicative of the existence and stability of Fe(III)PPIX-MAPTSC complexes. MAPTSC-Fe(III) coordinate bonds and strong hydrogen bonds (N-H···O) between the NH 2 group in MAPTSC and the C=O group in one propionate side chain of Fe(III)PPIX are crucial to Fe(III)PPIX-MAPTSC binding. QTAIM, NCI, ELF, and LOL analyses revealed a subtle interplay of weak noncovalent interactions dominated by dispersive-like van der Waals interactions between Fe(III)PPIX and MAPTSC that stabilize the Fe(III)PPIX-MAPTSC complexes.

FTH1P3, a Novel H-Ferritin Pseudogene Transcriptionally Active, Is Ubiquitously Expressed and Regulated during Cell Differentiation.

Directory of Open Access Journals (Sweden)

Maddalena Di Sanzo

Full Text Available Ferritin, the major iron storage protein, performs its essential functions in the cytoplasm, nucleus and mitochondria. The variable assembly of 24 subunits of the Heavy (H and Light (L type composes the cytoplasmic molecule. In humans, two distinct genes code these subunits, both belonging to complex multigene families. Until now, one H gene has been identified with the coding sequence interrupted by three introns and more than 20 intronless copies widely dispersed on different chromosomes. Two of the intronless genes are actively transcribed in a tissue-specific manner. Herein, we report that FTH1P3, another intronless pseudogene, is transcribed. FTH1P3 transcript was detected in several cell lines and tissues, suggesting that its transcription is ubiquitary, as it happens for the parental ferritin H gene. Moreover, FTH1P3 expression is positively regulated during the cell differentiation process.

Similar Data Retrieval from Enormous Datasets on ELF/VLF Wave Spectrum Observed by Akebono

Directory of Open Access Journals (Sweden)

Y Kasahara

2010-02-01

Full Text Available As the total amount of data measured by scientific spacecraft is drastically increasing, it is necessary for researchers to develop new computation methods for efficient analysis of these enormous datasets. In the present study, we propose a new algorithm for similar data retrieval. We first discuss key descriptors that represent characteristics of the VLF/ELF waves observed by the Akebono spacecraft. Second, an algorithm for similar data retrieval is introduced. Finally, we demonstrate that the developed algorithm works well for the retrieval of the VLF spectrum with a small amount of CPU load.

Efficient Detection of Copy Number Mutations in PMS2 Exons with a Close Homolog.

Science.gov (United States)

Herman, Daniel S; Smith, Christina; Liu, Chang; Vaughn, Cecily P; Palaniappan, Selvi; Pritchard, Colin C; Shirts, Brian H

2018-07-01

Detection of 3' PMS2 copy-number mutations that cause Lynch syndrome is difficult because of highly homologous pseudogenes. To improve the accuracy and efficiency of clinical screening for these mutations, we developed a new method to analyze standard capture-based, next-generation sequencing data to identify deletions and duplications in PMS2 exons 9 to 15. The approach captures sequences using PMS2 targets, maps sequences randomly among regions with equal mapping quality, counts reads aligned to homologous exons and introns, and flags read count ratios outside of empirically derived reference ranges. The method was trained on 1352 samples, including 8 known positives, and tested on 719 samples, including 17 known positives. Clinical implementation of the first version of this method detected new mutations in the training (N = 7) and test (N = 2) sets that had not been identified by our initial clinical testing pipeline. The described final method showed complete sensitivity in both sample sets and false-positive rates of 5% (training) and 7% (test), dramatically decreasing the number of cases needing additional mutation evaluation. This approach leveraged the differences between gene and pseudogene to distinguish between PMS2 and PMS2CL copy-number mutations. These methods enable efficient and sensitive Lynch syndrome screening for 3' PMS2 copy-number mutations and may be applied similarly to other genomic regions with highly homologous pseudogenes. Copyright © 2018 American Society for Investigative Pathology and the Association for Molecular Pathology. Published by Elsevier Inc. All rights reserved.

Mapping of the Pim-1 oncogene in mouse t-haplotypes and its use to define the relative map positions of the tcl loci t0(t6) and tw12 and the marker tf (tufted).

Science.gov (United States)

Ark, B; Gummere, G; Bennett, D; Artzt, K

1991-06-01

Pim-1 is an oncogene activated in mouse T-cell lymphomas induced by Moloney and AKR mink cell focus (MCF) viruses. Pim-1 was previously mapped to chromosome 17 by somatic cell hybrids, and subsequently to the region between the hemoglobin alpha-chain pseudogene 4 (Hba-4ps) and the alpha-crystalline gene (Crya-1) by Southern blot analysis of DNA obtained from panels of recombinant inbred strains. We have now mapped Pim-1 more accurately in t-haplotypes by analysis of recombinant t-chromosomes. The recombinants were derived from Tts6tf/t12 parents backcrossed to + tf/ + tf, and scored for recombination between the loci of T and tf. For simplicity all t-complex lethal genes properly named tcl-tx are shortened to tx. The Pim-1 gene was localized 0.6 cM proximal to the tw12 lethal gene, thus placing the Pim-1 gene 5.2 cM distal to the H-2 region in t-haplotypes. Once mapped, the Pim-1 gene was used as a marker for further genetic analysis of t-haplotypes. tw12 is so close to tf that even with a large number of recombinants it was not possible to determine whether it is proximal or distal to tf. Southern blot analysis of DNA from T-tf recombinants with a separation of tw12 and tf indicated that tw12 is proximal to tf. The mapping of two allelic t-lethals, t0 and t6 with respect to tw12 and tf has also been a problem.(ABSTRACT TRUNCATED AT 250 WORDS)

Higher Order Analysis of Turbulent Changes Found in the ELF Range Electric Field Plasma Before Major Earthquakes

Science.gov (United States)

Kosciesza, M.; Blecki, J. S.; Parrot, M.

2014-12-01

We report the structure function analysis of changes found in electric field in the ELF range plasma turbulence registered in the ionosphere over epicenter region of major earthquakes with depth less than 40 km that took place during 6.5 years of the scientific mission of the DEMETER satellite. We compare the data for the earthquakes for which we found turbulence with events without any turbulent changes. The structure functions were calculated also for the Polar CUSP region and equatorial spread F region. Basic studies of the turbulent processes were conducted with use of higher order spectra and higher order statistics. The structure function analysis was performed to locate and check if there are intermittent behaviors in the ionospheres plasma over epicenter region of the earthquakes. These registrations are correlated with the plasma parameters measured onboard DEMETER satellite and with geomagnetic indices.

A 2.5D Map-Based Mobile Robot Localization via Cooperation of Aerial and Ground Robots.

Science.gov (United States)

Nam, Tae Hyeon; Shim, Jae Hong; Cho, Young Im

2017-11-25

Recently, there has been increasing interest in studying the task coordination of aerial and ground robots. When a robot begins navigation in an unknown area, it has no information about the surrounding environment. Accordingly, for robots to perform tasks based on location information, they need a simultaneous localization and mapping (SLAM) process that uses sensor information to draw a map of the environment, while simultaneously estimating the current location of the robot on the map. This paper aims to present a localization method based in cooperation between aerial and ground robots in an indoor environment. The proposed method allows a ground robot to reach accurate destination by using a 2.5D elevation map built by a low-cost RGB-D (Red Green and Blue-Depth) sensor and 2D Laser sensor attached onto an aerial robot. A 2.5D elevation map is formed by projecting height information of an obstacle using depth information obtained by the RGB-D sensor onto a grid map, which is generated by using the 2D Laser sensor and scan matching. Experimental results demonstrate the effectiveness of the proposed method for its accuracy in location recognition and computing speed.

A 2.5D Map-Based Mobile Robot Localization via Cooperation of Aerial and Ground Robots

Directory of Open Access Journals (Sweden)

Tae Hyeon Nam

2017-11-01

Full Text Available Recently, there has been increasing interest in studying the task coordination of aerial and ground robots. When a robot begins navigation in an unknown area, it has no information about the surrounding environment. Accordingly, for robots to perform tasks based on location information, they need a simultaneous localization and mapping (SLAM process that uses sensor information to draw a map of the environment, while simultaneously estimating the current location of the robot on the map. This paper aims to present a localization method based in cooperation between aerial and ground robots in an indoor environment. The proposed method allows a ground robot to reach accurate destination by using a 2.5D elevation map built by a low-cost RGB-D (Red Green and Blue-Depth sensor and 2D Laser sensor attached onto an aerial robot. A 2.5D elevation map is formed by projecting height information of an obstacle using depth information obtained by the RGB-D sensor onto a grid map, which is generated by using the 2D Laser sensor and scan matching. Experimental results demonstrate the effectiveness of the proposed method for its accuracy in location recognition and computing speed.

ELF/VLF signatures of sprite-producing lightning discharges observed during the 2005 EuroSprite campaign

DEFF Research Database (Denmark)

Greenberg, E.; Price, C.; Yair, Y.

2009-01-01

) discharges had peak current intensities between +8 and +130 kA whereas their charge moment changes (CMC) ranged from 500 to 3500 C km. Furthermore, the peak current reported by the Météorage lightning network are well correlated with the amplitudes of the VLF bursts, while showing poor correlation......%) an ELF transient was not associated with sprite occurrence, suggesting that long continuing current of tens of ms may not always be a necessary condition for sprite production, a finding which influences the estimation of the global sprite rate based on Schumann resonance (SR) measurements....

Cowichan Valley energy mapping and modelling. Report 5 - Energy density mapping projections. Final report. [Vancouver Island, Canada

Energy Technology Data Exchange (ETDEWEB)

NONE

2012-06-15

The driving force behind the Integrated Energy Mapping and Analysis project was the identification and analysis of a suite of pathways that the Cowichan Valley Regional District (CVRD) can utilise to increase its energy resilience, as well as reduce energy consumption and GHG emissions, with a primary focus on the residential sector. Mapping and analysis undertaken will support provincial energy and GHG reduction targets, and the suite of pathways outlined will address a CVRD internal target that calls for 75% of the region's energy within the residential sector to come from locally sourced renewables by 2050. The target has been developed as a mechanism to meet resilience and climate action target. The maps and findings produced are to be integrated as part of a regional policy framework currently under development. Task 5 focused on energy projection mapping to estimate and visualise the energy consumption density and GHG emissions under different scenarios. The scenarios from task 4 were built around the energy consumption density of the residential sector under future land use patterns and rely on different energy source combinations (the suite of pathways). In task 5 the energy usage under the different scenarios were fed back into GIS, thereby giving a visual representation of forecasted residential energy consumption per unit area. The methodology is identical to that used in task 2 where current usage was mapped, whereas the mapping in this task is for future forecasts. These results are documented in this report. In addition, GHG mapping under the various scenarios was also undertaken. (LN)

ELF - An experimental programme to quantify the effects of load follow and perturbated power histories

International Nuclear Information System (INIS)

Bairiot, H.; Hass, D.; Stora, J.P.

1984-01-01

Most of the ramp tests performed in national or international programmes have as main objective to define the fuel rod failure/survival limits, as a function of various parameters. Only a few of these experiments are sufficiently instrumented. The main feature of the ELF programme, described in this paper, consists in continuously measuring the cladding diameter during irradiation in OSIRIS of pre-irradiated PWR fuel rods, in order to provide strain relaxation data under various operating conditions. Power fluctuations during these OSIRIS irradiations are defined in order to obtain the conditioning and deconditioning kinetics of the fuel rods. (author)

High resolution mapping of urban areas using SPOT-5 images and ancillary data

Directory of Open Access Journals (Sweden)

Elif Sertel

2015-08-01

Full Text Available This research aims to propose new rule sets to be used for object based classification of SPOT-5 images to accurately create detailed urban land cover/use maps. In addition to SPOT-5 satellite images, Normalized Difference Vegetation Index (NDVI and Normalized Difference Water Index (NDWI maps, cadastral maps, Openstreet maps, road maps and Land Cover maps, were also integrated into classification to increase the accuracy of resulting maps. Gaziantep city, one of the highly populated cities of Turkey with different landscape patterns was selected as the study area. Different rule sets involving spectral, spatial and geometric characteristics were developed to be used for object based classification of 2.5 m resolution Spot-5 satellite images to automatically create urban map of the region. Twenty different land cover/use classes obtained from European Urban Atlas project were applied and an automatic classification approach was suggested for high resolution urban map creation and updating. Integration of different types of data into the classification decision tree increased the performance and accuracy of the suggested approach. The accuracy assessment results illustrated that with the usage of newly proposed rule set algorithms in object-based classification, urban areas represented with seventeen different sub-classes could be mapped with 94 % or higher overall accuracy.

Synchronization control of Hodgkin-Huxley neurons exposed to ELF electric field

International Nuclear Information System (INIS)

Che Yanqiu; Wang Jiang; Zhou Sisi; Deng Bin

2009-01-01

This paper presents an adaptive neural network H ∞ control for unidirectional synchronization of modified Hodgkin-Huxley (HH) neurons exposed to extremely low frequency (ELF) electric field. The proposed modified HH neurons exhibit periodic and chaotic dynamics in response to sinusoidal electric field stimulation. Based on the Lyapunov stability theory, we derive the updated laws of neural network for approximating the nonlinear uncertain functions of the error dynamical system. The H ∞ design technique makes the controller robust to unmodeled dynamics, disturbances and approximate errors. The proposed controller not only ensures closed-loop stability, but also guarantees an H ∞ performance for the synchronization error system. The states of the controlled slave system exponentially synchronize with that of the master one after control. The simulation results demonstrate the validity of the proposed method.

Measurement of electromagnetic waves in ELF and VLF bands to monitor lightning activity in the Maritime Continent

Science.gov (United States)

Yamashita, Kozo; Takahashi, Yukihiro; Ohya, Hiroyo; Tsuchiya, Fuminori; Sato, Mitsuteru; Matsumoto, Jun

2013-04-01

Data of lightning discharge has been focused on as an effective way for monitoring and nowcasting of thunderstorm activity which causes extreme weather. Spatial distribution of lightning discharge has been used as a proxy of the presence or absence of deep convection. Latest observation shows that there is extremely huge lightning whose scale is more than hundreds times bigger than that of averaged event. This result indicates that lightning observation should be carried out to estimate not only existence but also scale for quantitative evaluation of atmospheric convection. In this study, lightning observation network in the Maritime Continent is introduced. This network is consisted of the sensors which make possible to measure electromagnetic wave radiated from lightning discharges. Observation frequency is 0.1 - 40 kHz for the measurement of magnetic field and 1 - 40 kHz for that of electric field. Sampling frequency is 100 kHz. Waveform of electromagnetic wave is recorded by personal computer. We have already constructed observation stations at Tainan in Taiwan (23.1N, 121.1E), Saraburi in Thailand (14.5N, 101.0E), and Pontianak in Indonesia (0.0N, 109.4E). Furthermore, we plan to install the monitoring system at Los Banos in Philippines (14.18, 121.25E) and Hanoi in Viet Nam. Data obtained by multipoint observation is synchronized by GPS receiver installed at each station. By using data obtained by this network, location and scale of lightning discharge can be estimated. Location of lightning is determined based on time of arrival method. Accuracy of geolocation could be less than 10km. Furthermore, charge moment is evaluated as a scale of each lightning discharge. It is calculated from electromagnetic waveform in ELF range (3-30 kHz). At the presentation, we will show the initial result about geolocation for source of electromagnetic wave and derivation of charge moment value based on the measurement of ELF and VLF sferics.

Measurement procedure to assess exposure to extremely low-frequency fields: A primary school case study

International Nuclear Information System (INIS)

Alonso, A.; Bahillo, A.; De la Rosa, R.; Carrera, A.; Duran, R. J.; Fernandez, P.

2012-01-01

How to correctly measure the exposure of general public to extremely low-frequency (ELF) radiation is a key issue for ELF epidemiological studies. This paper proposes a measurement procedure to accurately assess the exposure of people to electric and magnetic field in the frequency band from 5 Hz to 100 kHz in buildings and their premises. As ELF radiation could be particularly harmful to children, the measurement procedure is focused on exposure to ELF in schools. Thus, the students' exposure to ELF fields can be assessed by correlating the ELF measurements to the hours of school activity. In this paper, the measurement protocol was applied to study the ELF exposure on students from Garcia Quintana primary school in Valladolid, Spain. The campaign of measurements for ELF exposure assessment in this primary school was of great interest for the Regional Council of Public Health because of the social alarm generated by the presence of a significant number cancer cases in children. (authors)

Atlas of the Colombian coal, Potential map and rank: Map 5-09

International Nuclear Information System (INIS)

Pulido Gonzalez, Orlando

1999-01-01

With the presentation of the Atlas of Coal to scale 1:500.000, it is sought to show to big features the location of the different areas with coal in Colombia, associating with the geologic units, the potential and the range. In the Map 5-09, the formations that include the coal are defined as Umir, Guaduas, Limbo, (Los Cuervos), San Fernando, (Carbonera), defined as Kst, Ksgt and Pgt. For the potential an arbitrary scale settled down, in the following way: in the first place bigger to 1000 million tons; between 1000 and 100; between 100 and 10 and lastly smaller to 10 million tons. These figures are represented in the map by triangles with colors that they are equal before to the figures mentioned. Keeping in mind the scale, it was opted to report the potential in the category of the hypothetical resources; when the resources or reserves are established, they are also reported. As for the range, in the map it is indicated by means of symbols that should be taken as a domain or tendency of the coal in each area in general. The the coal rank understood as the transformation that has reached along the geologic evolution is what is mentioned as anthracitic coal, semi-anthracitic, bituminous low in volatile, bituminous middle in volatile, bituminous high in volatile A, B and C, sub-bituminous and lastly the lignite. For each map are mentioned that there are determined

Mapping pathological phenotypes in a mouse model of CDKL5 disorder.

Directory of Open Access Journals (Sweden)

Elena Amendola

Full Text Available Mutations in cyclin-dependent kinase-like 5 (CDKL5 cause early-onset epileptic encephalopathy, a neurodevelopmental disorder with similarities to Rett Syndrome. Here we describe the physiological, molecular, and behavioral phenotyping of a Cdkl5 conditional knockout mouse model of CDKL5 disorder. Behavioral analysis of constitutive Cdkl5 knockout mice revealed key features of the human disorder, including limb clasping, hypoactivity, and abnormal eye tracking. Anatomical, physiological, and molecular analysis of the knockout uncovered potential pathological substrates of the disorder, including reduced dendritic arborization of cortical neurons, abnormal electroencephalograph (EEG responses to convulsant treatment, decreased visual evoked responses (VEPs, and alterations in the Akt/rpS6 signaling pathway. Selective knockout of Cdkl5 in excitatory and inhibitory forebrain neurons allowed us to map the behavioral features of the disorder to separable cell-types. These findings identify physiological and molecular deficits in specific forebrain neuron populations as possible pathological substrates in CDKL5 disorder.

Mapping pathological phenotypes in a mouse model of CDKL5 disorder.

Science.gov (United States)

Amendola, Elena; Zhan, Yang; Mattucci, Camilla; Castroflorio, Enrico; Calcagno, Eleonora; Fuchs, Claudia; Lonetti, Giuseppina; Silingardi, Davide; Vyssotski, Alexei L; Farley, Dominika; Ciani, Elisabetta; Pizzorusso, Tommaso; Giustetto, Maurizio; Gross, Cornelius T

2014-01-01

Mutations in cyclin-dependent kinase-like 5 (CDKL5) cause early-onset epileptic encephalopathy, a neurodevelopmental disorder with similarities to Rett Syndrome. Here we describe the physiological, molecular, and behavioral phenotyping of a Cdkl5 conditional knockout mouse model of CDKL5 disorder. Behavioral analysis of constitutive Cdkl5 knockout mice revealed key features of the human disorder, including limb clasping, hypoactivity, and abnormal eye tracking. Anatomical, physiological, and molecular analysis of the knockout uncovered potential pathological substrates of the disorder, including reduced dendritic arborization of cortical neurons, abnormal electroencephalograph (EEG) responses to convulsant treatment, decreased visual evoked responses (VEPs), and alterations in the Akt/rpS6 signaling pathway. Selective knockout of Cdkl5 in excitatory and inhibitory forebrain neurons allowed us to map the behavioral features of the disorder to separable cell-types. These findings identify physiological and molecular deficits in specific forebrain neuron populations as possible pathological substrates in CDKL5 disorder.

Modulation of brassinosteroid-regulated gene expression by jumonji domain-containing proteins ELF6 and REF6 in Arabidopsis

OpenAIRE

Yu, Xiaofei; Li, Li; Li, Lei; Guo, Michelle; Chory, Joanne; Yin, Yanhai

2008-01-01

Plant steroid hormones, brassinosteroids (BRs), are of great importance for plant growth and development. BRs signal through a cell surface receptor kinase, BRI1, and a GSK3-like kinase, BIN2, to regulate the BES1/BZR1 family of transcription factors, which directly bind to target gene promoters to activate or repress gene expression and mediate BR responses. To understand how BES1 regulates target gene expression, we identified two BES1-interacting proteins, ELF6 (early flowering 6) and its ...

Enfants conçus avec une aide médicale dans la cohorte Elfe

OpenAIRE

Poulalhon, Claire

2015-01-01

Objectif : étudier les conditions entourant la naissance des enfants conçus avec une aide médicale, et explorer le rôle des facteurs sociaux et médicaux dans la prématurité et l’hypotrophie.Méthodes : l'analyse porte sur 9495 enfants de la cohorte Elfe, de terme supérieur à 33 semaines d'aménorrhée, singletons ou jumeaux, répartis en trois groupes selon leur contexte de conception, "traitement", "infertiles non traités" et "fertiles" (790, 1044 et 7661 enfants). Cinq champs ont été décrits (c...

ELFE: New machine proposed for Europe

International Nuclear Information System (INIS)

Anon.

1995-01-01

Understanding the dynamics of non-perturbative QCD (the physics of quark and gluon interactions at large coupling) is one of the most challenging problems of modern physics. The two phenomena of quark confinement, which binds quarks permanently inside hadrons, and the dynamical breaking of chiral symmetry, which gives us pion physics and more massive constituent quarks of low energy QCD, define the interface of nuclear and particle physics. The Electron Laboratory for Europe project - ELFE - is the European machine initiative proposed as the optimum experimental tool to study this ''Confinement Physics'', which is virgin territory for both particle and nuclear physicists. Until recently, lack of data in the confinement domain had led to slow theoretical progress in understanding the quark structure of nuclear and hadronic matter. This situation has improved considerably, with new discoveries in high energy deep inelastic scattering experiments together with important advances in large acceptance detector technology and continuous electron beams at low energies. At high energies, the CERN muon beam experiments in deep inelastic scattering (probing the remote interior of nucleons) opened an exciting new window on nucleon structure with the discovery of three unexpected effects: the EMC (European Muon Collaboration) nuclear and spin effects, and the observation of a surprisingly large difference between the the number of anti-up and anti-down quarks in nucleons. In 1983, the EMC nuclear effect showed that the quark structure of the free nucleon is modified in the nuclear environment. The EMC spin effect (or proton spin problem) is the discovery that it looks as though quark spin contributes only 22% of that of the nucleon (July 1994, page 19)

The repertoire of trace amine G-protein-coupled receptors

DEFF Research Database (Denmark)

Gloriam, David E.; Bjarnadóttir, Thóra K; Yan, Yi-Lin

2005-01-01

eukaryotic species for receptors similar to the mammalian trace amine (TA) receptor subfamily. We identified 18 new receptors in rodents that are orthologous to the previously known TA-receptors. Remarkably, we found 57 receptors (and 40 pseudogenes) of this type in the zebrafish (Danio rerio), while fugu...... (Takifugu rubripes) had only eight receptors (and seven pseudogenes). We mapped 47 of the zebrafish TA-receptors on chromosomes using radiation hybrid panels and meiotic mapping. The results, together with the degree of conservation and phylogenetic relationships displayed among the zebrafish receptors...

A simplified theory of ELF propagation in the Earth-ionosphere transmission line

International Nuclear Information System (INIS)

Booker, H.G.

1980-01-01

An approximate theory of ELF propagation in the Earth-ionosphere transmission line is developed by combining the reflection theory of Booker and Lefeuvre with Greifinger and Greifinger's treatment of the effect of ionization below the level of reflection. The theory allows for the influence of the Earth's magnetic field, for reflection from the gradient on the under side of the D-region (or, at night, of a ledge below the E-region), for reflection from the gradient on the underside of the E-region and for reflection from the gradient on the topside of the E-region. The procedure is to compare local vertical gradient with local wavelength, thereby classifying altitude into intervals where the gradient is high and ones where it is low. Where the gradient is low, the phase-integral treatment is adequate. An interval where the gradient is high may, to a first approximation, be replaced by a discontinuity. The amount of the discontinuity is the difference between the refractive indices at the top and bottom of the interval of high gradient, judged in relation to local wavelength. It is then a matter of combining reflections from the several discontinuities. This requires calculation of the complex phase-changes between the discontinuities. But there are the intervals where the phase-integral treatment is available. To a better approximation, there is a non-zero phase change associated with an interval of high gradient. The method for incorporating this is described. (author)

Is prnt a pseudogene? Identification of ram Prt in testis and ejaculated spermatozoa.

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Jorge Pimenta

Full Text Available A hallmark of prion diseases or transmissible spongiform encephalopaties is the conversion of the cellular prion protein (PrP(C, expressed by the prion gene (prnp, into an abnormally folded isoform (PrP(Sc with amyloid-like features that causes scrapie in sheep among other diseases. prnp together with prnd (which encodes a prion-like protein designated as Doppel, and prnt (that encodes the prion protein testis specific--Prt with sprn (shadow of prion protein gene, that encodes Shadoo or Sho genes, constitute the "prion gene complex". Whereas a role for prnd in the proper functioning of male reproductive system has been confirmed, the function of prnt, a recently discovered prion family gene, comprises a conundrum leading to the assumption that ruminant prnt is a pseudogene with no protein expression. The main objective of the present study was to identify Prt localization in the ram reproductive system and simultaneously to elucidate if ovine prnt gene is transcribed into protein-coding RNA. Moreover, as Prt is a prnp-related protein, the amyloid propensity was also tested for ovine and caprine Prt. Recombinant Prt was used to immunize BALB/c mice, and the anti-Prt polyclonal antibody (APPA immune response was evaluated by ELISA and Western Blot. When tested by indirect immunofluorescence, APPA showed high avidity to the ram sperm head apical ridge subdomain, before and after induced capacitation, but did not show the same behavior against goat spermatozoa, suggesting high antibody specificity against ovine-Prt. Prt was also found in the testis when assayed by immunohistochemistry during ram spermatogenesis, where spermatogonia, spermatocytes, spermatids and spermatozoa, stained positive. These observations strongly suggest ovine prnt to be a translated protein-coding gene, pointing to a role for Prt protein in the ram reproductive physiology. Besides, caprine Prt appears to exhibit a higher amyloid propensity than ovine Prt, mostly associated

Evaluation of the effects of Extremely Low Frequency (ELF Pulsed Electromagnetic Fields (PEMF on survival of the bacterium Staphylococcus aureus

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Ahmed Istiaque

2013-12-01

In summary, the growth rate of the irradiated S. aureus bacteria is affected by radiation of particular parameters, thus revealing resonant effects induced by the applied radiation. The decreased CFU values in all irradiated samples compared to control samples (non-exposed were observed. Findings provide important insight towards selecting the optimal parameters of ELF PEMF for possible treatment of infected tissue and thus, wound healing promotion.

High-resolution copy-number variation map reflects human olfactory receptor diversity and evolution.

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Yehudit Hasin

2008-11-01

Full Text Available Olfactory receptors (ORs, which are involved in odorant recognition, form the largest mammalian protein superfamily. The genomic content of OR genes is considerably reduced in humans, as reflected by the relatively small repertoire size and the high fraction ( approximately 55% of human pseudogenes. Since several recent low-resolution surveys suggested that OR genomic loci are frequently affected by copy-number variants (CNVs, we hypothesized that CNVs may play an important role in the evolution of the human olfactory repertoire. We used high-resolution oligonucleotide tiling microarrays to detect CNVs across 851 OR gene and pseudogene loci. Examining genomic DNA from 25 individuals with ancestry from three populations, we identified 93 OR gene loci and 151 pseudogene loci affected by CNVs, generating a mosaic of OR dosages across persons. Our data suggest that approximately 50% of the CNVs involve more than one OR, with the largest CNV spanning 11 loci. In contrast to earlier reports, we observe that CNVs are more frequent among OR pseudogenes than among intact genes, presumably due to both selective constraints and CNV formation biases. Furthermore, our results show an enrichment of CNVs among ORs with a close human paralog or lacking a one-to-one ortholog in chimpanzee. Interestingly, among the latter we observed an enrichment in CNV losses over gains, a finding potentially related to the known diminution of the human OR repertoire. Quantitative PCR experiments performed for 122 sampled ORs agreed well with the microarray results and uncovered 23 additional CNVs. Importantly, these experiments allowed us to uncover nine common deletion alleles that affect 15 OR genes and five pseudogenes. Comparison to the chimpanzee reference genome revealed that all of the deletion alleles are human derived, therefore indicating a profound effect of human-specific deletions on the individual OR gene content. Furthermore, these deletion alleles may be used

Insulin signaling inhibits the 5-HT2C receptor in choroid plexus via MAP kinase

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Guan Kunliang

2003-06-01

Full Text Available Abstract Background G protein-coupled receptors (GPCRs interact with heterotrimeric GTP-binding proteins (G proteins to modulate acute changes in intracellular messenger levels and ion channel activity. In contrast, long-term changes in cellular growth, proliferation and differentiation are often mediated by tyrosine kinase receptors and certain GPCRs by activation of mitogen-activated protein (MAP kinases. Complex interactions occur between these signaling pathways, but the specific mechanisms of such regulatory events are not well-understood. In particular it is not clear whether GPCRs are modulated by tyrosine kinase receptor-MAP kinase pathways. Results Here we describe tyrosine kinase receptor regulation of a GPCR via MAP kinase. Insulin reduced the activity of the 5-HT2C receptor in choroid plexus cells which was blocked by the MAP kinase kinase (MEK inhibitor, PD 098059. We demonstrate that the inhibitory effect of insulin and insulin-like growth factor type 1 (IGF-1 on the 5-HT2C receptor is dependent on tyrosine kinase, RAS and MAP kinase. The effect may be receptor-specific: insulin had no effect on another GPCR that shares the same G protein signaling pathway as the 5-HT2C receptor. This effect is also direct: activated MAP kinase mimicked the effect of insulin, and removing a putative MAP kinase site from the 5-HT2C receptor abolished the effect of insulin. Conclusion These results show that insulin signaling can inhibit 5-HT2C receptor activity and suggest that MAP kinase may play a direct role in regulating the function of a specific GPCR.

On precursory ULF/ELF electromagnetic signatures for the Kobe earthquake on April 12, 2013

Science.gov (United States)

Schekotov, A.; Izutsu, J.; Hayakawa, M.

2015-12-01

After the 2011 Tohoku earthquake (EQ), there have been numerous aftershocks in the eastern and Pacific Ocean of Japan, but EQs are still rare in the western part of Japan. In this situation a relatively large (magnitude (M) ∼ 6) EQ happened on April 12 (UT), 2013 at a place close to the 1995 Kobe EQ (M ∼ 7), so we have tried to find whether there existed any electromagnetic precursors to this EQ. Two precursory signatures are detected: one is the depression of ULF (ultra-low-frequency, 0.01-0.02 Hz) geomagnetic variations on April 9, and the second is wideband ELF (extremely low frequency) electromagnetic radiation on April 11. These results for the 2013 Kobe EQ are compared with the corresponding results for the former 1995 Kobe EQ.

Pseudogenization of the MCP-2/CCL8 chemokine gene in European rabbit (genus Oryctolagus, but not in species of Cottontail rabbit (Sylvilagus and Hare (Lepus

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van der Loo Wessel

2012-08-01

Full Text Available Abstract Background Recent studies in human have highlighted the importance of the monocyte chemotactic proteins (MCP in leukocyte trafficking and their effects in inflammatory processes, tumor progression, and HIV-1 infection. In European rabbit (Oryctolagus cuniculus one of the prime MCP targets, the chemokine receptor CCR5 underwent a unique structural alteration. Until now, no homologue of MCP-2/CCL8a, MCP-3/CCL7 or MCP-4/CCL13 genes have been reported for this species. This is interesting, because at least the first two genes are expressed in most, if not all, mammals studied, and appear to be implicated in a variety of important chemokine ligand-receptor interactions. By assessing the Rabbit Whole Genome Sequence (WGS data we have searched for orthologs of the mammalian genes of the MCP-Eotaxin cluster. Results We have localized the orthologs of these chemokine genes in the genome of European rabbit and compared them to those of leporid genera which do (i.e. Oryctolagus and Bunolagus or do not share the CCR5 alteration with European rabbit (i.e. Lepus and Sylvilagus. Of the Rabbit orthologs of the CCL8, CCL7, and CCL13 genes only the last two were potentially functional, although showing some structural anomalies at the protein level. The ortholog of MCP-2/CCL8 appeared to be pseudogenized by deleterious nucleotide substitutions affecting exon1 and exon2. By analyzing both genomic and cDNA products, these studies were extended to wild specimens of four genera of the Leporidae family: Oryctolagus, Bunolagus, Lepus, and Sylvilagus. It appeared that the anomalies of the MCP-3/CCL7 and MCP-4/CCL13 proteins are shared among the different species of leporids. In contrast, whereas MCP-2/CCL8 was pseudogenized in every studied specimen of the Oryctolagus - Bunolagus lineage, this gene was intact in species of the Lepus - Sylvilagus lineage, and was, at least in Lepus, correctly transcribed. Conclusion The biological function of a gene was often

Structural and functional organization of the HF.10 human zinc finger gene (ZNF35) located on chromosome 3p21-p22

DEFF Research Database (Denmark)

Lanfrancone, L; Pengue, G; Pandolfi, P P

1992-01-01

We report the structural and functional characterization of the HF.10 zinc finger gene (ZNF35) in normal human cells, as well as a processed pseudogene. The HF.10 gene spans about 13 kb and it is interrupted by three introns. All 11 zinc finger DNA-binding domains are contiguously encoded within...... and partial nucleotide sequencing of the HF.10 pseudogene indicated that it has arisen by retroposition of spliced HF.10 mRNA. In situ hybridization experiments revealed that both the functional locus and the pseudogene map to chromosome 3p21p22, a region that is frequently deleted in small cell lung...... and renal carcinomas. Hybridization of the HF.10 gene and the HF.10 pseudogene DNA probes to metaphases from a small cell lung carcinoma cell line with the 3p deletion revealed that both loci are part of the deleted chromosome region....

Lidar-revised geologic map of the Poverty Bay 7.5' quadrangle, King and Pierce Counties, Washington

Science.gov (United States)

Tabor, Rowland W.; Booth, Derek B.; Troost, Kathy Goetz

2014-01-01

For this map, we interpreted a 6-ft-resolution lidar digital elevation model combined with the geology depicted on the Geologic Map of the Poverty Bay 7.5' Quadrangle, King and Pierce Counties, Washington (Booth and others, 2004b). The authors of the 2004 map described, interpreted, and located the geology on the 1:24,000-scale topographic map of the Poverty Bay 7.5' quadrangle.

Pseudogene PHBP1 promotes esophageal squamous cell carcinoma proliferation by increasing its cognate gene PHB expression.

Science.gov (United States)

Feng, Feiyue; Qiu, Bin; Zang, Ruochuan; Song, Peng; Gao, Shugeng

2017-04-25

Natural antisense transcripts (NATs) as one of the most diverse classes of long noncoding RNAs (lncRNAs), have been demonstrated involved in fundamental biological processes in human. Here, we reported that human prohibitin gene pseudogene 1 (PHBP1) was upregulated in ESCC, and increased PHBP1 expression in ESCC was associated with clinical advanced stage. Functional experiments showed that PHBP1 knockdown inhibited ESCC cells proliferation, colony formation and xenograft tumor growth in vitro and in vivo by causing cell-cycle arrest at the G1-G0 phase. Mechanisms analysis revealed that PHBP1 transcript as an antisense transcript of PHB is partially complementary to PHB mRNA and formed an RNA-RNA hybrid with PHB, consequently inducing an increase of PHB expression at both the mRNA and protein levels. Furthermore, PHBP1 expression is strongly correlated with PHB expression in ESCC tissues. Collectively, this study elucidates an important role of PHBP1 in promoting ESCC partly via increasing PHB expression.

Independent inactivation of arginine decarboxylase genes by nonsense and missense mutations led to pseudogene formation in Chlamydia trachomatis serovar L2 and D strains

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Graham David E

2009-07-01

Full Text Available Abstract Background Chlamydia have reduced genomes that reflect their obligately parasitic lifestyle. Despite their different tissue tropisms, chlamydial strains share a large number of common genes and have few recognized pseudogenes, indicating genomic stability. All of the Chlamydiaceae have homologs of the aaxABC gene cluster that encodes a functional arginine:agmatine exchange system in Chlamydia (Chlamydophilapneumoniae. However, Chlamydia trachomatis serovar L2 strains have a nonsense mutation in their aaxB genes, and C. trachomatis serovar A and B strains have frameshift mutations in their aaxC homologs, suggesting that relaxed selection may have enabled the evolution of aax pseudogenes. Biochemical experiments were performed to determine whether the aaxABC genes from C. trachomatis strains were transcribed, and mutagenesis was used to identify nucleotide substitutions that prevent protein maturation and activity. Molecular evolution techniques were applied to determine the relaxation of selection and the scope of aax gene inactivation in the Chlamydiales. Results The aaxABC genes were co-transcribed in C. trachomatis L2/434, during the mid-late stage of cellular infection. However, a stop codon in the aaxB gene from this strain prevented the heterologous production of an active pyruvoyl-dependent arginine decarboxylase. Replacing that ochre codon with its ancestral tryptophan codon rescued the activity of this self-cleaving enzyme. The aaxB gene from C. trachomatis D/UW-3 was heterologously expressed as a proenzyme that failed to cleave and form the catalytic pyruvoyl cofactor. This inactive protein could be rescued by replacing the arginine-115 codon with an ancestral glycine codon. The aaxC gene from the D/UW-3 strain encoded an active arginine:agmatine antiporter protein, while the L2/434 homolog was unexpectedly inactive. Yet the frequencies of nonsynonymous versus synonymous nucleotide substitutions show no signs of relaxed

Features of the organization of bread wheat chromosome 5BS based on physical mapping.

Science.gov (United States)

Salina, Elena A; Nesterov, Mikhail A; Frenkel, Zeev; Kiseleva, Antonina A; Timonova, Ekaterina M; Magni, Federica; Vrána, Jan; Šafář, Jan; Šimková, Hana; Doležel, Jaroslav; Korol, Abraham; Sergeeva, Ekaterina M

2018-02-09

The IWGSC strategy for construction of the reference sequence of the bread wheat genome is based on first obtaining physical maps of the individual chromosomes. Our aim is to develop and use the physical map for analysis of the organization of the short arm of wheat chromosome 5B (5BS) which bears a number of agronomically important genes, including genes conferring resistance to fungal diseases. A physical map of the 5BS arm (290 Mbp) was constructed using restriction fingerprinting and LTC software for contig assembly of 43,776 BAC clones. The resulting physical map covered ~ 99% of the 5BS chromosome arm (111 scaffolds, N50 = 3.078 Mb). SSR, ISBP and zipper markers were employed for anchoring the BAC clones, and from these 722 novel markers were developed based on previously obtained data from partial sequencing of 5BS. The markers were mapped using a set of Chinese Spring (CS) deletion lines, and F2 and RICL populations from a cross of CS and CS-5B dicoccoides. Three approaches have been used for anchoring BAC contigs on the 5BS chromosome, including clone-by-clone screening of BACs, GenomeZipper analysis, and comparison of BAC-fingerprints with in silico fingerprinting of 5B pseudomolecules of T. dicoccoides. These approaches allowed us to reach a high level of BAC contig anchoring: 96% of 5BS BAC contigs were located on 5BS. An interesting pattern was revealed in the distribution of contigs along the chromosome. Short contigs (200-999 kb) containing markers for the regions interrupted by tandem repeats, were mainly localized to the 5BS subtelomeric block; whereas the distribution of larger 1000-3500 kb contigs along the chromosome better correlated with the distribution of the regions syntenic to rice, Brachypodium, and sorghum, as detected by the Zipper approach. The high fingerprinting quality, LTC software and large number of BAC clones selected by the informative markers in screening of the 43,776 clones allowed us to significantly increase the

Lidar-revised geologic map of the Des Moines 7.5' quadrangle, King County, Washington

Science.gov (United States)

Tabor, Rowland W.; Booth, Derek B.

2017-11-06

This map is an interpretation of a modern lidar digital elevation model combined with the geology depicted on the Geologic Map of the Des Moines 7.5' Quadrangle, King County, Washington (Booth and Waldron, 2004). Booth and Waldron described, interpreted, and located the geology on the 1:24,000-scale topographic map of the Des Moines 7.5' quadrangle. The base map that they used was originally compiled in 1943 and revised using 1990 aerial photographs; it has 25-ft contours, nominal horizontal resolution of about 40 ft (12 m), and nominal mean vertical accuracy of about 10 ft (3 m). Similar to many geologic maps, much of the geology in the Booth and Waldron (2004) map was interpreted from landforms portrayed on the topographic map. In 2001, the Puget Sound Lidar Consortium obtained a lidar-derived digital elevation model (DEM) for much of the Puget Sound area, including the entire Des Moines 7.5' quadrangle. This new DEM has a horizontal resolution of about 6 ft (2 m) and a mean vertical accuracy of about 1 ft (0.3 m). The greater resolution and accuracy of the lidar DEM compared to topography constructed from air-photo stereo models have much improved the interpretation of geology, even in this heavily developed area, especially the distribution and relative age of some surficial deposits. For a brief description of the light detection and ranging (lidar) remote sensing method and this data acquisition program, see Haugerud and others (2003). 

Preliminary geologic map of the Fontana 7.5' quadrangle, Riverside and San Bernardino Counties, California

Science.gov (United States)

Morton, Douglas M.; Digital preparation by Bovard, Kelly R.

2003-01-01

Open-File Report 03-418 is a digital geologic data set that maps and describes the geology of the Fontana 7.5’ quadrangle, Riverside and San Bernardino Counties, California. The Fontana quadrangle database is one of several 7.5’ quadrangle databases that are being produced by the Southern California Areal Mapping Project (SCAMP). These maps and databases are, in turn, part of the nation-wide digital geologic map coverage being developed by the National Cooperative Geologic Map Program of the U.S. Geological Survey (USGS). General Open-File Report 03-418 contains a digital geologic map database of the Fontana 7.5’ quadrangle, Riverside and San Bernardino Counties, California that includes: 1. ARC/INFO (Environmental Systems Research Institute, http://www.esri.com) version 7.2.1 coverages of the various elements of the geologic map. 2. A Postscript file (fon_map.ps) to plot the geologic map on a topographic base, and containing a Correlation of Map Units diagram (CMU), a Description of Map Units (DMU), and an index map. 3. An Encapsulated PostScript (EPS) file (fon_grey.eps) created in Adobe Illustrator 10.0 to plot the geologic map on a grey topographic base, and containing a Correlation of Map Units (CMU), a Description of Map Units (DMU), and an index map. 4. Portable Document Format (.pdf) files of: a. the Readme file; includes in Appendix I, data contained in fon_met.txt b. The same graphics as plotted in 2 and 3 above.Test plots have not produced precise 1:24,000-scale map sheets. Adobe Acrobat page size setting influences map scale. The Correlation of Map Units and Description of Map Units is in the editorial format of USGS Geologic Investigations Series (I-series) maps but has not been edited to comply with I-map standards. Within the geologic map data package, map units are identified by standard geologic map criteria such as formation-name, age, and lithology. Where known, grain size is indicated on the map by a subscripted letter or letters following

Do country-specific preference weights matter in the choice of mapping algorithms? The case of mapping the Diabetes-39 onto eight country-specific EQ-5D-5L value sets.

Science.gov (United States)

Lamu, Admassu N; Chen, Gang; Gamst-Klaussen, Thor; Olsen, Jan Abel

2018-03-22

To develop mapping algorithms that transform Diabetes-39 (D-39) scores onto EQ-5D-5L utility values for each of eight recently published country-specific EQ-5D-5L value sets, and to compare mapping functions across the EQ-5D-5L value sets. Data include 924 individuals with self-reported diabetes from six countries. The D-39 dimensions, age and gender were used as potential predictors for EQ-5D-5L utilities, which were scored using value sets from eight countries (England, Netherland, Spain, Canada, Uruguay, China, Japan and Korea). Ordinary least squares, generalised linear model, beta binomial regression, fractional regression, MM estimation and censored least absolute deviation were used to estimate the mapping algorithms. The optimal algorithm for each country-specific value set was primarily selected based on normalised root mean square error (NRMSE), normalised mean absolute error (NMAE) and adjusted-r 2 . Cross-validation with fivefold approach was conducted to test the generalizability of each model. The fractional regression model with loglog as a link function consistently performed best in all country-specific value sets. For instance, the NRMSE (0.1282) and NMAE (0.0914) were the lowest, while adjusted-r 2 was the highest (52.5%) when the English value set was considered. Among D-39 dimensions, the energy and mobility was the only one that was consistently significant for all models. The D-39 can be mapped onto the EQ-5D-5L utilities with good predictive accuracy. The fractional regression model, which is appropriate for handling bounded outcomes, outperformed other candidate methods in all country-specific value sets. However, the regression coefficients differed reflecting preference heterogeneity across countries.

FISH-mapping of the 5S rDNA locus in chili peppers (Capsicum-Solanaceae).

Science.gov (United States)

Aguilera, Patricia M; Debat, Humberto J; Scaldaferro, Marisel A; Martí, Dardo A; Grabiele, Mauro

2016-03-01

We present here the physical mapping of the 5S rDNA locus in six wild and five cultivated taxa of Capsicum by means of a genus-specific FISH probe. In all taxa, a single 5S locus per haploid genome that persistently mapped onto the short arm of a unique metacentric chromosome pair at intercalar position, was found. 5S FISH signals of almost the same size and brightness intensity were observed in all the analyzed taxa. This is the first cytological characterization of the 5S in wild taxa of Capsicum by using a genus-derived probe, and the most exhaustive and comprehensive in the chili peppers up to now. The information provided here will aid the cytomolecular characterization of pepper germplasm to evaluate variability and can be instrumental to integrate physical, genetic and genomic maps already generated in the genus.

Pseudogenization of a sweet-receptor gene accounts for cats' indifference toward sugar.

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Xia Li

2005-07-01

Full Text Available Although domestic cats (Felis silvestris catus possess an otherwise functional sense of taste, they, unlike most mammals, do not prefer and may be unable to detect the sweetness of sugars. One possible explanation for this behavior is that cats lack the sensory system to taste sugars and therefore are indifferent to them. Drawing on work in mice, demonstrating that alleles of sweet-receptor genes predict low sugar intake, we examined the possibility that genes involved in the initial transduction of sweet perception might account for the indifference to sweet-tasting foods by cats. We characterized the sweet-receptor genes of domestic cats as well as those of other members of the Felidae family of obligate carnivores, tiger and cheetah. Because the mammalian sweet-taste receptor is formed by the dimerization of two proteins (T1R2 and T1R3; gene symbols Tas1r2 and Tas1r3, we identified and sequenced both genes in the cat by screening a feline genomic BAC library and by performing PCR with degenerate primers on cat genomic DNA. Gene expression was assessed by RT-PCR of taste tissue, in situ hybridization, and immunohistochemistry. The cat Tas1r3 gene shows high sequence similarity with functional Tas1r3 genes of other species. Message from Tas1r3 was detected by RT-PCR of taste tissue. In situ hybridization and immunohistochemical studies demonstrate that Tas1r3 is expressed, as expected, in taste buds. However, the cat Tas1r2 gene shows a 247-base pair microdeletion in exon 3 and stop codons in exons 4 and 6. There was no evidence of detectable mRNA from cat Tas1r2 by RT-PCR or in situ hybridization, and no evidence of protein expression by immunohistochemistry. Tas1r2 in tiger and cheetah and in six healthy adult domestic cats all show the similar deletion and stop codons. We conclude that cat Tas1r3 is an apparently functional and expressed receptor but that cat Tas1r2 is an unexpressed pseudogene. A functional sweet-taste receptor heteromer

Pseudogenization of a Sweet-Receptor Gene Accounts for Cats' Indifference toward Sugar.

Directory of Open Access Journals (Sweden)

2005-07-01

Full Text Available Although domestic cats (Felis silvestris catus possess an otherwise functional sense of taste, they, unlike most mammals, do not prefer and may be unable to detect the sweetness of sugars. One possible explanation for this behavior is that cats lack the sensory system to taste sugars and therefore are indifferent to them. Drawing on work in mice, demonstrating that alleles of sweet-receptor genes predict low sugar intake, we examined the possibility that genes involved in the initial transduction of sweet perception might account for the indifference to sweet-tasting foods by cats. We characterized the sweet-receptor genes of domestic cats as well as those of other members of the Felidae family of obligate carnivores, tiger and cheetah. Because the mammalian sweet-taste receptor is formed by the dimerization of two proteins (T1R2 and T1R3; gene symbols Tas1r2 and Tas1r3, we identified and sequenced both genes in the cat by screening a feline genomic BAC library and by performing PCR with degenerate primers on cat genomic DNA. Gene expression was assessed by RT-PCR of taste tissue, in situ hybridization, and immunohistochemistry. The cat Tas1r3 gene shows high sequence similarity with functional Tas1r3 genes of other species. Message from Tas1r3 was detected by RT-PCR of taste tissue. In situ hybridization and immunohistochemical studies demonstrate that Tas1r3 is expressed, as expected, in taste buds. However, the cat Tas1r2 gene shows a 247-base pair microdeletion in exon 3 and stop codons in exons 4 and 6. There was no evidence of detectable mRNA from cat Tas1r2 by RT-PCR or in situ hybridization, and no evidence of protein expression by immunohistochemistry. Tas1r2 in tiger and cheetah and in six healthy adult domestic cats all show the similar deletion and stop codons. We conclude that cat Tas1r3 is an apparently functional and expressed receptor but that cat Tas1r2 is an unexpressed pseudogene. A functional sweet-taste receptor heteromer

Development of genomic SSR markers for fingerprinting lettuce (Lactuca sativa L.) cultivars and mapping genes.

Science.gov (United States)

Rauscher, Gilda; Simko, Ivan

2013-01-22

Lettuce (Lactuca sativa L.) is the major crop from the group of leafy vegetables. Several types of molecular markers were developed that are effectively used in lettuce breeding and genetic studies. However only a very limited number of microsattelite-based markers are publicly available. We have employed the method of enriched microsatellite libraries to develop 97 genomic SSR markers. Testing of newly developed markers on a set of 36 Lactuca accession (33 L. sativa, and one of each L. serriola L., L. saligna L., and L. virosa L.) revealed that both the genetic heterozygosity (UHe = 0.56) and the number of loci per SSR (Na = 5.50) are significantly higher for genomic SSR markers than for previously developed EST-based SSR markers (UHe = 0.32, Na = 3.56). Fifty-four genomic SSR markers were placed on the molecular linkage map of lettuce. Distribution of markers in the genome appeared to be random, with the exception of possible cluster on linkage group 6. Any combination of 32 genomic SSRs was able to distinguish genotypes of all 36 accessions. Fourteen of newly developed SSR markers originate from fragments with high sequence similarity to resistance gene candidates (RGCs) and RGC pseudogenes. Analysis of molecular variance (AMOVA) of L. sativa accessions showed that approximately 3% of genetic diversity was within accessions, 79% among accessions, and 18% among horticultural types. The newly developed genomic SSR markers were added to the pool of previously developed EST-SSRs markers. These two types of SSR-based markers provide useful tools for lettuce cultivar fingerprinting, development of integrated molecular linkage maps, and mapping of genes.

Assessment of multiple frequency ELF electric and magnetic field exposure

International Nuclear Information System (INIS)

Leitgeb, N

2008-01-01

Electromagnetic fields both in daily life and at workplaces exhibit increasingly complex frequency spectra. Present spectral assessment rules proved to be too conservative for health risk assessment. This is because they are based on the assumption that cells would react like linear systems in terms of responding to a sum of frequencies by a sum of independent responses to each individual frequency. Based on numerical investigations with the Hodgkin-Huxley and the Frankenhaeuser-Huxley nerve cell models, it could be shown that accounting for the nonlinear behaviour of cellular excitation processes avoids considerable overestimation of simultaneous exposures to multiple frequency ELF electric and magnetic fields. Besides this, it could be shown that the role of phase relationships is less important than that assumed so far. The present assessment rules lead to non-compliances of marketed electric appliances. For general application, a nonlinear biology-based assessment (NBBA) rule has been proposed, validated and proven advantageous compared with ICNIRP's rule. While staying conservative it avoids unnecessary overestimation and demonstrates compliance even in cases of suspected non-conformities. It is up to responsible bodies to decide upon the adoption of this proposal and the potential need for implementing additional or reducing the already incorporated safety factors

Simulated cosmic microwave background maps at 0.5 deg resolution: Basic results

Science.gov (United States)

Hinshaw, G.; Bennett, C. L.; Kogut, A.

1995-01-01

We have simulated full-sky maps of the cosmic microwave background (CMB) anisotropy expected from cold dark matter (CDM) models at 0.5 deg and 1.0 deg angular resolution. Statistical properties of the maps are presented as a function of sky coverage, angular resolution, and instrument noise, and the implications of these results for observability of the Doppler peak are discussed. The rms fluctuations in a map are not a particularly robust probe of the existence of a Doppler peak; however, a full correlation analysis can provide reasonable sensitivity. We find that sensitivity to the Doppler peak depends primarily on the fraction of sky covered, and only secondarily on the angular resolution and noise level. Color plates of the simulated maps are presented to illustrate the anisotropies.

Comparison of magnetic field meters used for Elf exposure measurement

International Nuclear Information System (INIS)

Magne, I.; Azoulay, A.; Lambrozo, J.; Souques, M.

2006-01-01

Objective The question of the biological effects of E.L.F. electromagnetic fields (50/60 Hz) has lead to many experimental and epidemiological works, in occupational exposure and in residential exposure. One of the main difficulties is to integrate the maximum of information about the environmental exposures during the everyday life without limitation to the exposure of the home. The objective of this study is to analyse experimentally the metrology associated with human exposure to 50 Hz magnetic field, in the optic of a study of the French population exposure. Method 4 meters were tested: the E.M.D.E.X. II, currently used in epidemiological studies, the E.M.D.E.X. L.I.T.E., which is more recent, the H.T.300, an Italian meter, and the F.D.3, which is made by Combinova A calibration was performed with an Helmoltz coil. The immunity of these meters to GSM signal was also tested. The influence of the sample rate was evaluated. Results and conclusion The meter chosen for performing the measurements of the exposure study will be selected in function of the following criteria: - easiness of use - precision - low sample rate - memory size and reliability of data stocking - immunity to GSM perturbations. (authors)

Cloning and characterization of the promoter regions from the parent and paralogous creatine transporter genes.

Science.gov (United States)

Ndika, Joseph D T; Lusink, Vera; Beaubrun, Claudine; Kanhai, Warsha; Martinez-Munoz, Cristina; Jakobs, Cornelis; Salomons, Gajja S

2014-01-10

Interconversion between phosphocreatine and creatine, catalyzed by creatine kinase is crucial in the supply of ATP to tissues with high energy demand. Creatine's importance has been established by its use as an ergogenic aid in sport, as well as the development of intellectual disability in patients with congenital creatine deficiency. Creatine biosynthesis is complemented by dietary creatine uptake. Intracellular transport of creatine is carried out by a creatine transporter protein (CT1/CRT/CRTR) encoded by the SLC6A8 gene. Most tissues express this gene, with highest levels detected in skeletal muscle and kidney. There are lower levels of the gene detected in colon, brain, heart, testis and prostate. The mechanism(s) by which this regulation occurs is still poorly understood. A duplicated unprocessed pseudogene of SLC6A8-SLC6A10P has been mapped to chromosome 16p11.2 (contains the entire SLC6A8 gene, plus 2293 bp of 5'flanking sequence and its entire 3'UTR). Expression of SLC6A10P has so far only been shown in human testis and brain. It is still unclear as to what is the function of SLC6A10P. In a patient with autism, a chromosomal breakpoint that intersects the 5'flanking region of SLC6A10P was identified; suggesting that SLC6A10P is a non-coding RNA involved in autism. Our aim was to investigate the presence of cis-acting factor(s) that regulate expression of the creatine transporter, as well as to determine if these factors are functionally conserved upstream of the creatine transporter pseudogene. Via gene-specific PCR, cloning and functional luciferase assays we identified a 1104 bp sequence proximal to the mRNA start site of the SLC6A8 gene with promoter activity in five cell types. The corresponding 5'flanking sequence (1050 bp) on the pseudogene also had promoter activity in all 5 cell lines. Surprisingly the pseudogene promoter was stronger than that of its parent gene in 4 of the cell lines tested. To the best of our knowledge, this is the first

Mapping the EORTC QLQ-C30 onto the EQ-5D-3L: assessing the external validity of existing mapping algorithms.

Science.gov (United States)

Doble, Brett; Lorgelly, Paula

2016-04-01

To determine the external validity of existing mapping algorithms for predicting EQ-5D-3L utility values from EORTC QLQ-C30 responses and to establish their generalizability in different types of cancer. A main analysis (pooled) sample of 3560 observations (1727 patients) and two disease severity patient samples (496 and 93 patients) with repeated observations over time from Cancer 2015 were used to validate the existing algorithms. Errors were calculated between observed and predicted EQ-5D-3L utility values using a single pooled sample and ten pooled tumour type-specific samples. Predictive accuracy was assessed using mean absolute error (MAE) and standardized root-mean-squared error (RMSE). The association between observed and predicted EQ-5D utility values and other covariates across the distribution was tested using quantile regression. Quality-adjusted life years (QALYs) were calculated using observed and predicted values to test responsiveness. Ten 'preferred' mapping algorithms were identified. Two algorithms estimated via response mapping and ordinary least-squares regression using dummy variables performed well on number of validation criteria, including accurate prediction of the best and worst QLQ-C30 health states, predicted values within the EQ-5D tariff range, relatively small MAEs and RMSEs, and minimal differences between estimated QALYs. Comparison of predictive accuracy across ten tumour type-specific samples highlighted that algorithms are relatively insensitive to grouping by tumour type and affected more by differences in disease severity. Two of the 'preferred' mapping algorithms suggest more accurate predictions, but limitations exist. We recommend extensive scenario analyses if mapped utilities are used in cost-utility analyses.

The Argonaute protein TbAGO1 contributes to large and mini-chromosome segregation and is required for control of RIME retroposons and RHS pseudogene-associated transcripts.

Science.gov (United States)

Durand-Dubief, Mickaël; Absalon, Sabrina; Menzer, Linda; Ngwabyt, Sandra; Ersfeld, Klaus; Bastin, Philippe

2007-12-01

The protist Trypanosoma brucei possesses a single Argonaute gene called TbAGO1 that is necessary for RNAi silencing. We previously showed that in strain 427, TbAGO1 knock-out leads to a slow growth phenotype and to chromosome segregation defects. Here we report that the slow growth phenotype is linked to defects in segregation of both large and mini-chromosome populations, with large chromosomes being the most affected. These phenotypes are completely reversed upon inducible re-expression of TbAGO1 fused to GFP, demonstrating their link with TbAGO1. Trypanosomes that do not express TbAGO1 show a general increase in the abundance of transcripts derived from the short retroposon RIME (Ribosomal Interspersed Mobile Element). Supplementary large RIME transcripts emerge in the absence of RNAi, a phenomenon coupled to the disappearance of short transcripts. These fluctuations are reversed by inducible expression of GFP::TbAGO1. Furthermore, we use a combination of Northern blots, RT-PCR and sequencing to reveal that RNAi controls expression of transcripts derived from RHS (Retrotransposon Hot Spot) pseudogenes (RHS genes with retro-element(s) integrated within their coding sequence). Absence of RNAi also leads to an increase of steady-state transcripts from regular RHS genes (those without retro-element), indicating a role for pseudogene in control of gene expression. However, analysis of retroposon abundance and arrangement in the genome of multiple clonal cell lines of TbAGO1-/- failed to reveal movement of mobile elements despite the increased amounts of retroposon transcripts.

Testing mapping algorithms of the cancer-specific EORTC QLQ-C30 onto EQ-5D in malignant mesothelioma.

Science.gov (United States)

Arnold, David T; Rowen, Donna; Versteegh, Matthijs M; Morley, Anna; Hooper, Clare E; Maskell, Nicholas A

2015-01-23

In order to estimate utilities for cancer studies where the EQ-5D was not used, the EORTC QLQ-C30 can be used to estimate EQ-5D using existing mapping algorithms. Several mapping algorithms exist for this transformation, however, algorithms tend to lose accuracy in patients in poor health states. The aim of this study was to test all existing mapping algorithms of QLQ-C30 onto EQ-5D, in a dataset of patients with malignant pleural mesothelioma, an invariably fatal malignancy where no previous mapping estimation has been published. Health related quality of life (HRQoL) data where both the EQ-5D and QLQ-C30 were used simultaneously was obtained from the UK-based prospective observational SWAMP (South West Area Mesothelioma and Pemetrexed) trial. In the original trial 73 patients with pleural mesothelioma were offered palliative chemotherapy and their HRQoL was assessed across five time points. This data was used to test the nine available mapping algorithms found in the literature, comparing predicted against observed EQ-5D values. The ability of algorithms to predict the mean, minimise error and detect clinically significant differences was assessed. The dataset had a total of 250 observations across 5 timepoints. The linear regression mapping algorithms tested generally performed poorly, over-estimating the predicted compared to observed EQ-5D values, especially when observed EQ-5D was below 0.5. The best performing algorithm used a response mapping method and predicted the mean EQ-5D with accuracy with an average root mean squared error of 0.17 (Standard Deviation; 0.22). This algorithm reliably discriminated between clinically distinct subgroups seen in the primary dataset. This study tested mapping algorithms in a population with poor health states, where they have been previously shown to perform poorly. Further research into EQ-5D estimation should be directed at response mapping methods given its superior performance in this study.

GenMapDB: a database of mapped human BAC clones

OpenAIRE

Morley, Michael; Arcaro, Melissa; Burdick, Joshua; Yonescu, Raluca; Reid, Thomas; Kirsch, Ilan R.; Cheung, Vivian G.

2001-01-01

GenMapDB (http://genomics.med.upenn.edu/genmapdb) is a repository of human bacterial artificial chromosome (BAC) clones mapped by our laboratory to sequence-tagged site markers. Currently, GenMapDB contains over 3000 mapped clones that span 19 chromosomes, chromosomes 2, 4, 5, 9–22, X and Y. This database provides positional information about human BAC clones from the RPCI-11 human male BAC library. It also contains restriction fragment analysis data and end sequen...

ELF-VLF communications through the Earth Project report for calendar year 1984, revision 1

Science.gov (United States)

Buettner, H. M.; Burker, G. J.; Didwall, E. M.; Holladay, G.; Lytle, R. J.

1985-08-01

We use computer models and experiments to explore the feasibility of communication between points underground and on the Earth's surface. Emphasis is placed on ELF-VLF electromagnetic propagation through the Earth; nominally, we investigated propagation in the 200 Hz-30 kHz frequency range. The computer modeling included calculations of the fields of a point electric or magnetic source in a homogeneous half space or a stratified earth. Initial results for an insulated antenna of finite length are also considered. The experiments involved through-the-Earth transmissions at two locations in Pennsylvania, both of which had large formations of limestone. Initial results indicate that information rates as high as kbits/s may be possible for subsurface depths of 300 m or less. Accuracy of these estimates depends on the electromagnetic propagation constant of the rock, the noise characteristics, and the modulation scheme. Although a nuisance for evaluating through-the-Earth propagation, the existence of subsurface metal conductors can improve the transmission character of the site.

ELF-VLF Communications through the Earth Project report for calendar year 1984. Revision 1

Energy Technology Data Exchange (ETDEWEB)

Buettner, H.M.; Burke, G.J.; Didwall, E.M.; Holladay, G.; Lytle, R.J.

1985-08-01

We use computer models and experiments to explore the feasibility of communication between points underground and on the Earth's surface. Emphasis is placed on ELF-VLF electromagnetic propagation through the Earth; nominally, we investigated propagation in the 200 Hz-30 kHz frequency range. The computer modeling included calculations of the fields of a point electric or magnetic source in a homogeneous half space or a stratified earth. Initial results for an insulated antenna of finite length are also considered. The experiments involved through-the-earth transmissions at two locations in Pennsylvania, both of which had large formations of limestone. Initial results indicate that information rates as high as kbits/s may be possible for subsurface depths of 300 m or less. Accuracy of these estimates depends on the electromagnetic propagation constant of the rock, the noise characteristics, and the modulation scheme. Although a nuisance for evaluating through-the-Earth propagation, the existence of subsurface metal conductors can improve the transmission character of the site.

Classifying galaxy spectra at 0.5 < z < 1 with self-organizing maps

Science.gov (United States)

Rahmani, S.; Teimoorinia, H.; Barmby, P.

2018-05-01

The spectrum of a galaxy contains information about its physical properties. Classifying spectra using templates helps elucidate the nature of a galaxy's energy sources. In this paper, we investigate the use of self-organizing maps in classifying galaxy spectra against templates. We trained semi-supervised self-organizing map networks using a set of templates covering the wavelength range from far ultraviolet to near infrared. The trained networks were used to classify the spectra of a sample of 142 galaxies with 0.5 K-means clustering, a supervised neural network, and chi-squared minimization. Spectra corresponding to quiescent galaxies were more likely to be classified similarly by all methods while starburst spectra showed more variability. Compared to classification using chi-squared minimization or the supervised neural network, the galaxies classed together by the self-organizing map had more similar spectra. The class ordering provided by the one-dimensional self-organizing maps corresponds to an ordering in physical properties, a potentially important feature for the exploration of large datasets.

The 5S rDNA in two Abracris grasshoppers (Ommatolampidinae: Acrididae): molecular and chromosomal organization.

Science.gov (United States)

Bueno, Danilo; Palacios-Gimenez, Octavio Manuel; Martí, Dardo Andrea; Mariguela, Tatiane Casagrande; Cabral-de-Mello, Diogo Cavalcanti

2016-08-01

The 5S ribosomal DNA (rDNA) sequences are subject of dynamic evolution at chromosomal and molecular levels, evolving through concerted and/or birth-and-death fashion. Among grasshoppers, the chromosomal location for this sequence was established for some species, but little molecular information was obtained to infer evolutionary patterns. Here, we integrated data from chromosomal and nucleotide sequence analysis for 5S rDNA in two Abracris species aiming to identify evolutionary dynamics. For both species, two arrays were identified, a larger sequence (named type-I) that consisted of the entire 5S rDNA gene plus NTS (non-transcribed spacer) and a smaller (named type-II) with truncated 5S rDNA gene plus short NTS that was considered a pseudogene. For type-I sequences, the gene corresponding region contained the internal control region and poly-T motif and the NTS presented partial transposable elements. Between the species, nucleotide differences for type-I were noticed, while type-II was identical, suggesting pseudogenization in a common ancestor. At chromosomal point to view, the type-II was placed in one bivalent, while type-I occurred in multiple copies in distinct chromosomes. In Abracris, the evolution of 5S rDNA was apparently influenced by the chromosomal distribution of clusters (single or multiple location), resulting in a mixed mechanism integrating concerted and birth-and-death evolution depending on the unit.

Surficial geologic map of the Burlington, Vermont 7.5 minute quadrangle

Data.gov (United States)

Vermont Center for Geographic Information — Digital data from VG09-1 Wright, S., S. Fuller, S. Jones, A. McKinney, S. Rupard, and S.D. Shaw, 2009,�Surficial geologic map of the Burlington, Vermont 7.5 minute...

Genetic and radiation hybrid mapping of the hyperekplexia region on chromosome 5q

Energy Technology Data Exchange (ETDEWEB)

Ryan, S.G.; O' Connell, P. (Univ. of Texas Health Science Center, San Antonio (United States)); Dixon, M.J. (Univ. of Manchester (United Kingdom)); Nigro, M.A. (Wayne State Univ., Detroit, MI (United States)); Kelts, K.A. (Black Hills Neurology, Rapid City, SD (United States)); Markand, O.N. (Indiana Univ., Indianopolis (United States)); Shiang, R.; Wasmuth, J.J. (Univ. of California, Irvine (United States)); Terry, J.C.

1992-12-01

Hyperekplexia, or startle disease (STHE), is an autosomal dominant neurologic disorder characterized by muscular rigidity of central nervous system origin, particularly in the neonatal period, and by an exaggerated startle response to sudden, unexpected acoustic or tactile stimuli. STHE responds dramatically to the benzodiazepine drug clonazepam, which acts at gamma-aminobutyric acid type A (GABA-A) receptors. The STHE locus (STHE) was recently assigned to chromosome 5q, on the basis of tight linkage to the colony-stimulating factor 1-receptor (CSF1-R) locus in a single large family. The authors performed linkage analysis in the original and three additional STHE pedigrees with eight chromosome 5q microsatellite markers and placed several of the most closely linked markers on an existing radiation hybrid (RH) map of the region. The results provide strong evidence for genetic locus homogeneity and assign STHE to a 5.9-cM interval defined by CSF1-R and D5S379, which are separated by an RH map distance of 74 centirays (roughly 2.2-3.7 Mb). Two polymorphic markers (D5S119 and D5S209) lie within this region, but they could not be ordered with respect to STHE. RH mapping eliminated the candidate genes GABRA1 and GABRG2, which encode GABA-A receptor components, by showing that they are telomeric to the target region. 45 refs., 4 figs., 4 tabs.

Implementation of fast macromolecular proton fraction mapping on 1.5 and 3 Tesla clinical MRI scanners: preliminary experience

Science.gov (United States)

Yarnykh, V.; Korostyshevskaya, A.

2017-08-01

Macromolecular proton fraction (MPF) is a biophysical parameter describing the amount of macromolecular protons involved into magnetization exchange with water protons in tissues. MPF represents a significant interest as a magnetic resonance imaging (MRI) biomarker of myelin for clinical applications. A recent fast MPF mapping method enabled clinical translation of MPF measurements due to time-efficient acquisition based on the single-point constrained fit algorithm. However, previous MPF mapping applications utilized only 3 Tesla MRI scanners and modified pulse sequences, which are not commonly available. This study aimed to test the feasibility of MPF mapping implementation on a 1.5 Tesla clinical scanner using standard manufacturer’s sequences and compare the performance of this method between 1.5 and 3 Tesla scanners. MPF mapping was implemented on 1.5 and 3 Tesla MRI units of one manufacturer with either optimized custom-written or standard product pulse sequences. Whole-brain three-dimensional MPF maps obtained from a single volunteer were compared between field strengths and implementation options. MPF maps demonstrated similar quality at both field strengths. MPF values in segmented brain tissues and specific anatomic regions appeared in close agreement. This experiment demonstrates the feasibility of fast MPF mapping using standard sequences on 1.5 T and 3 T clinical scanners.

Large-Area, High-Resolution Tree Cover Mapping with Multi-Temporal SPOT5 Imagery, New South Wales, Australia

Directory of Open Access Journals (Sweden)

Adrian Fisher

2016-06-01

Full Text Available Tree cover maps are used for many purposes, such as vegetation mapping, habitat connectivity and fragmentation studies. Small remnant patches of native vegetation are recognised as ecologically important, yet they are underestimated in remote sensing products derived from Landsat. High spatial resolution sensors are capable of mapping small patches of trees, but their use in large-area mapping has been limited. In this study, multi-temporal Satellite pour l’Observation de la Terre 5 (SPOT5 High Resolution Geometrical data was pan-sharpened to 5 m resolution and used to map tree cover for the Australian state of New South Wales (NSW, an area of over 800,000 km2. Complete coverages of SPOT5 panchromatic and multispectral data over NSW were acquired during four consecutive summers (2008–2011 for a total of 1256 images. After pre-processing, the imagery was used to model foliage projective cover (FPC, a measure of tree canopy density commonly used in Australia. The multi-temporal imagery, FPC models and 26,579 training pixels were used in a binomial logistic regression model to estimate the probability of each pixel containing trees. The probability images were classified into a binary map of tree cover using local thresholds, and then visually edited to reduce errors. The final tree map was then attributed with the mean FPC value from the multi-temporal imagery. Validation of the binary map based on visually assessed high resolution reference imagery revealed an overall accuracy of 88% (±0.51% standard error, while comparison against airborne lidar derived data also resulted in an overall accuracy of 88%. A preliminary assessment of the FPC map by comparing against 76 field measurements showed a very good agreement (r2 = 0.90 with a root mean square error of 8.57%, although this may not be representative due to the opportunistic sampling design. The map represents a regionally consistent and locally relevant record of tree cover for NSW, and

ULF-ELF Electromagnetic Emissions Over the Fault in Kangra Valley of India and their Relation With Radon Emanation (Intercosmos 24 Satellite Data)

International Nuclear Information System (INIS)

Mikhailov, Yu.M.; Mikhailova, G.A.; Kapustina, O.V.

1999-01-01

Experimental investigations of space and spectral characteristics of the electric component of the electromagnetic waves in the outer ionosphere in the ULF (f < 30 Hz) and ELF (f < 1 kHz) ranges were carried out over north fault of the India - Australian plate. Records of the 10 narrow band filters in the frequency range from 8 to 970 Hz with NVK-receiver mounting on Intercosmos 24 satellite were used. In the day-time at sensitivity level near 2 μV/m emissions couldn't observe. In the night-time emissions, localized exactly in space above the fault, was observed in mentioned full frequency range. In spectral distribution of emission maximum in frequency range from 150 to 623 Hz allocated. In those days, when anomalous bursts of radon concentration in underground waters in Kangra Valley was observed the simultaneous amplification of electric component of field at frequency 8 Hz more on the factor more than ten and in frequency range from 150 to 623 Hz, where usually was maximum, on the factor two or three also was observed. This fact ensures statement, that the noises are generated by the lightning discharges, but amplification of their intensity on satellite heights was related with decreasing of ELF waves attenuation in the time of their penetration through lower ionosphere, modified by electric field in preparing phase of the earthquakes. (author)

Chromosomal evolution of the PKD1 gene family in primates

Directory of Open Access Journals (Sweden)

Krawczak Michael

2008-09-01

Full Text Available Abstract Background The autosomal dominant polycystic kidney disease (ADPKD is mostly caused by mutations in the PKD1 (polycystic kidney disease 1 gene located in 16p13.3. Moreover, there are six pseudogenes of PKD1 that are located proximal to the master gene in 16p13.1. In contrast, no pseudogene could be detected in the mouse genome, only a single copy gene on chromosome 17. The question arises how the human situation originated phylogenetically. To address this question we applied comparative FISH-mapping of a human PKD1-containing genomic BAC clone and a PKD1-cDNA clone to chromosomes of a variety of primate species and the dog as a non-primate outgroup species. Results Comparative FISH with the PKD1-cDNA clone clearly shows that in all primate species studied distinct single signals map in subtelomeric chromosomal positions orthologous to the short arm of human chromosome 16 harbouring the master PKD1 gene. Only in human and African great apes, but not in orangutan, FISH with both BAC and cDNA clones reveals additional signal clusters located proximal of and clearly separated from the PKD1 master genes indicating the chromosomal position of PKD1 pseudogenes in 16p of these species, respectively. Indeed, this is in accordance with sequencing data in human, chimpanzee and orangutan. Apart from the master PKD1 gene, six pseudogenes are identified in both, human and chimpanzee, while only a single-copy gene is present in the whole-genome sequence of orangutan. The phylogenetic reconstruction of the PKD1-tree reveals that all human pseudogenes are closely related to the human PKD1 gene, and all chimpanzee pseudogenes are closely related to the chimpanzee PKD1 gene. However, our statistical analyses provide strong indication that gene conversion events may have occurred within the PKD1 family members of human and chimpanzee, respectively. Conclusion PKD1 must have undergone amplification very recently in hominid evolution. Duplicative

Energetics and chemical bonding of the 1,3,5-tridehydrobenzene triradical and its protonated form

International Nuclear Information System (INIS)

Hue Minh Thi Nguyen; Hoeltzl, Tibor; Gopakumar, G.; Veszpremi, Tamas; Peeters, Jozef; Minh Tho Nguyen

2005-01-01

Quantum chemical calculations were applied to investigate the electronic structure of the parent 1,3,5-tridehydrobenzene triradical (C 6 H 3 , TDB) and its anion (C 6 H 3 - ), cation (C 6 H 3 + ) and protonated form (C 6 H 4 + ). Our results obtained using the state-averaged complete active space self-consistent-field (CASSCF) followed by second-order multi-state multi-configuration perturbation theory, MS-CASPT2, and MRMP2 in conjunction with the large ANO-L and 6-311++G(3df,2p) basis set, confirm and reveal the followings: (i) TDB has a doublet 2 A 1 ground state with a 4 B 2 - 2 A 1 energy gap of 29kcal/mol, (ii) the ground state of the C 6 H 3 - anion in the triplet 3 B 2 being 4kcal/mol below the 1 A 1 state. (iii) the electron affinity (EA), ionization energy (IE) and proton affinity (PA) are computed to be: EA=1.6eV, IE=7.2eV, PA=227kcal/mol using UB3LYP/6-311++G(3df,2p)+ZPE; standard heat of formation ΔH f(298K,1atm) (TDB)=179+/-2kcal/mol was calculated with CBS-QB3 method. An atoms-in-molecules (AIM) analysis of the structure reveals that the topology of the electron density is similar in all compounds: hydrogens connect to a six-membered ring, except for the case of the 2 A 2 state of C 6 H 4 + (MBZ + ) which is bicyclic with fused five- and three-membered rings. Properties of the chemical bonds were characterized with Electron Localization Function (ELF) analysis, as well as Wiberg indices, Laplacian and spin density maps. We found that the radicals form separate monosynaptic basins on the ELF space, however its pair character remains high. In the 2 A 1 state of TDB, the radical center is mainly localized on the C1 atom, while in the 2 B 2 state it is equally distributed between the C3 and C5 atoms and, due to the symmetry, in the 4 B 2 state the C1, C2 and C3 atoms have the same radical character. There is no C3-C5 bond in the 2 A 1 state of TDB, but the interaction between these atoms is strong. The ground state of cation C 6 H 3 + (DHP), 1 A 1 , is

Anomalous ELF phenomena in the Schumann resonance band as observed at Moshiri (Japan in possible association with an earthquake in Taiwan

Directory of Open Access Journals (Sweden)

M. Hayakawa

2008-12-01

Full Text Available The ELF observation at Moshiri (geographic coordinates: 44.29° N, 142.21° E in Hokkaido, Japan, was used to find anomalous phenomena in the Schumann resonance band, possibly associated with a large earthquake (magnitude of 7.8 in Taiwan on 26 December 2006. The Schumann resonance signal (fundamental (n=1, 8 Hz; 2nd harmonic, 14 Hz, 3rd harmonic, 20 Hz, 4th, 26 Hz etc. is known to be supported by electromagnetic radiation from the global thunderstorms, and the anomaly in this paper is characterized by an increase in intensity at frequencies from the third to fourth Schumann resonance modes mainly in the B_EW component with a minor corresponding increase in the B_NS component also. Spectral modification takes place only in the interval of 21:00 UT±1 h, which corresponds to the global lightning activity concentrated in America. While distortions were absent in other lightning-active UT intervals, in particular, around 08:00 UT±1 h (Asian thunderstorms and around 15±1 h (African lightning activity. The anomaly occurred on 23 December three days prior to the main shock. The results observed were explained in terms of ELF radio wave perturbation caused by the lower ionospheric depression around the earthquake epicenter. The difference in the path lengths between the direct radio wave from an active global thunderstorm center and the wave scattered from the non-uniformity above Taiwan causes interference at higher resonance modes, which is successful in explaining the observational data.

ZWEI 'JAHRHUNDERTHOCHWASSER' IN ELF JAHREN - EIN VERGLEICH DER HOCHWASSEREREIGNISSE VON 2002 UND 2013 (IN DEUTSCHLAND

Directory of Open Access Journals (Sweden)

ANJA KLEINEBRAHN

2014-05-01

Full Text Available Zwei 'jahrhunderthochwasser' in elf jahren - ein vergleich der hochwasserereignisse von 2002 und 2013 (in Deutschland. Worldwide floods are among the most frequent and most momentous natural disasters. They occur in unpredictable intervals and dimensions and always bring particularly devastating or catastrophic impacts, if they get into contact with people or its uses. Within eleven years only Germany was affected of two so-called 'century-floods'. The expiry of extreme high water can be influenced by technical measures only up to a certain degree. It is therefore necessary to have a high protection from the effects of floods and to keep the impact as low as possible. Both being prepared as well as possible and being capable of acting for the case of emergency are corequisite. Flood protection is a longsome and s steadily continuing process. In dealing with the consequences of floods both political measures and the commitment and solidarity of the citizens were in demand.

Flood-inundation maps for a 12.5-mile reach of Big Papillion Creek at Omaha, Nebraska

Science.gov (United States)

Strauch, Kellan R.; Dietsch, Benjamin J.; Anderson, Kayla J.

2016-03-22

Digital flood-inundation maps for a 12.5-mile reach of the Big Papillion Creek from 0.6 mile upstream from the State Street Bridge to the 72nd Street Bridge in Omaha, Nebraska, were created by the U.S. Geological Survey (USGS) in cooperation with the Papio-Missouri River Natural Resources District. The flood-inundation maps, which can be accessed through the USGS Flood Inundation Mapping Science Web site at http://water.usgs.gov/osw/flood_inundation/, depict estimates of the areal extent and depth of flooding corresponding to selected water levels (stages) at the USGS streamgage on the Big Papillion Creek at Fort Street at Omaha, Nebraska (station 06610732). Near-real-time stages at this streamgage may be obtained on the Internet from the USGS National Water Information System at http://waterdata.usgs.gov/ or the National Weather Service Advanced Hydrologic Prediction Service at http:/water.weather.gov/ahps/, which also forecasts flood hydrographs at this site.

Atlas of the Colombian coal, Potential map and rank: Map 5-09; Atlas de los carbones colombianos. Mapa de potencial y rango: Plancha 5-09

Energy Technology Data Exchange (ETDEWEB)

Pulido Gonzalez, Orlando

1999-07-01

With the presentation of the Atlas of Coal to scale 1:500.000, it is sought to show to big features the location of the different areas with coal in Colombia, associating with the geologic units, the potential and the range. In the Map 5-09, the formations that include the coal are defined as Umir, Guaduas, Limbo, (Los Cuervos), San Fernando, (Carbonera), defined as Kst, Ksgt and Pgt. For the potential an arbitrary scale settled down, in the following way: in the first place bigger to 1000 million tons; between 1000 and 100; between 100 and 10 and lastly smaller to 10 million tons. These figures are represented in the map by triangles with colors that they are equal before to the figures mentioned. Keeping in mind the scale, it was opted to report the potential in the category of the hypothetical resources; when the resources or reserves are established, they are also reported. As for the range, in the map it is indicated by means of symbols that should be taken as a domain or tendency of the coal in each area in general. The the coal rank understood as the transformation that has reached along the geologic evolution is what is mentioned as anthracitic coal, semi-anthracitic, bituminous low in volatile, bituminous middle in volatile, bituminous high in volatile A, B and C, sub-bituminous and lastly the lignite. For each map are mentioned that there are determined.

Rationales, design and recruitment for the Elfe longitudinal study

Directory of Open Access Journals (Sweden)

Salines Georges

2009-09-01

Full Text Available Abstract Background Many factors act simultaneously in childhood to influence health status, life chances and well being, including pre-birth influences, the environmental pollutants of early life, health status but also the social influences of family and school. A cohort study is needed to disentangle these influences and explore attribution. Methods Elfe will be a nationally representative cohort of 20 000 children followed from birth to adulthood using a multidisciplinary approach. The cohort will be based on the INSEE Permanent Demographic Panel (EDP established using census data and civil records. The sample size has been defined in order to match the representativeness criteria and to obtain some prevalence estimation, but also to address the research area of low exposure/rare effects. The cohort will be based on repeated surveys by face to face or phone interview (at birth and each year as well as medical interview (at 2 years and examination (at 6 years. Furthermore, biological samples will be taken at birth to evaluate the foetal exposition to toxic substances, environmental sensors will be placed in the child's homes. Pilot studies have been initiated in 2007 (500 children with an overall acceptance rate of 55% and are currently under progress, the 2-year survey being carried out in October this year. Discussion The longitudinal study will provide a unique source of data to analyse the development of children in their environment, to study the various factors interacting throughout the life course up to adulthood and to determine the impact of childhood experience on the individual's physical, psychological, social and professional development.

Heterogeneity of Human Neutrophil CD177 Expression Results from CD177P1 Pseudogene Conversion.

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Zuopeng Wu

2016-05-01

Full Text Available Most humans harbor both CD177neg and CD177pos neutrophils but 1-10% of people are CD177null, placing them at risk for formation of anti-neutrophil antibodies that can cause transfusion-related acute lung injury and neonatal alloimmune neutropenia. By deep sequencing the CD177 locus, we catalogued CD177 single nucleotide variants and identified a novel stop codon in CD177null individuals arising from a single base substitution in exon 7. This is not a mutation in CD177 itself, rather the CD177null phenotype arises when exon 7 of CD177 is supplied entirely by the CD177 pseudogene (CD177P1, which appears to have resulted from allelic gene conversion. In CD177 expressing individuals the CD177 locus contains both CD177P1 and CD177 sequences. The proportion of CD177hi neutrophils in the blood is a heritable trait. Abundance of CD177hi neutrophils correlates with homozygosity for CD177 reference allele, while heterozygosity for ectopic CD177P1 gene conversion correlates with increased CD177neg neutrophils, in which both CD177P1 partially incorporated allele and paired intact CD177 allele are transcribed. Human neutrophil heterogeneity for CD177 expression arises by ectopic allelic conversion. Resolution of the genetic basis of CD177null phenotype identifies a method for screening for individuals at risk of CD177 isoimmunisation.

Space-time PM2.5 mapping in the severe haze region of Jing-Jin-Ji (China) using a synthetic approach.

Science.gov (United States)

He, Junyu; Christakos, George

2018-05-07

Long- and short-term exposure to PM 2.5 is of great concern in China due to its adverse population health effects. Characteristic of the severity of the situation in China is that in the Jing-Jin-Ji region considered in this work a total of 2725 excess deaths have been attributed to short-term PM 2.5 exposure during the period January 10-31, 2013. Technically, the processing of large space-time PM 2.5 datasets and the mapping of the space-time distribution of PM 2.5 concentrations often constitute high-cost projects. To address this situation, we propose a synthetic modeling framework based on the integration of (a) the Bayesian maximum entropy method that assimilates auxiliary information from land-use regression and artificial neural network (ANN) model outputs based on PM 2.5 monitoring, satellite remote sensing data, land use and geographical records, with (b) a space-time projection technique that transforms the PM 2.5 concentration values from the original spatiotemporal domain onto a spatial domain that moves along the direction of the PM 2.5 velocity spread. An interesting methodological feature of the synthetic approach is that its components (methods or models) are complementary, i.e., one component can compensate for the occasional limitations of another component. Insight is gained in terms of a PM 2.5 case study covering the severe haze Jing-Jin-Ji region during October 1-31, 2015. The proposed synthetic approach explicitly accounted for physical space-time dependencies of the PM 2.5 distribution. Moreover, the assimilation of auxiliary information and the dimensionality reduction achieved by the synthetic approach produced rather impressive results: It generated PM 2.5 concentration maps with low estimation uncertainty (even at counties and villages far away from the monitoring stations, whereas during the haze periods the uncertainty reduction was over 50% compared to standard PM 2.5 mapping techniques); and it also proved to be computationally very

Genome-Wide Mapping of 5mC and 5hmC Identified Differentially Modified Genomic Regions in Late-Onset Severe Preeclampsia: A Pilot Study.

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Lisha Zhu

Full Text Available Preeclampsia (PE is a leading cause of perinatal morbidity and mortality. However, as a common form of PE, the etiology of late-onset PE is elusive. We analyzed 5-methylcytosine (5mC and 5-hydroxymethylcytosine (5hmC levels in the placentas of late-onset severe PE patients (n = 4 and normal controls (n = 4 using a (hydroxymethylated DNA immunoprecipitation approach combined with deep sequencing ([h]MeDIP-seq, and the results were verified by (hMeDIP-qPCR. The most significant differentially methylated regions (DMRs were verified by MassARRAY EppiTYPER in an enlarged sample size (n = 20. Bioinformatics analysis identified 714 peaks of 5mC that were associated with 403 genes and 119 peaks of 5hmC that were associated with 61 genes, thus showing significant differences between the PE patients and the controls (>2-fold, p<0.05. Further, only one gene, PTPRN2, had both 5mC and 5hmC changes in patients. The ErbB signaling pathway was enriched in those 403 genes that had significantly different 5mC level between the groups. This genome-wide mapping of 5mC and 5hmC in late-onset severe PE and normal controls demonstrates that both 5mC and 5hmC play epigenetic roles in the regulation of the disease, but work independently. We reveal the genome-wide mapping of DNA methylation and DNA hydroxymethylation in late-onset PE placentas for the first time, and the identified ErbB signaling pathway and the gene PTPRN2 may be relevant to the epigenetic pathogenesis of late-onset PE.

[Structural organization of 5S ribosomal DNA of Rosa rugosa].

Science.gov (United States)

Tynkevych, Iu O; Volkov, R A

2014-01-01

In order to clarify molecular organization of the genomic region encoding 5S rRNA in diploid species Rosa rugosa several 5S rDNA repeated units were cloned and sequenced. Analysis of the obtained sequences revealed that only one length variant of 5S rDNA repeated units, which contains intact promoter elements in the intergenic spacer region (IGS) and appears to be transcriptionally active is present in the genome. Additionally, a limited number of 5S rDNA pseudogenes lacking a portion of coding sequence and the complete IGS was detected. A high level of sequence similarity (from 93.7 to 97.5%) between the IGS of major 5S rDNA variants of East Asian R. rugosa and North American R. nitida was found indicating comparatively recent divergence of these species.

A systematic evaluation of three different cardiac T2-mapping sequences at 1.5 and 3T in healthy volunteers.

Science.gov (United States)

Baeßler, Bettina; Schaarschmidt, Frank; Stehning, Christian; Schnackenburg, Bernhard; Maintz, David; Bunck, Alexander C

2015-11-01

Previous studies showed that myocardial T2 relaxation times measured by cardiac T2-mapping vary significantly depending on sequence and field strength. Therefore, a systematic comparison of different T2-mapping sequences and the establishment of dedicated T2 reference values is mandatory for diagnostic decision-making. Phantom experiments using gel probes with a range of different T1 and T2 times were performed on a clinical 1.5T and 3T scanner. In addition, 30 healthy volunteers were examined at 1.5 and 3T in immediate succession. In each examination, three different T2-mapping sequences were performed at three short-axis slices: Multi Echo Spin Echo (MESE), T2-prepared balanced SSFP (T2prep), and Gradient Spin Echo with and without fat saturation (GraSEFS/GraSE). Segmented T2-Maps were generated according to the AHA 16-segment model and statistical analysis was performed. Significant intra-individual differences between mean T2 times were observed for all sequences. In general, T2prep resulted in lowest and GraSE in highest T2 times. A significant variation with field strength was observed for mean T2 in phantom as well as in vivo, with higher T2 values at 1.5T compared to 3T, regardless of the sequence used. Segmental T2 values for each sequence at 1.5 and 3T are presented. Despite a careful selection of sequence parameters and volunteers, significant variations of the measured T2 values were observed between field strengths, MR sequences and myocardial segments. Therefore, we present segmental T2 values for each sequence at 1.5 and 3T with the inherent potential to serve as reference values for future studies. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

Molecular detection and confirmation of Neisseria gonorrhoeae in urogenital and extragenital specimens using the Abbott CT/NG RealTime assay and an in-house assay targeting the porA pseudogene.

LENUS (Irish Health Repository)

Walsh, A

2011-04-01

Culture for detection of Neisseria gonorrhoeae (NG) is being replaced by molecular assays, but difficulties are observed with false positive and negatives results, especially for extragenital samples. This study evaluates the Abbott CT\\/NG Real-Time assay and a real-time porA pseudogene assay. Samples (n = 600) from a mixed prevalence Irish population include 164 male urines with corresponding urethral swabs, 58 endocervical swabs, 173 male pharyngeal swabs, 205 male rectal swabs, 36 NG clinical isolates and 26 commensal Neisseria species isolates. There was a 100% concordance between the Abbott CT\\/NG Real-Time and the porA assay. The positivity rate was 1.2%, 1.7%, 8.1% and 5.8% for FVU\\/urethral swabs, endocervical, pharyngeal and rectal swabs, respectively. These results were compared to culture and discrepancies were found with nine pharyngeal and three rectal swabs. Seven of the 12 discrepant positive samples were sequenced and were confirmed "true positives". The sensitivity and specificity of the molecular assays was 100%. The sensitivity of the culture-based testing was 100% for urogenital samples but 36% and 75% for pharyngeal and rectal swabs, respectively. The combined Abbott CT\\/NG and porA assays provide a valuable alternative to culture and also generate a significant increase in the diagnosis of pharyngeal and rectal NG infection.

Bedrock Geologic Map of the Mount Mansfield 7.5 Minute Quadrangle, Vermont

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Vermont Center for Geographic Information — Digital Data from VG2017-2 Thompson, P. J., and Thompson, T. B., 2017, Bedrock Geologic Map of the Mount Mansfield 7.5 Minute Quadrangle, Vermont: VGS Open-File...

Pre-exposure to 50 Hz magnetic fields modifies menadione-induced genotoxic effects in human SH-SY5Y neuroblastoma cells.

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Jukka Luukkonen

Full Text Available BACKGROUND: Extremely low frequency (ELF magnetic fields (MF are generated by power lines and various electric appliances. They have been classified as possibly carcinogenic by the International Agency for Research on Cancer, but a mechanistic explanation for carcinogenic effects is lacking. A previous study in our laboratory showed that pre-exposure to ELF MF altered cancer-relevant cellular responses (cell cycle arrest, apoptosis to menadione-induced DNA damage, but it did not include endpoints measuring actual genetic damage. In the present study, we examined whether pre-exposure to ELF MF affects chemically induced DNA damage level, DNA repair rate, or micronucleus frequency in human SH-SY5Y neuroblastoma cells. METHODOLOGY/PRINCIPAL FINDINGS: Exposure to 50 Hz MF was conducted at 100 µT for 24 hours, followed by chemical exposure for 3 hours. The chemicals used for inducing DNA damage and subsequent micronucleus formation were menadione and methyl methanesulphonate (MMS. Pre-treatment with MF enhanced menadione-induced DNA damage, DNA repair rate, and micronucleus formation in human SH-SY5Y neuroblastoma cells. Although the results with MMS indicated similar effects, the differences were not statistically significant. No effects were observed after MF exposure alone. CONCLUSIONS: The results confirm our previous findings showing that pre-exposure to MFs as low as 100 µT alters cellular responses to menadione, and show that increased genotoxicity results from such interaction. The present findings also indicate that complementary data at several chronological points may be critical for understanding the MF effects on DNA damage, repair, and post-repair integrity of the genome.

Pre-exposure to 50 Hz magnetic fields modifies menadione-induced genotoxic effects in human SH-SY5Y neuroblastoma cells.

Science.gov (United States)

Luukkonen, Jukka; Liimatainen, Anu; Höytö, Anne; Juutilainen, Jukka; Naarala, Jonne

2011-03-23

Extremely low frequency (ELF) magnetic fields (MF) are generated by power lines and various electric appliances. They have been classified as possibly carcinogenic by the International Agency for Research on Cancer, but a mechanistic explanation for carcinogenic effects is lacking. A previous study in our laboratory showed that pre-exposure to ELF MF altered cancer-relevant cellular responses (cell cycle arrest, apoptosis) to menadione-induced DNA damage, but it did not include endpoints measuring actual genetic damage. In the present study, we examined whether pre-exposure to ELF MF affects chemically induced DNA damage level, DNA repair rate, or micronucleus frequency in human SH-SY5Y neuroblastoma cells. Exposure to 50 Hz MF was conducted at 100 µT for 24 hours, followed by chemical exposure for 3 hours. The chemicals used for inducing DNA damage and subsequent micronucleus formation were menadione and methyl methanesulphonate (MMS). Pre-treatment with MF enhanced menadione-induced DNA damage, DNA repair rate, and micronucleus formation in human SH-SY5Y neuroblastoma cells. Although the results with MMS indicated similar effects, the differences were not statistically significant. No effects were observed after MF exposure alone. The results confirm our previous findings showing that pre-exposure to MFs as low as 100 µT alters cellular responses to menadione, and show that increased genotoxicity results from such interaction. The present findings also indicate that complementary data at several chronological points may be critical for understanding the MF effects on DNA damage, repair, and post-repair integrity of the genome.

Geologic map of the Pandrosos Dorsa Quadrangle (V-5), Venus

Science.gov (United States)

Rosenberg, Elizabeth; McGill, George E.

2001-01-01

Introduction The Magellan spacecraft orbited Venus from August 10, 1990, until it plunged into the Venusian atmosphere on October 12, 1994. Magellan had the objectives of (1) improving knowledge of the geologic processes, surface properties, and geologic history of Venus by analysis of surface radar characteristics, topography, and morphology and (2) improving knowledge of the geophysics of Venus by analysis of Venusian gravity. The Magellan spacecraft carried a 12.6-cm radar system to map the surface of Venus. The transmitter and receiver systems were used to collect three datasets: synthetic aperture radar (SAR) images of the surface, passive microwave thermal emission observations, and measurements of the backscattered power at small angles of incidence, which were processed to yield altimetric data. Radar imaging and altimetric and radiometric mapping of the Venusian surface were done in mission cycles 1, 2, and 3, from September 1990 until September 1992. Ninety-eight percent of the surface was mapped with radar resolution of approximately 120 meters. The SAR observations were projected to a 75-m nominal horizontal resolution; these full-resolution data compose the image base used in geologic mapping. The primary polarization mode was horizontal-transmit, horizontal-receive (HH), but additional data for selected areas were collected for the vertical polarization sense. Incidence angles varied from about 20? to 45?. High-resolution Doppler tracking of the spacecraft was done from September 1992 through October 1994 (mission cycles 4, 5, 6). High-resolution gravity observations from about 950 orbits were obtained between September 1992 and May 1993, while Magellan was in an elliptical orbit with a periapsis near 175 kilometers and an apoapsis near 8,000 kilometers. Observations from an additional 1,500 orbits were obtained following orbitcircularization in mid-1993. These data exist as a 75? by 75? harmonic field.

Fine Mapping and Cloning of Leafy Head Mutant Gene pla1-5 in Rice

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Gong-neng FENG

2013-09-01

Full Text Available We identified a leafy head mutant pla1-5 (plastochron 1-5 from the progeny of japonica rice cultivar Taipei 309 treated with 60Co-γ ray irradiation. The pla1-5 mutant has a dwarf phenotype and small leaves. Compared with its wild type, pla1-5 has more leaves and fewer tillers, and it fails to produce normal panicles at the maturity stage. Genetic analysis showed that the pla1-5 phenotype is controlled by a single recessive nuclear gene. Using the map-based cloning strategy, we narrowed down the location of the target gene to a 58-kb region between simple sequence repeat markers CHR1027 and CHR1030 on the long arm of chromosome 10. The target gene cosegregated with molecular markers CHR1028 and CHR1029. There were five predicted genes in the mapped region. The results from sequencing analysis revealed that there was one base deletion in the first exon of LOC_Os10g26340 encoding cytochrome P450 CYP78A11 in the pla1-5 mutant, which might result in a downstream frame shift and premature termination. These results suggest that the P450 CYP78A11 gene is the candidate gene of PLA1-5.

Notes on English used as a lingua franca as an object of study

DEFF Research Database (Denmark)

Mortensen, Janus

2013-01-01

This article discusses how English used as a lingua franca (ELF) can be defined as an object of study. It offers a critical appraisal of a high-profile definition of ELF (the VOICE/Seidlhofer definition), and argues that definitions of this kind, whether purposely or not, in effect invite...... approach to the conceptualization of ELF where ELF is defined in straightforward functional terms as the use of English in a lingua franca language scenario. This definition underscores the complexity and breadth of ELF as an object of study, and highlights that researchers in the field of ELF studies need...

Occupational exposure to extremely low frequency magnetic fields and brain tumour risks in the INTEROCC study

Science.gov (United States)

Turner, Michelle C; Benke, Geza; Bowman, Joseph D; Figuerola, Jordi; Fleming, Sarah; Hours, Martine; Kincl, Laurel; Krewski, Daniel; McLean, Dave; Parent, Marie-Elise; Richardson, Lesley; Sadetzki, Siegal; Schlaefer, Klaus; Schlehofer, Brigitte; Schüz, Joachim; Siemiatycki, Jack; van Tongeren, Martie; Cardis, Elisabeth

2014-01-01

Background Occupational exposure to extremely low frequency magnetic fields (ELF) is a suspected risk factor for brain tumours, however the literature is inconsistent. Few studies have assessed whether ELF in different time windows of exposure may be associated with specific histologic types of brain tumours. This study examines the association between ELF and brain tumours in the large-scale INTEROCC study. Methods Cases of adult primary glioma and meningioma were recruited in seven countries (Australia, Canada, France, Germany, Israel, New Zealand, United Kingdom) between 2000 and 2004. Estimates of mean workday ELF exposure based on a job exposure matrix assigned. Estimates of cumulative exposure, average exposure, maximum exposure, and exposure duration were calculated for the lifetime, and 1–4, 5–9, and 10+ years prior to the diagnosis/reference date. Results There were 3,761 included brain tumour cases (1,939 glioma, 1,822 meningioma) and 5,404 population controls. There was no association between lifetime cumulative ELF exposure and glioma or meningioma risk. However, there were positive associations between cumulative ELF 1–4 years prior to the diagnosis/reference date and glioma (odds ratio (OR) ≥ 90th percentile vs Occupational ELF exposure may play a role in the later stages (promotion and progression) of brain tumourigenesis. PMID:24935666

Flood-inundation maps for a 6.5-mile reach of the Kentucky River at Frankfort, Kentucky

Science.gov (United States)

Lant, Jeremiah G.

2013-01-01

Digital flood-inundation maps for a 6.5-mile reach of Kentucky River at Frankfort, Kentucky, were created by the U.S. Geological Survey (USGS) in cooperation with the City of Frankfort Office of Emergency Management. The inundation maps, which can be accessed through the USGS Flood Inundation Mapping Science Web site at http://water.usgs.gov/osw/flood_inundation/, depict estimates of the areal extent and depth of flooding corresponding to selected water levels (stages) at the USGS streamgage Kentucky River at Lock 4 at Frankfort, Kentucky (station no. 03287500). Current conditions for the USGS streamgage may be obtained online at the USGS National Water Information System site (http://waterdata.usgs.gov/nwis/inventory?agency_code=USGS&site_no=03287500). In addition, the information has been provided to the National Weather Service (NWS) for incorporation into their Advanced Hydrologic Prediction Service (AHPS) flood warning system (http:/water.weather.gov/ahps/). The NWS forecasts flood hydrographs at many places that are often colocated at USGS streamgages. The forecasted peak-stage information, also available on the Internet, may be used in conjunction with the maps developed in this study to show predicted areas of flood inundation. In this study, flood profiles were computed for the Kentucky River reach by using HEC–RAS, a one-dimensional step-backwater model developed by the U.S. Army Corps of Engineers. The hydraulic model was calibrated by using the most current (2013) stage-discharge relation for the Kentucky River at Lock 4 at Frankfort, Kentucky, in combination with streamgage and high-water-mark measurements collected for a flood event in May 2010. The calibrated model was then used to calculate 26 water-surface profiles for a sequence of flood stages, at 1-foot intervals, referenced to the streamgage datum and ranging from a stage near bankfull to the elevation that breached the levees protecting the City of Frankfort. To delineate the flooded area at

Spatial Mapping of NEO 2008 EV5 Using Small Satellite Formation Flying and Steresoscopic Technology

Science.gov (United States)

Gonzalez, Juan; Singh Derewa, Chrishma

2016-10-01

NASA is currently developing the first-ever robotic Asteroid Redirect Robotic Mission (ARRM) to the near-Earth asteroid 2008 EV5 with the objective to capture a multi-ton boulder from the asteroids surface and use its mass to redirect its parent into a CIS lunar orbit where astronauts will study its physical and chemical composition.A critical step towards achieving this mission is to effectively map the target asteroid, identify the candidate boulder for retrieval and characterize its critical parameters. Currently, ARRM utilizes a laser altimeter to characterize the height of the boulders and mapping for final autonomous control of the capture. The proposed Lava-Kusha mission provides the increased of stereoscopic imaging and mapping, not only the Earthward side of the asteroid which has been observed for possible landing sites, but mapping the whole asteroid. LKM will enhance the fidelity of the data collected by the laser altimeter and gather improved topographic data for future Orion missions to 2008 EV5 once in cis lunar space.LKM consists of two low cost small satellites (6U) as a part of the ARRM. They will launch with ARRM as an integrated part of the system. Once at the target, this formation of pathfinder satellites will image the mission critical boulder to ensure the system design can support its removal. LKM will conduct a series of flybys prior to ARRM's rendezvous. LKMs stereoscopic cameras will provide detailed surveys of the boulder's terrain and environment to ensure ARRM can operate safely, reach the location and interface with the boulder. The LKM attitude control and cold gas propulsion system will enable formation maintenance maneuvers for global mapping of asteroid 2008 EV5 at an altitude of 100 km to a high-spatial resolution imaging altitude of 5 km.LKM will demonstrate formation flying in deep space and the reliability of stereoscopic cameras to precisely identify a specific target and provide physical characterization of an asteroid. An

A Progressive Buffering Method for Road Map Update Using OpenStreetMap Data

Directory of Open Access Journals (Sweden)

Changyong Liu

2015-07-01

Full Text Available Web 2.0 enables a two-way interaction between servers and clients. GPS receivers become available to more citizens and are commonly found in vehicles and smart phones, enabling individuals to record and share their trajectory data on the Internet and edit them online. OpenStreetMap (OSM makes it possible for citizens to contribute to the acquisition of geographic information. This paper studies the use of OSM data to find newly mapped or built roads that do not exist in a reference road map and create its updated version. For this purpose, we propose a progressive buffering method for determining an optimal buffer radius to detect the new roads in the OSM data. In the next step, the detected new roads are merged into the reference road maps geometrically, topologically, and semantically. Experiments with OSM data and reference road maps over an area of 8494 km2 in the city of Wuhan, China and five of its 5 km × 5 km areas are conducted to demonstrate the feasibility and effectiveness of the method. It is shown that the OSM data can add 11.96% or a total of 2008.6 km of new roads to the reference road maps with an average precision of 96.49% and an average recall of 97.63%.

Testing mapping algorithms of the cancer-specific EORTC QLQ-C30 onto EQ-5D in malignant mesothelioma

NARCIS (Netherlands)

D.T. Arnold (David); D. Rowen (Donna); M.M. Versteegh (Matthijs); A. Morley (Anna); C.E. Hooper (Clare); N.A. Maskell (Nicholas)

2015-01-01

markdownabstract__Background:__ In order to estimate utilities for cancer studies where the EQ-5D was not used, the EORTC QLQ-C30 can be used to estimate EQ-5D using existing mapping algorithms. Several mapping algorithms exist for this transformation, however, algorithms tend to lose accuracy in

Isolation, characterization, and mapping of gene encoding dihydrolipoyl succinyltransferase (E2k) of human [alpha]-ketoglutarate dehydrogenase complex

Energy Technology Data Exchange (ETDEWEB)

Ali, G.; Cai, Xingang; Sheu, Kwan-Fu R.; Blass, J.P. (Cornell Univ. Medical College, White Plains, NY (United States)); Wasco, W.; Gaston, S.M.; Tanzi, R.E.; Cooper, A.J.L.; Gusella, J.F. (Massachusetts General Hospital, Charleston, MA (United States)); Szabo, P. (Cornell Univ. Medical College, New York, NY (United States))

1994-03-01

The authors have isolated and sequenced cDNAs representing the full-length (2987-bp) gene for dihydrolipoyl succinyltransferase (E2k component) of the human [alpha]-ketoglutarate dehydrogenase complex (KHDHC) from a human fetal brain cDNA library. The E2k cDNA was mapped to human chromosome 14 using a somatic cell hybrid panel, and more precisely to band 14q24.3 by in situ hybridization. This cDNA also cross-hybridized to an apparent E2k pseudogene on chromosome 1p31. Northern analysis revealed the E2k gene to be ubiquitously expressed in peripheral tissues and brain. Interestingly, chromosome 14q24.3 has recently been reported to contain gene defects for an early-onset form of familial Alzheimer's disease and for Machado-Joseph disease. Future studies will be necessary to determine whether the E2K gene plays a role in either of these two disorders.

Mapping of multi-floor buildings: A barometric approach

DEFF Research Database (Denmark)

Özkil, Ali Gürcan; Fan, Zhun; Xiao, Jizhong

2011-01-01

This paper presents a new method for mapping multi5floor buildings. The method combines laser range sensor for metric mapping and barometric pressure sensor for detecting floor transitions and map segmentation. We exploit the fact that the barometric pressure is a function of the elevation......, and it varies between different floors. The method is tested with a real robot in a typical indoor environment, and the results show that physically consistent multi5floor representations are achievable....

Functional redundancy and/or ongoing pseudogenization among F-box protein genes expressed in Arabidopsis male gametophyte.

Science.gov (United States)

Ikram, Sobia; Durandet, Monique; Vesa, Simona; Pereira, Serge; Guerche, Philippe; Bonhomme, Sandrine

2014-06-01

F-box protein genes family is one of the largest gene families in plants, with almost 700 predicted genes in the model plant Arabidopsis. F-box proteins are key components of the ubiquitin proteasome system that allows targeted protein degradation. Transcriptome analyses indicate that half of these F-box protein genes are found expressed in microspore and/or pollen, i.e., during male gametogenesis. To assess the role of F-box protein genes during this crucial developmental step, we selected 34 F-box protein genes recorded as highly and specifically expressed in pollen and isolated corresponding insertion mutants. We checked the expression level of each selected gene by RT-PCR and confirmed pollen expression for 25 genes, but specific expression for only 10 of the 34 F-box protein genes. In addition, we tested the expression level of selected F-box protein genes in 24 mutant lines and showed that 11 of them were null mutants. Transmission analysis of the mutations to the progeny showed that none of the single mutations was gametophytic lethal. These unaffected transmission efficiencies suggested leaky mutations or functional redundancy among F-box protein genes. Cytological observation of the gametophytes in the mutants confirmed these results. Combinations of mutations in F-box protein genes from the same subfamily did not lead to transmission defect either, further highlighting functional redundancy and/or a high proportion of pseudogenes among these F-box protein genes.

Anti-proliferative effect of extremely low frequency electromagnetic field on preneoplastic lesions formation in the rat liver

International Nuclear Information System (INIS)

Jiménez-García, Mónica Noemí; Arellanes-Robledo, Jaime; Aparicio-Bautista, Diana Ivette; Rodríguez-Segura, Miguel Ángel; Villa-Treviño, Saúl; Godina-Nava, Juan José

2010-01-01

Recently, extremely low frequency electromagnetic fields (ELF-EMF) have been studied with great interest due to their possible effects on human health. In this study, we evaluated the effect of 4.5 mT - 120 Hz ELF-EMF on the development of preneoplastic lesions in experimental hepatocarcinogenesis. Male Fischer-344 rats were subjected to the modified resistant hepatocyte model and were exposed to 4.5 mT - 120 Hz ELF-EMF. The effects of the ELF-EMF on hepatocarcinogenesis, apoptosis, proliferation and cell cycle progression were evaluated by histochemical, TUNEL assay, caspase 3 levels, immunohistochemical and western blot analyses. The application of the ELF-EMF resulted in a decrease of more than 50% of the number and the area of γ-glutamyl transpeptidase-positive preneoplastic lesions (P = 0.01 and P = 0.03, respectively) and glutathione S-transferase placental expression (P = 0.01). The number of TUNEL-positive cells and the cleaved caspase 3 levels were unaffected; however, the proliferating cell nuclear antigen, Ki-67, and cyclin D1 expression decreased significantly (P ≤ 0.03), as compared to the sham-exposure group. The application of 4.5 mT - 120 Hz ELF-EMF inhibits preneoplastic lesions chemically induced in the rat liver through the reduction of cell proliferation, without altering the apoptosis process

Creating a conceptual hydrological soil response map for the ...

African Journals Online (AJOL)

2014-03-03

Mar 3, 2014 ... a digital soil mapping (DSM) approach to soil mapping can speed up the mapping process and thereby extend soil map use in the field of ... This research uses an expert-knowledge DSM approach to create a soil map for Stevenson Hamilton .... the different bands of the Landsat and SPOT 5 images.

Mapping of the DLQI scores to EQ-5D utility values using ordinal logistic regression.

Science.gov (United States)

Ali, Faraz Mahmood; Kay, Richard; Finlay, Andrew Y; Piguet, Vincent; Kupfer, Joerg; Dalgard, Florence; Salek, M Sam

2017-11-01

The Dermatology Life Quality Index (DLQI) and the European Quality of Life-5 Dimension (EQ-5D) are separate measures that may be used to gather health-related quality of life (HRQoL) information from patients. The EQ-5D is a generic measure from which health utility estimates can be derived, whereas the DLQI is a specialty-specific measure to assess HRQoL. To reduce the burden of multiple measures being administered and to enable a more disease-specific calculation of health utility estimates, we explored an established mathematical technique known as ordinal logistic regression (OLR) to develop an appropriate model to map DLQI data to EQ-5D-based health utility estimates. Retrospective data from 4010 patients were randomly divided five times into two groups for the derivation and testing of the mapping model. Split-half cross-validation was utilized resulting in a total of ten ordinal logistic regression models for each of the five EQ-5D dimensions against age, sex, and all ten items of the DLQI. Using Monte Carlo simulation, predicted health utility estimates were derived and compared against those observed. This method was repeated for both OLR and a previously tested mapping methodology based on linear regression. The model was shown to be highly predictive and its repeated fitting demonstrated a stable model using OLR as well as linear regression. The mean differences between OLR-predicted health utility estimates and observed health utility estimates ranged from 0.0024 to 0.0239 across the ten modeling exercises, with an average overall difference of 0.0120 (a 1.6% underestimate, not of clinical importance). This modeling framework developed in this study will enable researchers to calculate EQ-5D health utility estimates from a specialty-specific study population, reducing patient and economic burden.

Mapping MOS-HIV to HUI3 and EQ-5D-3L in Patients With HIV

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Vilija R. Joyce MS

2017-07-01

Full Text Available Objectives: The Medical Outcomes Study HIV Health Survey (MOS-HIV is frequently used in HIV clinical trials; however, scores generated from the MOS-HIV are not suited for cost-effectiveness analyses as they do not assign utility values to health states. Our objective was to estimate and externally validate several mapping algorithms to predict Health Utilities Index Mark 3 (HUI3 and EQ-5D-3L utility values from the MOS-HIV. Methods: We developed and validated mapping algorithms using data from two HIV clinical trials. Data from the first trial (n = 367 formed the estimation data set for the HUI3 (4,610 observations and EQ-5D-3L (4,662 observations mapping algorithms; data from the second trial (n = 168 formed the HUI3 (1,135 observations and EQ-5D-3L (1,152 observations external validation data set. We compared ordinary least squares (OLS models of increasing complexity with the more flexible two-part, beta regression, and finite mixture models. We assessed model performance using mean absolute error (MAE and mean squared error (MSE. Results: The OLS model that used MOS-HIV dimension scores along with squared terms gave the best HUI3 predictions (mean observed 0.84; mean predicted 0.80; MAE 0.0961; the finite mixture model gave the best EQ-5D-3L predictions (mean observed 0.90; mean predicted 0.88; MAE 0.0567. All models produced higher prediction errors at the lower end of the HUI3 and EQ-5D-3L score ranges (<0.40. Conclusions: The proposed mapping algorithms can be used to predict HUI3 and EQ-5D-3L utility values from the MOS-HIV, although greater error may pose a problem in samples where a substantial proportion of patients are in poor health. These algorithms may be useful for estimating utility values from the MOS-HIV for cost-effectiveness studies when HUI3 or EQ-5D-3L data are not available.

Effects on g2/m phase cell cycle distribution and aneuploidy formation of exposure to a 60 Hz electromagnetic field in combination with ionizing radiation or hydrogen peroxide in l132 nontumorigenic human lung epithelial cells.

Science.gov (United States)

Jin, Hee; Yoon, Hye Eun; Lee, Jae-Seon; Kim, Jae-Kyung; Myung, Sung Ho; Lee, Yun-Sil

2015-03-01

The aim of the present study was to assess whether exposure to the combination of an extremely low frequency magnetic field (ELF-MF; 60 Hz, 1 mT or 2 mT) with a stress factor, such as ionizing radiation (IR) or H2O2, results in genomic instability in non-tumorigenic human lung epithelial L132 cells. To this end, the percentages of G2/M-arrested cells and aneuploid cells were examined. Exposure to 0.5 Gy IR or 0.05 mM H2O2 for 9 h resulted in the highest levels of aneuploidy; however, no cells were observed in the subG1 phase, which indicated the absence of apoptotic cell death. Exposure to an ELF-MF alone (1 mT or 2 mT) did not affect the percentages of G2/M-arrested cells, aneuploid cells, or the populations of cells in the subG1 phase. Moreover, when cells were exposed to a 1 mT or 2 mT ELF-MF in combination with IR (0.5 Gy) or H2O2 (0.05 mM), the ELF-MF did not further increase the percentages of G2/M-arrested cells or aneuploid cells. These results suggest that ELF-MFs alone do not induce either G2/M arrest or aneuploidy, even when administered in combination with different stressors.

Geologic map of the Sunshine 7.5' quadrangle, Taos County, New Mexico

Science.gov (United States)

Thompson, Ren A.; Turner, Kenzie J.; Shroba, Ralph R.; Cosca, Michael A.; Ruleman, Chester A.; Lee, John P.; Brandt, Theodore R.

2014-01-01

The Sunshine 7.5' quadrangle is located in the south-central part of the San Luis Basin of northern New Mexico, in the Rio Grande del Norte National Monument, and contains deposits that record volcanic, tectonic, and associated alluvial and colluvial processes over the past four million years. Sunshine Valley, named for the small locale of Sunshine, is incised by a series of northeast-trending drainages cut into Tertiary and Quaternary alluvial deposits forming an extensive alluvial apron between the east flank of the Sangre de Cristo Mountains and the Rio Grande. These deposits predominantly overlie gently eastward-dipping lava flows of Pliocene Servilleta Basalt erupted from centers west of the map area. Servilleta Basalt lava flows terminate to the south against the elevated topography of three volcanic centers of the Taos Plateau volcanic field. From west to east these are Cerro de la Olla, Cerro Chiflo, and Guadalupe Mountain that are exposed in the southern part of the map area. Remnants of Miocene volcanic rocks are exposed near the southwestern edge of the map area and record evidence of an eroded volcanic terrain underlying deposits of the Taos Plateau volcanic field. These deposits are likely fault bounded to the east, roughly coincident with north to northwest trending, down-to-east faults in the southwestern quarter of the map area. The down-to-east normal faults reflect the basinward migration of the western margin of the Sunshine Valley sub-basin of the southern San Luis Basin.

Oxidative and antioxidative responses in submandibular and parotid glands of rats exposed to long-term extremely low frequency magnetic field

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Mehmet Akdağ

2014-06-01

Full Text Available Background: Some epidemiologic and laboratory studies have suggested a possible associations between exposure to extremely low frequency magnetic field (ELF-MF and cancer. However, it is not known underlying mechanisms of this interaction. The aim of the study was to investigate the possible oxidative damage induced by long-term ELF-MF exposure on submandibular and parotis glands of rats. Methods: Rats in the experimental group were exposed to 100 and 500 µT ELF-MF (2 h/day, 7 days/week, for 10 months corresponding to exposure levels that are considered safe for humans. The same experimental procedures were applied to the sham group, but the ELF generator was turned off. The levels of catalase (CAT, malondialdehyde (MDA, myeloperoxidase (MPO, total antioxidative capacity (TAC, total oxidant status (TOS, and oxidative stress index (OSI were measured in rat submandibular and parotis gland. Results: Although some oxidative and antioxidative parameters of submandibular gland were altered by ELF-100 and ELF-500 exposure groups, these changes were not statistically significant ( p >0.05. However, a decrease observed in CAT levels of parotid gland in both the ELF-100 and ELF-500 exposure groups (p0.05. Conclusions: Our results showed that long-term ELF-MF exposure did not alter oxidative, antioxidative processes and lipid peroxidation in submandibular gland of rats. However, 100 µT and 500 µT ELF-MF exposure decreased CAT activity in parotid gland. J Clin Exp Invest 2014; 5 (2: 219-225

Mapping EORTC QLQ-C30 onto EQ-5D for the assessment of cancer patients

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Kim Seon Ha

2012-12-01

Full Text Available Abstract Background The European Organisation for Research and Treatment of Cancer Quality of Life Questionnaire Core 30 (EORTC QLQ-C30 is the instrument most frequently used to measure quality of life in cancer patients, whereas the EQ-5D is widely used to measure and evaluate general health status. Although the EORTC QLQ-C30 has been mapped to EQ-5D utilities, those studies were limited to patients with a single type of cancer. The present study aimed to develop a mapping relationship between the EORTC QLQ-C30 and EQ-5D-based utility values at the individual level. Methods The model was derived using patients with different types of cancer who were receiving chemotherapy. The external validation set comprised outpatients with colon cancer. Ordinary least squares regression was used to estimate the EQ-5D index from the EORTC QLQ-C30 results. The predictability, goodness of fit, and signs of the estimated coefficients of the model were assessed. Predictive ability was determined by calculating the mean absolute error, the estimated proportions with absolute errors > 0.05 and > 0.1, and the root-mean-squared error (RMSE. Results A model that included global health, physical, role, emotional functions, and pain was optimal, with a mean absolute error of 0.069 and an RMSE of 0.095 (normalized RMSE, 8.1%. The explanatory power of this model was 51.6%. The mean absolute error was higher for modeled patients in poor health. Conclusions This mapping algorithm enabled the EORTC QLQ-C30 to be converted to the EQ-5D utility index to assess cancer patients in Korea.

Accuracy of the Enhanced Liver Fibrosis Test vs FibroTest, Elastography, and Indirect Markers in Detection of Advanced Fibrosis in Patients With Alcoholic Liver Disease.

Science.gov (United States)

Thiele, Maja; Madsen, Bjørn Stæhr; Hansen, Janne Fuglsang; Detlefsen, Sönke; Antonsen, Steen; Krag, Aleksander

2018-04-01

Alcohol is the leading cause of cirrhosis and liver-related mortality, but we lack serum markers to detect compensated disease. We compared the accuracy of the Enhanced Liver Fibrosis test (ELF), the FibroTest, liver stiffness measurements (made by transient elastography and 2-dimensional shear-wave elastography), and 6 indirect marker tests in detection of advanced liver fibrosis (Kleiner stage ≥F3). We performed a prospective study of 10 liver fibrosis markers (patented and not), all performed on the same day. Patients were recruited from primary centers (municipal alcohol rehabilitation, n = 128; 6% with advanced fibrosis) and secondary health care centers (hospital outpatient clinics, n = 161; 36% with advanced fibrosis) in the Region of Southern Denmark from 2013 through 2016. Biopsy-verified fibrosis stage was used as the reference standard. The primary aim was to validate ELF in detection of advanced fibrosis in patients with alcoholic liver disease recruited from primary and secondary health care centers, using the literature-based cutoff value of 10.5. Secondary aims were to assess the diagnostic accuracy of ELF for significant fibrosis and cirrhosis and to determine whether combinations of fibrosis markers increase diagnostic yield. The ELF identified patients with advanced liver fibrosis with an area under the receiver operating characteristic curve (AUROC) of 0.92 (95% confidence interval 0.89-0.96); findings did not differ significantly between patients from primary vs secondary care (P = .917). ELF more accurately identified patients with advanced liver fibrosis than indirect marker tests, but ELF and FibroTest had comparable diagnostic accuracies (AUROC of FibroTest, 0.90) (P = .209 for comparison with ELF). Results from the ELF and FibroTest did not differ significantly from those of liver stiffness measurement in intention-to-diagnose analyses (AUROC for transient elastography, 0.90), but did differ in the per-protocol analysis (AUROC for

Acyl-CoA-binding protein/diazepam-binding inhibitor gene and pseudogenes

DEFF Research Database (Denmark)

Mandrup, S; Hummel, R; Ravn, S

1992-01-01

modulator of the GABAA receptor in brain membranes. ACBP/DBI, or proteolytically derived polypeptides of ACBP/DBI, have also been implicated in the control of steroidogenesis in mitochondria and glucose-stimulated insulin secretion. Thus, it appears that ACBP/DBI is a remarkable, versatile protein. Now we....... There is a remarkable correspondence between the structural modules of ACBP/DBI as determined by 1H nuclear magnetic resonance spectroscopy and the exon-intron architecture of the ACBP/DBI gene. Detailed analyses of transcription of the ACBP/DBI gene in brain and liver were performed to map transcription initiation...... sites and to examine if transcripts from the ACBP/DBI gene were subject to alternative processing. In both brain and liver, transcription is initiated from two major and multiple minor initiation sites. No evidence for alternative splicing was obtained. The promoter region of the ACBP/DBI gene...

A recombination point is conserved in the mitochondrial genome of higher plant species and located downstream from the cox2 pseudogene in Solanum tuberosum L.

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Susely F.S. Tada

2006-01-01

Full Text Available The potato (Solanum tuberosum L. mitochondrial cox3/sdh4/pseudo-cox2 gene cluster has previously been identified by heterologous hybridization using a Marchantia polymorpha sdh4 probe. In our present study we used Southern blotting using sdh4 and cox2 probes to show that the sdh4 and cox2 genes are clustered in the mitochondria of potato, soybean and pea. Northern blotting revealed cotranscription of sdh4 and cox2 in potato but not in cauliflower, indicating that these genes are not clustered in cauliflower. A putative recombination point was detected downstream of the cox2 pseudogene (pseudo-cox2 in potato mitochondrial DNA (mtDNA. This sequence corresponds to a 32 bp sequence which appears to be well-conserved and is adjacent to the terminals of some mitochondrial genes in Citrullus lanatus, Beta vulgaris and Arabidopsis thaliana and is probably involved in the genic rearrangements. It is possible the potato mtDNA pseudo-cox2 gene was generated by recombination during evolution in the same way as that of several other mitochondrial genes and remains as an inactive partial copy of the functional cox2 which was also detected in potato mtDNA.

Molecular dynamics-based refinement and validation for sub-5 Å cryo-electron microscopy maps.

Science.gov (United States)

Singharoy, Abhishek; Teo, Ivan; McGreevy, Ryan; Stone, John E; Zhao, Jianhua; Schulten, Klaus

2016-07-07

Two structure determination methods, based on the molecular dynamics flexible fitting (MDFF) paradigm, are presented that resolve sub-5 Å cryo-electron microscopy (EM) maps with either single structures or ensembles of such structures. The methods, denoted cascade MDFF and resolution exchange MDFF, sequentially re-refine a search model against a series of maps of progressively higher resolutions, which ends with the original experimental resolution. Application of sequential re-refinement enables MDFF to achieve a radius of convergence of ~25 Å demonstrated with the accurate modeling of β-galactosidase and TRPV1 proteins at 3.2 Å and 3.4 Å resolution, respectively. The MDFF refinements uniquely offer map-model validation and B-factor determination criteria based on the inherent dynamics of the macromolecules studied, captured by means of local root mean square fluctuations. The MDFF tools described are available to researchers through an easy-to-use and cost-effective cloud computing resource on Amazon Web Services.

Energetics and chemical bonding of the 1,3,5-tridehydrobenzene triradical and its protonated form

Energy Technology Data Exchange (ETDEWEB)

Hue Minh Thi Nguyen [Department of Chemistry, University of Leuven, Celestijnenlaan 200F, B-3001 Heverlee, Leuven (Belgium); Faculty of Chemistry, University of Education, Hanoi (Viet Nam); Hoeltzl, Tibor [Department of Chemistry, University of Leuven, Celestijnenlaan 200F, B-3001 Heverlee, Leuven (Belgium); Department of Inorganic Chemistry, University of Technology and Economics Gellert ter 4, H-1521-Budapest (Hungary); Gopakumar, G. [Department of Chemistry, University of Leuven, Celestijnenlaan 200F, B-3001 Heverlee, Leuven (Belgium); Veszpremi, Tamas [Department of Inorganic Chemistry, University of Technology and Economics Gellert ter 4, H-1521-Budapest (Hungary); Peeters, Jozef [Department of Chemistry, University of Leuven, Celestijnenlaan 200F, B-3001 Heverlee, Leuven (Belgium); Minh Tho Nguyen [Department of Chemistry, University of Leuven, Celestijnenlaan 200F, B-3001 Heverlee, Leuven (Belgium)], E-mail: minh.nguyen@chem.kuleuven.be

2005-09-19

Quantum chemical calculations were applied to investigate the electronic structure of the parent 1,3,5-tridehydrobenzene triradical (C{sub 6}H{sub 3}, TDB) and its anion (C{sub 6}H{sub 3}{sup -}), cation (C{sub 6}H{sub 3}{sup +}) and protonated form (C{sub 6}H{sub 4}{sup +}). Our results obtained using the state-averaged complete active space self-consistent-field (CASSCF) followed by second-order multi-state multi-configuration perturbation theory, MS-CASPT2, and MRMP2 in conjunction with the large ANO-L and 6-311++G(3df,2p) basis set, confirm and reveal the followings: (i) TDB has a doublet {sup 2}A{sub 1} ground state with a {sup 4}B{sub 2}-{sup 2}A{sub 1} energy gap of 29kcal/mol, (ii) the ground state of the C{sub 6}H{sub 3}{sup -} anion in the triplet {sup 3}B{sub 2} being 4kcal/mol below the {sup 1}A{sub 1} state. (iii) the electron affinity (EA), ionization energy (IE) and proton affinity (PA) are computed to be: EA=1.6eV, IE=7.2eV, PA=227kcal/mol using UB3LYP/6-311++G(3df,2p)+ZPE; standard heat of formation {delta}H{sub f(298K,1atm)}(TDB)=179+/-2kcal/mol was calculated with CBS-QB3 method. An atoms-in-molecules (AIM) analysis of the structure reveals that the topology of the electron density is similar in all compounds: hydrogens connect to a six-membered ring, except for the case of the {sup 2}A{sub 2} state of C{sub 6}H{sub 4}{sup +} (MBZ{sup +}) which is bicyclic with fused five- and three-membered rings. Properties of the chemical bonds were characterized with Electron Localization Function (ELF) analysis, as well as Wiberg indices, Laplacian and spin density maps. We found that the radicals form separate monosynaptic basins on the ELF space, however its pair character remains high. In the {sup 2}A{sub 1} state of TDB, the radical center is mainly localized on the C1 atom, while in the {sup 2}B{sub 2} state it is equally distributed between the C3 and C5 atoms and, due to the symmetry, in the {sup 4}B{sub 2} state the C1, C2 and C3 atoms have the same

MBARI Mapping AUV: A High-Resolution Deep Ocean Seafloor Mapping Capability

Science.gov (United States)

Caress, D. W.; Kirkwood, W. J.; Thomas, H.; McEwen, R.; Henthorn, R.; McGill, P.; Thompson, D.; Sibenac, M.; Jensen, S.; Shane, F.; Hamilton, A.

2005-05-01

The Monterey Bay Aquarium Research Institute (MBARI) is developing an autonomous seafloor mapping capability for deep ocean science applications. The MBARI Mapping AUV is a 0.53 m (21 in) diameter, 5.1 m (16.7 ft) long, Dorado-class vehicle designed to carry four mapping sonars. The primary sensor is a 200 kHz multibeam sonar producing swath bathymetry and sidescan. In addition, the vehicle carries 100 kHz and 410 kHz chirp sidescan sonars, and a 2-16 kHz sweep chirp subbottom profiler. Navigation and attitude data are obtained from an inertial navigation system (INS) incorporating a ring laser gyro and a 300 kHz Doppler velocity log (DVL). The vehicle also includes acoustic modem, ultra-short baseline navigation, and long-baseline navigation systems. The Mapping AUV is powered by 6 kWhr of Li-polymer batteries, providing expected mission duration of 12 hours at a typical speed of 1.5 m/s. All components of the vehicle are rated to 6000 m depth, allowing MBARI to conduct high-resolution mapping of the deep-ocean seafloor. The sonar package is also be mountable on ROV Ventana, allowing surveys at altitudes less than 20 m at topographically challenging sites. The vehicle was assembled and extensively tested during 2004; this year we are commencing operations for MBARI science projects while continuing the process of testing and integrating the complete suite of sensors and systems. MBARI is beginning to use this capability to observe the changing morphology of dynamic systems such as submarine canyons and active slumps, to map deep-water benthic habitats at resolutions comparable to ROV and submersible observations, to provide basemaps for ROV dives, and to provide high resolution bathymetry and subbottom profiles as part of a variety of projects requiring knowledge of the seafloor. We will present initial results from surveys in and around Monterey Canyon, including high resolution repeat surveys of four sites along the canyon axis.

ReactionMap: an efficient atom-mapping algorithm for chemical reactions.

Science.gov (United States)

Fooshee, David; Andronico, Alessio; Baldi, Pierre

2013-11-25

Large databases of chemical reactions provide new data-mining opportunities and challenges. Key challenges result from the imperfect quality of the data and the fact that many of these reactions are not properly balanced or atom-mapped. Here, we describe ReactionMap, an efficient atom-mapping algorithm. Our approach uses a combination of maximum common chemical subgraph search and minimization of an assignment cost function derived empirically from training data. We use a set of over 259,000 balanced atom-mapped reactions from the SPRESI commercial database to train the system, and we validate it on random sets of 1000 and 17,996 reactions sampled from this pool. These large test sets represent a broad range of chemical reaction types, and ReactionMap correctly maps about 99% of the atoms and about 96% of the reactions, with a mean time per mapping of 2 s. Most correctly mapped reactions are mapped with high confidence. Mapping accuracy compares favorably with ChemAxon's AutoMapper, versions 5 and 6.1, and the DREAM Web tool. These approaches correctly map 60.7%, 86.5%, and 90.3% of the reactions, respectively, on the same data set. A ReactionMap server is available on the ChemDB Web portal at http://cdb.ics.uci.edu .

Anti-proliferative effect of extremely low frequency electromagnetic field on preneoplastic lesions formation in the rat liver

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Villa-Treviño Saúl

2010-04-01

Full Text Available Abstract Background Recently, extremely low frequency electromagnetic fields (ELF-EMF have been studied with great interest due to their possible effects on human health. In this study, we evaluated the effect of 4.5 mT - 120 Hz ELF-EMF on the development of preneoplastic lesions in experimental hepatocarcinogenesis. Methods Male Fischer-344 rats were subjected to the modified resistant hepatocyte model and were exposed to 4.5 mT - 120 Hz ELF-EMF. The effects of the ELF-EMF on hepatocarcinogenesis, apoptosis, proliferation and cell cycle progression were evaluated by histochemical, TUNEL assay, caspase 3 levels, immunohistochemical and western blot analyses. Results The application of the ELF-EMF resulted in a decrease of more than 50% of the number and the area of γ-glutamyl transpeptidase-positive preneoplastic lesions (P = 0.01 and P = 0.03, respectively and glutathione S-transferase placental expression (P = 0.01. The number of TUNEL-positive cells and the cleaved caspase 3 levels were unaffected; however, the proliferating cell nuclear antigen, Ki-67, and cyclin D1 expression decreased significantly (P ≤ 0.03, as compared to the sham-exposure group. Conclusion The application of 4.5 mT - 120 Hz ELF-EMF inhibits preneoplastic lesions chemically induced in the rat liver through the reduction of cell proliferation, without altering the apoptosis process.

Mineralogical Mapping of the Av-5 Floronia Quadrangle of Asteroid 4 Vesta

Science.gov (United States)

Combe, J.-Ph.; Fulchinioni, M.; McCord, T. B.; Ammannito, E.; De Sanctis, M. C.; Nathues, A.; Capaccioni, F.; Frigeri, A.; Jaumann, R.; Le Corre, L.; Palomba, E.; Preusker, F.; Reddy, V.; Stephan, K.; Tosi, F.; Zambon, F.; Raymond, C. A.; Russell, C. T.

2012-04-01

Asteroid 4 Vesta is currently under investigation by NASA's Dawn orbiter. The Dawn Science Team is conducting mineralogical mapping of Vesta's surface in the form of 15 quadrangle maps, and here we report results from the mapping of Floronia quadrangle Av-5. The maps are based on the data acquired by the Visible and Infrared Mapping Spectrometer (VIR-MS) and the Framing Camera (FC) (De Sanctis et al., this meeting). This abstract is focused on the analysis of band ratios, as well as the depth and position of the 2-µm absorption band of pyroxenes, but additional information will be presented. Absorption band depth is sensitive to abundance, texture and multiple scattering effects. Absorption band position is controlled by composition, shorter wavelength positions indicate less Calcium (and more Magnesium) in pyroxenes. The inferred composition is compared with that of Howardite, Eucite and Diogenite meteorites (HEDs). Diogenites are Mg-rich with large orthopyroxene crystals suggesting formation in depth; Eucrites are Ca-poor pyroxene, with smaller crystals. Av-5 Floronia Quadrangle is located between ~20-66˚N and 270˚-360˚E. It covers a portion of the heavily-cratered northern hemisphere of Vesta, and part of it is in permanent night, until August 2012. Long shadows make the visualization of albedo variations difficult, because of limited effectiveness of photometric corrections. Most of the variations of the band depth at 2 µm are partly affected by illumination geometry in this area. Only regional tendencies are meaningful at this time of the analysis. The 2-µm absorption band depth seems to be deeper towards the south of the quadrangle, in particular to the south of Floronia crater. It is not possible to interpret the value of the band depth in the floor the craters because of the absence of direct sunlight. However, the illuminated rims seem to have a deeper 2-µm absorption band, as does the ejecta from an unnamed crater located further south, within

APOA5 Q97X Mutation Identified through homozygosity mapping causes severe hypertriglyceridemia in a Chilean consanguineous family

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Dussaillant Catalina

2012-11-01

Full Text Available Abstract Background Severe hypertriglyceridemia (HTG has been linked to defects in LPL, APOC2, APOA5, LMF1 and GBIHBP1 genes. However, a number of severe HTG cases are probably caused by as yet unidentified mutations. Very high triglyceride plasma levels (>112 mmol/L at diagnosis were found in two sisters of a Chilean consanguineous family, which is strongly suggestive of a recessive highly penetrant mutation. The aim of this study was to determine the genetic locus responsible for the severe HTG in this family. Methods We carried out a genome-wide linkage study with nearly 300,000 biallelic markers (Illumina Human CytoSNP-12 panel. Using the homozygosity mapping strategy, we searched for chromosome regions with excess of homozygous genotypes in the affected cases compared to non-affected relatives. Results A large homozygous segment was found in the long arm of chromosome 11, with more than 2,500 consecutive homozygous SNP shared by the proband with her affected sister, and containing the APOA5/A4/C3/A1 cluster. Direct sequencing of the APOA5 gene revealed a known homozygous nonsense Q97X mutation (p.Gln97Ter found in both affected sisters but not in non-affected relatives nor in a sample of unrelated controls. Conclusion The Q97X mutation of the APOA5 gene in homozygous status is responsible for the severe hypertriglyceridemia in this family. We have shown that homozygosity mapping correctly pinpointed the genomic region containing the gene responsible for severe hypertriglyceridemia in this consanguineous Chilean family.

APOA5 Q97X mutation identified through homozygosity mapping causes severe hypertriglyceridemia in a Chilean consanguineous family.

Science.gov (United States)

Dussaillant, Catalina; Serrano, Valentina; Maiz, Alberto; Eyheramendy, Susana; Cataldo, Luis Rodrigo; Chavez, Matías; Smalley, Susan V; Fuentes, Marcela; Rigotti, Attilio; Rubio, Lorena; Lagos, Carlos F; Martinez, José Alfredo; Santos, José Luis

2012-11-15

Severe hypertriglyceridemia (HTG) has been linked to defects in LPL, APOC2, APOA5, LMF1 and GBIHBP1 genes. However, a number of severe HTG cases are probably caused by as yet unidentified mutations. Very high triglyceride plasma levels (>112 mmol/L at diagnosis) were found in two sisters of a Chilean consanguineous family, which is strongly suggestive of a recessive highly penetrant mutation. The aim of this study was to determine the genetic locus responsible for the severe HTG in this family. We carried out a genome-wide linkage study with nearly 300,000 biallelic markers (Illumina Human CytoSNP-12 panel). Using the homozygosity mapping strategy, we searched for chromosome regions with excess of homozygous genotypes in the affected cases compared to non-affected relatives. A large homozygous segment was found in the long arm of chromosome 11, with more than 2,500 consecutive homozygous SNP shared by the proband with her affected sister, and containing the APOA5/A4/C3/A1 cluster. Direct sequencing of the APOA5 gene revealed a known homozygous nonsense Q97X mutation (p.Gln97Ter) found in both affected sisters but not in non-affected relatives nor in a sample of unrelated controls. The Q97X mutation of the APOA5 gene in homozygous status is responsible for the severe hypertriglyceridemia in this family. We have shown that homozygosity mapping correctly pinpointed the genomic region containing the gene responsible for severe hypertriglyceridemia in this consanguineous Chilean family.

Mitochondrial DNA as a non-invasive biomarker: Accurate quantification using real time quantitative PCR without co-amplification of pseudogenes and dilution bias

International Nuclear Information System (INIS)

Malik, Afshan N.; Shahni, Rojeen; Rodriguez-de-Ledesma, Ana; Laftah, Abas; Cunningham, Phil

2011-01-01

Highlights: → Mitochondrial dysfunction is central to many diseases of oxidative stress. → 95% of the mitochondrial genome is duplicated in the nuclear genome. → Dilution of untreated genomic DNA leads to dilution bias. → Unique primers and template pretreatment are needed to accurately measure mitochondrial DNA content. -- Abstract: Circulating mitochondrial DNA (MtDNA) is a potential non-invasive biomarker of cellular mitochondrial dysfunction, the latter known to be central to a wide range of human diseases. Changes in MtDNA are usually determined by quantification of MtDNA relative to nuclear DNA (Mt/N) using real time quantitative PCR. We propose that the methodology for measuring Mt/N needs to be improved and we have identified that current methods have at least one of the following three problems: (1) As much of the mitochondrial genome is duplicated in the nuclear genome, many commonly used MtDNA primers co-amplify homologous pseudogenes found in the nuclear genome; (2) use of regions from genes such as β-actin and 18S rRNA which are repetitive and/or highly variable for qPCR of the nuclear genome leads to errors; and (3) the size difference of mitochondrial and nuclear genomes cause a 'dilution bias' when template DNA is diluted. We describe a PCR-based method using unique regions in the human mitochondrial genome not duplicated in the nuclear genome; unique single copy region in the nuclear genome and template treatment to remove dilution bias, to accurately quantify MtDNA from human samples.

Vaccination with peptides of Mycobacterium avium subsp. paratuberculosis (MAP) reduces MAP burden of infected goats

DEFF Research Database (Denmark)

Melvang, Heidi Mikkelsen; Hassan, Sufia Butt; Thakur, Aneesh

Mycobacterium avium subsp. paratuberculosis (Map) is the cause of paratuberculosis, a chronic enteritis of ruminants that is widespread worldwide. We investigated the effect of post-exposure vaccination with Map specific peptides in a goat model aiming at developing a Map vaccine that will neither...... unique to Map from selected proteins (n =68). For vaccination, 23 MAP peptides (20 µg each) were selected and formulated with Montanide ISA 61 VG adjuvant. At age three weeks 10 goats were orally inoculated with 4x10E9 live Map and assigned to two groups of 5 goats each: 5 vaccinated (V) at 14 and 18...... weeks post inoculation (PI) and 5 unvaccinated (C). At termination 32 weeks PI, Map burdens in 15 intestinal tissues and lymph nodes were determined by IS900 qPCR. Of the 75 tissue samples from the 5 C goats only 5 samples were IS900 qPCR negative. In contrast, only 9 samples in total from 5 V goats...

USGS Map Indices Overlay Map Service from The National Map

Data.gov (United States)

U.S. Geological Survey, Department of the Interior — The USGS Map Indices service from The National Map (TNM) consists of 1x1 Degree, 30x60 Minute (100K), 15 Minute (63K), 7.5 Minute (24K), and 3.75 Minute grid...

Immunoglobulin Genomics in the Guinea Pig (Cavia porcellus)

Science.gov (United States)

Guo, Yongchen; Bao, Yonghua; Meng, Qingwen; Hu, Xiaoxiang; Meng, Qingyong; Ren, Liming; Li, Ning; Zhao, Yaofeng

2012-01-01

In science, the guinea pig is known as one of the gold standards for modeling human disease. It is especially important as a molecular and cellular biology model for studying the human immune system, as its immunological genes are more similar to human genes than are those of mice. The utility of the guinea pig as a model organism can be further enhanced by further characterization of the genes encoding components of the immune system. Here, we report the genomic organization of the guinea pig immunoglobulin (Ig) heavy and light chain genes. The guinea pig IgH locus is located in genomic scaffolds 54 and 75, and spans approximately 6,480 kb. 507 VH segments (94 potentially functional genes and 413 pseudogenes), 41 DH segments, six JH segments, four constant region genes (μ, γ, ε, and α), and one reverse δ remnant fragment were identified within the two scaffolds. Many VH pseudogenes were found within the guinea pig, and likely constituted a potential donor pool for gene conversion during evolution. The Igκ locus mapped to a 4,029 kb region of scaffold 37 and 24 is composed of 349 Vκ (111 potentially functional genes and 238 pseudogenes), three Jκ and one Cκ genes. The Igλ locus spans 1,642 kb in scaffold 4 and consists of 142 Vλ (58 potentially functional genes and 84 pseudogenes) and 11 Jλ -Cλ clusters. Phylogenetic analysis suggested the guinea pig’s large germline VH gene segments appear to form limited gene families. Therefore, this species may generate antibody diversity via a gene conversion-like mechanism associated with its pseudogene reserves. PMID:22761756

Cross-terminology mapping challenges: A demonstration using medication terminological systems

Science.gov (United States)

Saitwal, Himali; Qing, David; Jones, Stephen; Bernstam, Elmer; Chute, Christopher G.; Johnson, Todd R.

2015-01-01

Standardized terminological systems for biomedical information have provided considerable benefits to biomedical applications and research. However, practical use of this information often requires mapping across terminological systems—a complex and time-consuming process. This paper demonstrates the complexity and challenges of mapping across terminological systems in the context of medication information. It provides a review of medication terminological systems and their linkages, then describes a case study in which we mapped proprietary medication codes from an electronic health record to SNOMED-CT and the UMLS Metathesaurus. The goal was to create a polyhierarchical classification system for querying an i2b2 clinical data warehouse. We found that three methods were required to accurately map the majority of actively prescribed medications. Only 62.5% of source medication codes could be mapped automatically. The remaining codes were mapped using a combination of semi-automated string comparison with expert selection, and a completely manual approach. Compound drugs were especially difficult to map: only 7.5% could be mapped using the automatic method. General challenges to mapping across terminological systems include (1) the availability of up-to-date information to assess the suitability of a given terminological system for a particular use case, and to assess the quality and completeness of cross-terminology links; (2) the difficulty of correctly using complex, rapidly evolving, modern terminologies; (3) the time and effort required to complete and evaluate the mapping; (4) the need to address differences in granularity between the source and target terminologies; and (5) the need to continuously update the mapping as terminological systems evolve. PMID:22750536

Napsin A levels in epithelial lining fluid as a diagnostic biomarker of primary lung adenocarcinoma.

Science.gov (United States)

Uchida, Akifumi; Samukawa, Takuya; Kumamoto, Tomohiro; Ohshige, Masahiro; Hatanaka, Kazuhito; Nakamura, Yoshihiro; Mizuno, Keiko; Higashimoto, Ikkou; Sato, Masami; Inoue, Hiromasa

2017-12-12

It is crucial to develop novel diagnostic approaches for determining if peripheral lung nodules are malignant, as such nodules are frequently detected due to the increased use of chest computed tomography scans. To this end, we evaluated levels of napsin A in epithelial lining fluid (ELF), since napsin A has been reported to be an immunohistochemical biomarker for histological diagnosis of primary lung adenocarcinoma. In consecutive patients with indeterminate peripheral lung nodules, ELF samples were obtained using a bronchoscopic microsampling (BMS) technique. The levels of napsin A and carcinoembryonic antigen (CEA) in ELF at the nodule site were compared with those at the contralateral site. A final diagnosis of primary lung adenocarcinoma was established by surgical resection. We performed BMS in 43 consecutive patients. Among patients with primary lung adenocarcinoma, the napsin A levels in ELF at the nodule site were markedly higher than those at the contralateral site, while there were no significant differences in CEA levels. Furthermore, in 18 patients who were undiagnosed by bronchoscopy and finally diagnosed by surgery, the napsin A levels in ELF at the nodule site were identically significantly higher than those at the contralateral site. In patients with non-adenocarcinoma, there were no differences in napsin A levels in ELF. The area under the receiver operator characteristic curve for identifying primary lung adenocarcinoma was 0.840 for napsin A and 0.542 for CEA. Evaluation of napsin A levels in ELF may be useful for distinguishing primary lung adenocarcinoma.

Mapping and characterization of wheat stem rust resistance genes SrTm5 and Sr60 from Triticum monococcum.

Science.gov (United States)

Chen, Shisheng; Guo, Yan; Briggs, Jordan; Dubach, Felix; Chao, Shiaoman; Zhang, Wenjun; Rouse, Matthew N; Dubcovsky, Jorge

2018-03-01

The new stem rust resistance gene Sr60 was fine-mapped to the distal region of chromosome arm 5A m S, and the TTKSK-effective gene SrTm5 could be a new allele of Sr22. The emergence and spread of new virulent races of the wheat stem rust pathogen (Puccinia graminis f. sp. tritici; Pgt), including the Ug99 race group, is a serious threat to global wheat production. In this study, we mapped and characterized two stem rust resistance genes from diploid wheat Triticum monococcum accession PI 306540. We mapped SrTm5, a previously postulated gene effective to Ug99, on chromosome arm 7A m L, completely linked to Sr22. SrTm5 displayed a different race specificity compared to Sr22 indicating that they are distinct. Sequencing of the Sr22 homolog in PI 306540 revealed a novel haplotype. Characterization of the segregating populations with Pgt race QFCSC revealed an additional resistance gene on chromosome arm 5A m S that was assigned the official name Sr60. This gene was also effective against races QTHJC and SCCSC but not against TTKSK (a Ug99 group race). Using two large mapping populations (4046 gametes), we mapped Sr60 within a 0.44 cM interval flanked by sequenced-based markers GH724575 and CJ942731. These two markers delimit a 54.6-kb region in Brachypodium distachyon chromosome 4 and a 430-kb region in the Chinese Spring reference genome. Both regions include a leucine-rich repeat protein kinase (LRRK123.1) that represents a potential candidate gene. Three CC-NBS-LRR genes were found in the colinear Brachypodium region but not in the wheat genome. We are currently developing a Bacterial Artificial Chromosome library of PI 306540 to determine which of these candidate genes are present in the T. monococcum genome and to complete the cloning of Sr60.

Simulated cosmic microwave background maps at 0.5 deg resolution: Unresolved features

Science.gov (United States)

Kogut, A.; Hinshaw, G.; Bennett, C. L.

1995-01-01

High-contrast peaks in the cosmic microwave background (CMB) anisotropy can appear as unresolved sources to observers. We fit simluated CMB maps generated with a cold dark matter model to a set of unresolved features at instrumental resolution 0.5 deg-1.5 deg to derive the integral number density per steradian n (greater than absolute value of T) of features brighter than threshold temperature absolute value of T and compare the results to recent experiments. A typical medium-scale experiment observing 0.001 sr at 0.5 deg resolution would expect to observe one feature brighter than 85 micro-K after convolution with the beam profile, with less than 5% probability to observe a source brighter than 150 micro-K. Increasing the power-law index of primordial density perturbations n from 1 to 1.5 raises these temperature limits absolute value of T by a factor of 2. The MSAM features are in agreement with standard cold dark matter models and are not necessarily evidence for processes beyond the standard model.

Rapid whole brain myelin water content mapping without an external water standard at 1.5T.

Science.gov (United States)

Nguyen, Thanh D; Spincemaille, Pascal; Gauthier, Susan A; Wang, Yi

2017-06-01

The objective of this study is to develop rapid whole brain mapping of myelin water content (MWC) at 1.5T. The Fast Acquisition with Spiral Trajectory and T2prep (FAST-T2) pulse sequence originally developed for myelin water fraction (MWF) mapping was modified to obtain fast mapping of T1 and receiver coil sensitivity needed for MWC computation. The accuracy of the proposed T1 mapping was evaluated by comparing with the standard IR-FSE method. Numerical simulations were performed to assess the accuracy and reliability of the proposed MWC mapping. We also compared MWC values obtained with either cerebrospinal fluid (CSF) or an external water tube attached to the subject's head as the water reference. Our results from healthy volunteers show that whole brain MWC mapping is feasible in 7min and provides accurate brain T1 values. Regional brain WC and MWC measurements obtained with the internal CSF-based water standard showed excellent correlation (R>0.99) and negligible bias within narrow limits of agreement compared to those obtained with an external water standard. Copyright © 2017 Elsevier Inc. All rights reserved.

A Microsatellite Genetic Map of the Turbot (Scophthalmus maximus)

Science.gov (United States)

Bouza, Carmen; Hermida, Miguel; Pardo, Belén G.; Fernández, Carlos; Fortes, Gloria G.; Castro, Jaime; Sánchez, Laura; Presa, Pablo; Pérez, Montse; Sanjuán, Andrés; de Carlos, Alejandro; Álvarez-Dios, José Antonio; Ezcurra, Susana; Cal, Rosa M.; Piferrer, Francesc; Martínez, Paulino

2007-01-01

A consensus microsatellite-based linkage map of the turbot (Scophthalmus maximus) was constructed from two unrelated families. The mapping panel was derived from a gynogenetic family of 96 haploid embryos and a biparental diploid family of 85 full-sib progeny with known linkage phase. A total of 242 microsatellites were mapped in 26 linkage groups, six markers remaining unlinked. The consensus map length was 1343.2 cM, with an average distance between markers of 6.5 ± 0.5 cM. Similar length of female and male maps was evidenced. However, the mean recombination at common intervals throughout the genome revealed significant differences between sexes, ∼1.6 times higher in the female than in the male. The comparison of turbot microsatellite flanking sequences against the Tetraodon nigroviridis genome revealed 55 significant matches, with a mean length of 102 bp and high sequence similarity (81–100%). The comparative mapping revealed significant syntenic regions among fish species. This study represents the first linkage map in the turbot, one of the most important flatfish in European aquaculture. This map will be suitable for QTL identification of productive traits in this species and for further evolutionary studies in fish and vertebrate species. PMID:18073440

Digital and preliminary bedrock geologic map of the Townshend 7.5 x 15 minute quadrangle, Vermont

Data.gov (United States)

Vermont Center for Geographic Information — Digital Data from VG98-335A Armstrong, T.R., and Ratcliffe, N.M., 1998, Digital and preliminary bedrock geologic map of the Townshend 7.5 x 15 minute quadrangle,...

Construction of a genetic linkage map in Lilium using a RIL mapping population based on SRAP marker

Directory of Open Access Journals (Sweden)

Chen Li-Jing

2015-01-01

Full Text Available A genetic linkage map of lily was constructed using RILs (recombinant inbred lines population of 180 individuals. This mapping population was developed by crossing Raizan No.1 (Formolongo and Gelria (Longiflomm cultivars through single-seed descent (SSD. SRAPs were generated by using restriction enzymes EcoRI in combination with either MseI. The resulting products were separated by electrophoresis on 6% denaturing polyacrylamide gel and visualized by silver staining. The segregation of each marker and linkage analysis was done using the program Mapmaker3.0. With 50 primer pairs, a total of 189 parental polymorphic bands were detected and 78 were used for mapping. The total map length was 2,135.5 cM consisted of 16 linkage groups. The number of markers in the linkage groups varied from 1 to 12. The length of linkage groups was range from 11.2 cM to 425.9 cM and mean marker interval distance range from 9.4 cM to 345.4 cM individually. The mean marker interval distance between markers was 27.4 cM. The map developed in the present study was the first sequence-related amplified polymorphism markers map of lily constructed with recombinant inbred lines, it could be used for genetic mapping and molecular marker assisted breeding and quantitative trait locus mapping of Lilium.

BAC-HAPPY mapping (BAP mapping: a new and efficient protocol for physical mapping.

Directory of Open Access Journals (Sweden)

Giang T H Vu

2010-02-01

Full Text Available Physical and linkage mapping underpin efforts to sequence and characterize the genomes of eukaryotic organisms by providing a skeleton framework for whole genome assembly. Hitherto, linkage and physical "contig" maps were generated independently prior to merging. Here, we develop a new and easy method, BAC HAPPY MAPPING (BAP mapping, that utilizes BAC library pools as a HAPPY mapping panel together with an Mbp-sized DNA panel to integrate the linkage and physical mapping efforts into one pipeline. Using Arabidopsis thaliana as an exemplar, a set of 40 Sequence Tagged Site (STS markers spanning approximately 10% of chromosome 4 were simultaneously assembled onto a BAP map compiled using both a series of BAC pools each comprising 0.7x genome coverage and dilute (0.7x genome samples of sheared genomic DNA. The resultant BAP map overcomes the need for polymorphic loci to separate genetic loci by recombination and allows physical mapping in segments of suppressed recombination that are difficult to analyze using traditional mapping techniques. Even virtual "BAC-HAPPY-mapping" to convert BAC landing data into BAC linkage contigs is possible.

Novel PMS2 Pseudogenes Can Conceal Recessive Mutations Causing a Distinctive Childhood Cancer Syndrome

OpenAIRE

De Vos, Michel; Hayward, Bruce E.; Picton, Susan; Sheridan, Eamonn; Bonthron, David T.

2004-01-01

We investigated a family with an autosomal recessive syndrome of café-au-lait patches and childhood malignancy, notably supratentorial primitive neuroectodermal tumor. There was no cancer predisposition in heterozygotes; nor was there bowel cancer in any individual. However, autozygosity mapping indicated linkage to a region of 7p22 surrounding the PMS2 mismatch-repair gene. Sequencing of genomic PCR products initially failed to identify a PMS2 mutation. Genome searches then revealed a previo...

Study of interaction of ELF-ULF range (0.1-200 Hz) electromagnetic waves with the earth's crust and the ionosphere in the field of industrial power transmission lines (FENICS experiment)

Science.gov (United States)

Zhamaletdinov, A. A.; Shevtsov, A. N.; Velikhov, E. P.; Skorokhodov, A. A.; Kolesnikov, V. E.; Korotkova, T. G.; Ryazantsev, P. A.; Efimov, B. V.; Kolobov, V. V.; Barannik, M. B.; Prokopchuk, P. I.; Selivanov, V. N.; Kopytenko, Yu. A.; Kopytenko, E. A.; Ismagilov, V. S.; Petrishchev, M. S.; Sergushin, P. A.; Tereshchenko, P. E.; Samsonov, B. V.; Birulya, M. A.; Smirnov, M. Yu.; Korja, T.; Yampolski, Yu. M.; Koloskov, A. V.; Baru, N. A.; Poljakov, S. V.; Shchennikov, A. V.; Druzhin, G. I.; Jozwiak, W.; Reda, J.; Shchors, Yu. G.

2015-12-01

This article is devoted to describing the theory, technique, and first experimental results of a control source electromagnetic (CSEM) study of the Earth's crust and ionosphere with the use of two mutually orthogonal industrial transmission lines 109 and 120 km in length in the frame of FENICS (Fennoscandian Electrical Conductivity from Natural and Induction Control Source Soundings) experiment. The main part of the measurements is executed on the territory of the Fennoscandian shield at distances from the first hundreds kilometers up to 856 km from the source with the purpose of the deep electromagnetic sounding of the Earth's crust and upper mantle. According to the results of these studies clarifying the parameters of "normal" (standard) geoelectric section of the lithosphere to a depth of 60-70 km, the anisotropy parameters are evaluated and a geothermal and rheological interpretation in conjunction with the analysis of the seismic data is executed. Furthermore, to study the propagation of ELF-LLF waves (0.1-200 Hz) in an "Earth-Ionosphere" waveguide, the measurements are carried out apart from Fennoscandian shield at distances up to 5600 km from the source (in Ukraine, Spitsbergen, Poland, Kamchatka, and other areas). According to the results of these studies, the experimental estimates of the influence of the ionosphere and of the displacement currents on the propagation of ELF-ULF waves in the upper half-space at the different azimuths generation of the primary field are obtained.

High-resolution gene maps of horse chromosomes 14 and 21: additional insights into evolution and rearrangements of HSA5 homologs in mammals.

Science.gov (United States)

Goh, Glenda; Raudsepp, Terje; Durkin, Keith; Wagner, Michelle L; Schäffer, Alejandro A; Agarwala, Richa; Tozaki, Teruaki; Mickelson, James R; Chowdhary, Bhanu P

2007-01-01

High-resolution physically ordered gene maps for equine homologs of human chromosome 5 (HSA5), viz., horse chromosomes 14 and 21 (ECA14 and ECA21), were generated by adding 179 new loci (131 gene-specific and 48 microsatellites) to the existing maps of the two chromosomes. The loci were mapped primarily by genotyping on a 5000-rad horse x hamster radiation hybrid panel, of which 28 were mapped by fluorescence in situ hybridization. The approximately fivefold increase in the number of mapped markers on the two chromosomes improves the average resolution of the map to 1 marker/0.9 Mb. The improved resolution is vital for rapid chromosomal localization of traits of interest on these chromosomes and for facilitating candidate gene searches. The comparative gene mapping data on ECA14 and ECA21 finely align the chromosomes to sequence/gene maps of a range of evolutionarily distantly related species. It also demonstrates that compared to ECA14, the ECA21 segment corresponding to HSA5 is a more conserved region because of preserved gene order in a larger number of and more diverse species. Further, comparison of ECA14 and the distal three-quarters region of ECA21 with corresponding chromosomal segments in 50 species belonging to 11 mammalian orders provides a broad overview of the evolution of these segments in individual orders from the putative ancestral chromosomal configuration. Of particular interest is the identification and precise demarcation of equid/Perissodactyl-specific features that for the first time clearly distinguish the origins of ECA14 and ECA21 from similar-looking status in the Cetartiodactyls.

Green synthesis of Fe nanoparticles using eucalyptus leaf extracts for treatment of eutrophic wastewater

International Nuclear Information System (INIS)

Wang, Ting; Jin, Xiaoying; Chen, Zuliang; Megharaj, Mallavarapu; Naidu, Ravendra

2014-01-01

Iron nanoparticles were firstly synthesized through a one-step room-temperature biosynthetic route using eucalyptus leaf extracts (EL-Fe NPs). Scanning electron microscopy (SEM) and X-ray energy-dispersive spectrometer (EDS) confirmed the successful synthesis of the spheroidal iron nanoparticles. Furthermore, X-ray diffraction (XRD) and Fourier Transform Infrared spectrometer (FTIR) indicated that some polyphenols are bound to the surfaces of EL-Fe NPs as a capping/stabilizing agent. Reactivity of EL-Fe NPs was evaluated for the treatment of swine wastewater and results indicated that 71.7% of total N and 84.5% of COD were removed, respectively. This demonstrated the tremendous potential of EL-Fe NPs for in situ remediation of eutrophic wastewater. - Highlights: •Fe NPs were firstly synthesized through a one-step using eucalyptus leaf extracts. •Fe NPs was evaluated by remediating swine wastewater. •71.7% of total N and 84.5% of COD was removed. •Fe NPs for in situ remediation of eutrophic wastewater

Green synthesis of Fe nanoparticles using eucalyptus leaf extracts for treatment of eutrophic wastewater

Energy Technology Data Exchange (ETDEWEB)

Wang, Ting; Jin, Xiaoying [School of Environmental Science and Engineering, Fujian Normal University, Fuzhou 350007, Fujian (China); Chen, Zuliang, E-mail: Zuliang.chen@unisa.edu.au [School of Environmental Science and Engineering, Fujian Normal University, Fuzhou 350007, Fujian (China); Centre for Environmental Risk Assessment and Remediation, University of South Australia, Mawson Lakes, SA 5095 (Australia); Cooperative Research Centre for Contamination Assessment and Remediation of Environments, Mawson Lakes, SA 5095 (Australia); Megharaj, Mallavarapu; Naidu, Ravendra [Centre for Environmental Risk Assessment and Remediation, University of South Australia, Mawson Lakes, SA 5095 (Australia); Cooperative Research Centre for Contamination Assessment and Remediation of Environments, Mawson Lakes, SA 5095 (Australia)

2014-01-01

Iron nanoparticles were firstly synthesized through a one-step room-temperature biosynthetic route using eucalyptus leaf extracts (EL-Fe NPs). Scanning electron microscopy (SEM) and X-ray energy-dispersive spectrometer (EDS) confirmed the successful synthesis of the spheroidal iron nanoparticles. Furthermore, X-ray diffraction (XRD) and Fourier Transform Infrared spectrometer (FTIR) indicated that some polyphenols are bound to the surfaces of EL-Fe NPs as a capping/stabilizing agent. Reactivity of EL-Fe NPs was evaluated for the treatment of swine wastewater and results indicated that 71.7% of total N and 84.5% of COD were removed, respectively. This demonstrated the tremendous potential of EL-Fe NPs for in situ remediation of eutrophic wastewater. - Highlights: •Fe NPs were firstly synthesized through a one-step using eucalyptus leaf extracts. •Fe NPs was evaluated by remediating swine wastewater. •71.7% of total N and 84.5% of COD was removed. •Fe NPs for in situ remediation of eutrophic wastewater.

Landsat 5 TM images and DEM in lithologic mapping of Payen Volcanic Field (Mendoza Province, Argentina)

International Nuclear Information System (INIS)

Fornaciai, A.; Bisson, M.; Mazzarini, F.; Del Carlo, P.; Pasquare, G.

2009-01-01

Satellite image such as Landsat 5 TM scene provides excellent representation of Earth and synoptic view of large geographic areas in different band combination. Landsat TM images allow automatic and semi-automatic classification of land cover, nevertheless the software frequently may some difficulties in distinguishing between similar radiometric surfaces. In this case, the use of Digital Elevation Model (DEM) can be an important tool to identify different surface covers. In this study, several False Color Composite (FCC) of Landsat 5 TM Image, DEM and the respective draped image of them, were used to delineate lithological boundaries and tectonic features of regional significance of the Paven Volcanic Field (PVF). PFV is a Quaternary fissural structure belonging to the black-arc extensional areas of the Andes in the Mendoza Province (Argentina) characterized by many composite basaltic lava flow fields. The necessity to identify different lava flows with the same composition, and then with same spectral features, allows to highlight the improvement of synergic use of TM images and shaded DEM in the visual interpretation. Information obtained from Satellite data and DEM have been compared with previous geological maps and transferred into a topographical base map. Based on these data a new lithological map at 1:100.000 scale has been presented [it

Delimitation of the Earliness per se D1 (Eps-D1) flowering gene to a subtelomeric chromosomal deletion in bread wheat (Triticum aestivum)

Science.gov (United States)

Zikhali, Meluleki; Wingen, Luzie U.; Griffiths, Simon

2016-01-01

Earliness per se (Eps) genes account for the variation in flowering time when vernalization and photoperiod requirements are satisfied. Genomics and bioinformatics approaches were used to describe allelic variation for 40 Triticum aestivum genes predicted, by synteny with Brachypodium distachyon, to be in the 1DL Eps region. Re-sequencing 1DL genes revealed that varieties carrying early heading alleles at this locus, Spark and Cadenza, carry a subtelomeric deletion including several genes. The equivalent region in Rialto and Avalon is intact. A bimodal distribution in the segregating Spark X Rialto single seed descent (SSD) populations enabled the 1DL QTL to be defined as a discrete Mendelian factor, which we named Eps-D1. Near isogenic lines (NILs) and NIL derived key recombinants between markers flanking Eps-D1 suggest that the 1DL deletion contains the gene(s) underlying Eps-D1. The deletion spans the equivalent of the Triticum monoccocum Eps-A m 1 locus, and hence includes MODIFIER OF TRANSCRIPTION 1 (MOT1) and FTSH PROTEASE 4 (FTSH4), the candidates for Eps-A m 1. The deletion also contains T. aestivum EARLY FLOWERING 3-D1 (TaELF3-D1) a homologue of the Arabidopsis thaliana circadian clock gene EARLY FLOWERING 3. Eps-D1 is possibly a homologue of Eps-B1 on chromosome 1BL. NILs carrying the Eps-D1 deletion have significantly reduced total TaELF3 expression and altered TaGIGANTEA (TaGI) expression compared with wild type. Altered TaGI expression is consistent with an ELF3 mutant, hence we propose TaELF3-D1 as the more likely candidate for Eps-D1. This is the first direct fine mapping of Eps effect in bread wheat. PMID:26476691

Delimitation of the Earliness per se D1 (Eps-D1) flowering gene to a subtelomeric chromosomal deletion in bread wheat (Triticum aestivum).

Science.gov (United States)

Zikhali, Meluleki; Wingen, Luzie U; Griffiths, Simon

2016-01-01

Earliness per se (Eps) genes account for the variation in flowering time when vernalization and photoperiod requirements are satisfied. Genomics and bioinformatics approaches were used to describe allelic variation for 40 Triticum aestivum genes predicted, by synteny with Brachypodium distachyon, to be in the 1DL Eps region. Re-sequencing 1DL genes revealed that varieties carrying early heading alleles at this locus, Spark and Cadenza, carry a subtelomeric deletion including several genes. The equivalent region in Rialto and Avalon is intact. A bimodal distribution in the segregating Spark X Rialto single seed descent (SSD) populations enabled the 1DL QTL to be defined as a discrete Mendelian factor, which we named Eps-D1. Near isogenic lines (NILs) and NIL derived key recombinants between markers flanking Eps-D1 suggest that the 1DL deletion contains the gene(s) underlying Eps-D1. The deletion spans the equivalent of the Triticum monoccocum Eps-A (m) 1 locus, and hence includes MODIFIER OF TRANSCRIPTION 1 (MOT1) and FTSH PROTEASE 4 (FTSH4), the candidates for Eps-A (m) 1. The deletion also contains T. aestivum EARLY FLOWERING 3-D1 (TaELF3-D1) a homologue of the Arabidopsis thaliana circadian clock gene EARLY FLOWERING 3. Eps-D1 is possibly a homologue of Eps-B1 on chromosome 1BL. NILs carrying the Eps-D1 deletion have significantly reduced total TaELF3 expression and altered TaGIGANTEA (TaGI) expression compared with wild type. Altered TaGI expression is consistent with an ELF3 mutant, hence we propose TaELF3-D1 as the more likely candidate for Eps-D1. This is the first direct fine mapping of Eps effect in bread wheat. © The Author 2015. Published by Oxford University Press on behalf of the Society for Experimental Biology.

Early evolutionary colocalization of the nuclear ribosomal 5S and 45S gene families in seed plants: evidence from the living fossil gymnosperm Ginkgo biloba.

Science.gov (United States)

Galián, J A; Rosato, M; Rosselló, J A

2012-06-01

In seed plants, the colocalization of the 5S loci within the intergenic spacer (IGS) of the nuclear 45S tandem units is restricted to the phylogenetically derived Asteraceae family. However, fluorescent in situ hybridization (FISH) colocalization of both multigene families has also been observed in other unrelated seed plant lineages. Previous work has identified colocalization of 45S and 5S loci in Ginkgo biloba using FISH, but these observations have not been confirmed recently by sequencing a 1.8 kb IGS. In this work, we report the presence of the 45S-5S linkage in G. biloba, suggesting that in seed plants the molecular events leading to the restructuring of the ribosomal loci are much older than estimated previously. We obtained a 6.0 kb IGS fragment showing structural features of functional sequences, and a single copy of the 5S gene was inserted in the same direction of transcription as the ribosomal RNA genes. We also obtained a 1.8 kb IGS that was a truncate variant of the 6.0 kb IGS lacking the 5S gene. Several lines of evidence strongly suggest that the 1.8 kb variants are pseudogenes that are present exclusively on the satellite chromosomes bearing the 45S-5S genes. The presence of ribosomal IGS pseudogenes best reconciles contradictory results concerning the presence or absence of the 45S-5S linkage in Ginkgo. Our finding that both ribosomal gene families have been unified to a single 45S-5S unit in Ginkgo indicates that an accurate reassessment of the organization of rDNA genes in basal seed plants is necessary.

Single-molecule optical genome mapping of a human HapMap and a colorectal cancer cell line.

Science.gov (United States)

Teo, Audrey S M; Verzotto, Davide; Yao, Fei; Nagarajan, Niranjan; Hillmer, Axel M

2015-01-01

Next-generation sequencing (NGS) technologies have changed our understanding of the variability of the human genome. However, the identification of genome structural variations based on NGS approaches with read lengths of 35-300 bases remains a challenge. Single-molecule optical mapping technologies allow the analysis of DNA molecules of up to 2 Mb and as such are suitable for the identification of large-scale genome structural variations, and for de novo genome assemblies when combined with short-read NGS data. Here we present optical mapping data for two human genomes: the HapMap cell line GM12878 and the colorectal cancer cell line HCT116. High molecular weight DNA was obtained by embedding GM12878 and HCT116 cells, respectively, in agarose plugs, followed by DNA extraction under mild conditions. Genomic DNA was digested with KpnI and 310,000 and 296,000 DNA molecules (≥ 150 kb and 10 restriction fragments), respectively, were analyzed per cell line using the Argus optical mapping system. Maps were aligned to the human reference by OPTIMA, a new glocal alignment method. Genome coverage of 6.8× and 5.7× was obtained, respectively; 2.9× and 1.7× more than the coverage obtained with previously available software. Optical mapping allows the resolution of large-scale structural variations of the genome, and the scaffold extension of NGS-based de novo assemblies. OPTIMA is an efficient new alignment method; our optical mapping data provide a resource for genome structure analyses of the human HapMap reference cell line GM12878, and the colorectal cancer cell line HCT116.

A strand-specific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi.

Directory of Open Access Journals (Sweden)

Timothy T Perkins

2009-07-01

Full Text Available High-density, strand-specific cDNA sequencing (ssRNA-seq was used to analyze the transcriptome of Salmonella enterica serovar Typhi (S. Typhi. By mapping sequence data to the entire S. Typhi genome, we analyzed the transcriptome in a strand-specific manner and further defined transcribed regions encoded within prophages, pseudogenes, previously un-annotated, and 3'- or 5'-untranslated regions (UTR. An additional 40 novel candidate non-coding RNAs were identified beyond those previously annotated. Proteomic analysis was combined with transcriptome data to confirm and refine the annotation of a number of hpothetical genes. ssRNA-seq was also combined with microarray and proteome analysis to further define the S. Typhi OmpR regulon and identify novel OmpR regulated transcripts. Thus, ssRNA-seq provides a novel and powerful approach to the characterization of the bacterial transcriptome.

Fine-scale mapping of the 5q11.2 breast cancer locus reveals at least three independent risk variants regulating MAP3K1

DEFF Research Database (Denmark)

Glubb, Dylan M; Maranian, Mel J; Michailidou, Kyriaki

2015-01-01

evidence of association of a further 173 variants (iCHAV2) containing three subsets with a range of effects (the strongest was rs113317823 [pcond = 1.61 × 10(-5)]) and five variants composing iCHAV3 (lead rs11949391; ER(+): OR = 0.90, 95% CI = 0.87-0.93, pcond = 1.4 × 10(-4)). Twenty-six percent......CHAV2a], and rs17432750 [iCHAV3]) increased MAP3K1 transcriptional activity. Chromatin immunoprecipitation analysis revealed diminished GATA3 binding to the minor (cancer-protective) allele of rs17432750, indicating a mechanism for its action. We propose that the cancer risk alleles act to increase MAP3...

Effect of extremely low frequency electromagnetic fields on growth rate and morphology of bacteria.

Science.gov (United States)

Inhan-Garip, Ayse; Aksu, Burak; Akan, Zafer; Akakin, Dilek; Ozaydin, A Nilufer; San, Tangul

2011-12-01

To determine the effect of extremely low frequency (bacteria and to determine any morphological changes that might have been caused by ELF-EMF. Six bacterial strains, three Gram-negative and three Gram-positive were subjected to 50 Hz, 0.5 mT ELF-EMF for 6 h. To determine growth rate after ELF-EMF application, bacteria exposed to ELF-EMF for 3 h were collected, transferred to fresh medium and cultured without field application for another 4 h. Growth-rate was determined by optical density (OD) measurements made every hour. Morphological changes were determined with Transmission electron microscopy (TEM) for two gram-negative and two gram-positive strains collected after 3 h of field application. A decrease in growth rate with respect to control samples was observed for all strains during ELF-EMF application. The decrease in growth-rate continued when exposed bacteria were cultured without field application. Significant ultrastructural changes were observed in all bacterial strains, which were seen to resemble the alterations caused by cationic peptides. This study shows that ELF-EMF induces a decrease in growth rate and morphological changes for both Gram-negative and Gram-positive bacteria.

A consensus linkage map of lentil based on DArT markers from three RIL mapping populations.

Directory of Open Access Journals (Sweden)

Duygu Ates

Full Text Available Lentil (Lens culinaris ssp. culinaris Medikus is a diploid (2n = 2x = 14, self-pollinating grain legume with a haploid genome size of about 4 Gbp and is grown throughout the world with current annual production of 4.9 million tonnes.A consensus map of lentil (Lens culinaris ssp. culinaris Medikus was constructed using three different lentils recombinant inbred line (RIL populations, including "CDC Redberry" x "ILL7502" (LR8, "ILL8006" x "CDC Milestone" (LR11 and "PI320937" x "Eston" (LR39.The lentil consensus map was composed of 9,793 DArT markers, covered a total of 977.47 cM with an average distance of 0.10 cM between adjacent markers and constructed 7 linkage groups representing 7 chromosomes of the lentil genome. The consensus map had no gap larger than 12.67 cM and only 5 gaps were found to be between 12.67 cM and 6.0 cM (on LG3 and LG4. The localization of the SNP markers on the lentil consensus map were in general consistent with their localization on the three individual genetic linkage maps and the lentil consensus map has longer map length, higher marker density and shorter average distance between the adjacent markers compared to the component linkage maps.This high-density consensus map could provide insight into the lentil genome. The consensus map could also help to construct a physical map using a Bacterial Artificial Chromosome library and map based cloning studies. Sequence information of DArT may help localization of orientation scaffolds from Next Generation Sequencing data.

A consensus linkage map of lentil based on DArT markers from three RIL mapping populations.

Science.gov (United States)

Ates, Duygu; Aldemir, Secil; Alsaleh, Ahmad; Erdogmus, Semih; Nemli, Seda; Kahriman, Abdullah; Ozkan, Hakan; Vandenberg, Albert; Tanyolac, Bahattin

2018-01-01

Lentil (Lens culinaris ssp. culinaris Medikus) is a diploid (2n = 2x = 14), self-pollinating grain legume with a haploid genome size of about 4 Gbp and is grown throughout the world with current annual production of 4.9 million tonnes. A consensus map of lentil (Lens culinaris ssp. culinaris Medikus) was constructed using three different lentils recombinant inbred line (RIL) populations, including "CDC Redberry" x "ILL7502" (LR8), "ILL8006" x "CDC Milestone" (LR11) and "PI320937" x "Eston" (LR39). The lentil consensus map was composed of 9,793 DArT markers, covered a total of 977.47 cM with an average distance of 0.10 cM between adjacent markers and constructed 7 linkage groups representing 7 chromosomes of the lentil genome. The consensus map had no gap larger than 12.67 cM and only 5 gaps were found to be between 12.67 cM and 6.0 cM (on LG3 and LG4). The localization of the SNP markers on the lentil consensus map were in general consistent with their localization on the three individual genetic linkage maps and the lentil consensus map has longer map length, higher marker density and shorter average distance between the adjacent markers compared to the component linkage maps. This high-density consensus map could provide insight into the lentil genome. The consensus map could also help to construct a physical map using a Bacterial Artificial Chromosome library and map based cloning studies. Sequence information of DArT may help localization of orientation scaffolds from Next Generation Sequencing data.

Probabilistic mapping of descriptive health status responses onto health state utilities using Bayesian networks: an empirical analysis converting SF-12 into EQ-5D utility index in a national US sample.

Science.gov (United States)

Le, Quang A; Doctor, Jason N

2011-05-01

As quality-adjusted life years have become the standard metric in health economic evaluations, mapping health-profile or disease-specific measures onto preference-based measures to obtain quality-adjusted life years has become a solution when health utilities are not directly available. However, current mapping methods are limited due to their predictive validity, reliability, and/or other methodological issues. We employ probability theory together with a graphical model, called a Bayesian network, to convert health-profile measures into preference-based measures and to compare the results to those estimated with current mapping methods. A sample of 19,678 adults who completed both the 12-item Short Form Health Survey (SF-12v2) and EuroQoL 5D (EQ-5D) questionnaires from the 2003 Medical Expenditure Panel Survey was split into training and validation sets. Bayesian networks were constructed to explore the probabilistic relationships between each EQ-5D domain and 12 items of the SF-12v2. The EQ-5D utility scores were estimated on the basis of the predicted probability of each response level of the 5 EQ-5D domains obtained from the Bayesian inference process using the following methods: Monte Carlo simulation, expected utility, and most-likely probability. Results were then compared with current mapping methods including multinomial logistic regression, ordinary least squares, and censored least absolute deviations. The Bayesian networks consistently outperformed other mapping models in the overall sample (mean absolute error=0.077, mean square error=0.013, and R overall=0.802), in different age groups, number of chronic conditions, and ranges of the EQ-5D index. Bayesian networks provide a new robust and natural approach to map health status responses into health utility measures for health economic evaluations.

Comparison of the chromosome maps around a resistance hot spot on chromosome 5 of potato and tomato using BAC-FISH painting.

Science.gov (United States)

Achenbach, Ute C; Tang, Xiaomin; Ballvora, Agim; de Jong, Hans; Gebhardt, Christiane

2010-02-01

Potato chromosome 5 harbours numerous genes for important qualitative and quantitative traits, such as resistance to the root cyst nematode Globodera pallida and the late blight fungus, Phytophthora infestans. The genes make up part of a "hot spot" for resistances to various pathogens covering a genetic map length of 3 cM between markers GP21 and GP179. We established the physical size and position of this region on chromosome 5 in potato and tomato using fluorescence in situ hybridization (FISH) on pachytene chromosomes. Five potato bacterial artificial chromosome (BAC) clones with the genetically anchored markers GP21, R1-contig (proximal end), CosA, GP179, and StPto were selected, labeled with different fluorophores, and hybridized in a five-colour FISH experiment. Our results showed the location of the BAC clones in the middle of the long arm of chromosome 5 in both potato and tomato. Based on chromosome measurements, we estimate the physical size of the GP21-GP179 interval at 0.85 Mb and 1.2 Mb in potato and tomato, respectively. The GP21-GP179 interval is part of a genome segment known to have inverted map positions between potato and tomato.

Geologic map of the Weldona 7.5' quadrangle, Morgan County, Colorado

Science.gov (United States)

Berry, Margaret E.; Taylor, Emily M.; Slate, Janet L.; Paces, James B.; Hanson, Paul R.; Brandt, Theodore R.

2018-03-21

The Weldona 7.5′ quadrangle is located on the semiarid plains of northeastern Colorado, along the South Platte River corridor where the river has incised into Upper Cretaceous Pierre Shale. The Pierre Shale is largely covered by surficial deposits that formed from alluvial, eolian, and hillslope processes operating in concert with environmental changes from the Pleistocene to the present. The South Platte River, originating high in the Colorado Rocky Mountains, has played a major role in shaping surficial geology in the map area, which is several tens of kilometers downstream from where headwater tributaries join the river. Recurrent glaciation (and deglaciation) of basin headwaters has affected river discharge and sediment supply far downstream, influencing deposition of alluvium and river incision in the Weldona quadrangle. During the Pleistocene the course of the river within the map area shifted progressively southward as it incised, and by late middle Pleistocene the river was south of its present position, cutting and filling deep paleochannels now covered by younger alluvium. The river shifted back to the north during the late Pleistocene. Kiowa and Bijou Creeks are unglaciated tributaries originating in the Colorado Piedmont east of the Front Range that also have played a major role in shaping surficial geology of the map area. Periodically during the late Pleistocene, major flood events on these tributaries deposited large volumes of sediment at their confluences, forming a broad, low-gradient fan of sidestream alluvium that could have occasionally dammed the river for short periods of time. Eolian sand deposits of the Sterling (north of river) and Fort Morgan (south of river) dune fields cover much of the quadrangle and record past episodes of sand mobilization during times of prolonged drought. With the onset of irrigation and damming during historical times, the South Platte River has changed from a broad, shallow, and sandy braided river with highly

SENSITIVITY OF PIGMENT CONTENT OF BANANA AND ORCHID TISSUE CULTURE EXPOSED TO EXTREMELY LOW FREQUENCY ELECTROMAGNETIC FIEL

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Riry Prihatini

2017-01-01

Full Text Available Natural exposure of extremely low frequency electromagnetic field (ELF-EMF occurs in the environment and acts as one of the abiotic factors that affect the growth and development of organisms. This study was conducted to determine the effect of ELF-EMF on the tissue cultured banana and slipper orchid chlorophyll content as one of the indicators in measuring plant photosynthetic capacity. Four days old banana (Musa sp. cv. Berangan corm and seven days old slipper orchid (Paphiopedilum rothschildianum cultures were exposed to 6 and 12 mT ELF-EMF generated by controllable ELF-EMF built up machine for 0.5, 1, 2 and 4 hours. After exposure, the banana and orchid cultures were incubated at 25° C for 8 and 16 weeks, respectively. The results showed that the ELF-EMF exposure had different effects on banana and slipper orchid cultures though both plant species belong to monocotyledon. The highest increase in chlorophyll content on banana was resulted by the high intensity and long duration of ELF-EMF exposure (12 mT for 4 hours, whereas on slipper orchid the modest and short duration of ELF-EMF exposure produced the most excessive chlorophyll content. Different ELF-EMF exposures (12 mT for 4 hours and 6 mT for 30 minutes had potential to be applied on each plant to improve in vitro plant (banana and slipper orchid, respectively growth. The increased chlorophyll and carotene/xanthophyll content on banana indicated that the banana was more tolerant to ELF-EMF exposure compared to slipper orchid. 

Geologic map of the Fort Morgan 7.5' quadrangle, Morgan County, Colorado

Science.gov (United States)

Berry, Margaret E.; Taylor, Emily M.; Slate, Janet L.; Paces, James B.; Hanson, Paul R.; Brandt, Theodore R.

2018-06-08

The Fort Morgan 7.5′ quadrangle is located on the semiarid plains of northeastern Colorado, along the South Platte River corridor where the river has incised into Upper Cretaceous Pierre Shale. The Pierre Shale is largely covered by surficial deposits that formed from alluvial, eolian, and hillslope processes operating in concert with environmental changes from the late Pliocene to the present. The South Platte River, originating high in the Colorado Rocky Mountains, has played a major role in shaping surficial geology in the map area, which is several tens of kilometers downstream from where headwater tributaries join the river. Recurrent glaciation (and deglaciation) of basin headwaters has affected river discharge and sediment supply far downstream, influencing deposition of alluvium and river incision in the Fort Morgan quadrangle. Distribution and characteristics of the alluvial deposits indicate that during the Pleistocene the course of the river within the map area shifted progressively southward as it incised, and by late middle Pleistocene the river was south of its present position, cutting and filling a deep paleochannel near the south edge of the quadrangle. The river shifted back to the north during the late Pleistocene. Kiowa and Bijou Creeks are unglaciated tributaries originating in the Colorado Piedmont east of the Front Range that also have played a major role in shaping surficial geology of the map area. Periodically during the late Pleistocene, major flood events on these tributaries deposited large volumes of sediment at and near their confluences, forming a broad, low-gradient fan composed of sidestream alluvium that could have occasionally dammed the river for short periods of time. Wildcat Creek, also originating on the Colorado Piedmont, and the small drainage of Cris Lee Draw dissect the map area north of the river. Eolian sand deposits of the Sterling (north of river) and Fort Morgan (south of river) dune fields cover much of the

Assessment of every day extremely low frequency (Elf) electromagnetic fields (50-60 Hz) exposure: which metrics?

International Nuclear Information System (INIS)

Verrier, A.; Magne, I.; Souqes, M.; Lambrozo, J.

2006-01-01

Because electricity is encountered at every moment of the day, at home with household appliances, or in every type of transportation, people are most of the time exposed to extremely low frequency (E.L.F.) electromagnetic fields (50-60 Hz) in a various way. Due to a lack of knowledge about the biological mechanisms of 50 Hz magnetic fields, studies seeking to identify health effects of exposure use central tendency metrics. The objective of our study is to provide better information about these exposure measurements from three categories of metrics. We calculated metrics of exposure measurements from data series (79 very day exposed subjects), made up approximately 20,000 recordings of magnetic fields, measured every 30 seconds for 7 days with an E.M.D.E.X. II dosimeter. These indicators were divided into three categories : central tendency metrics, dispersion metrics and variability metrics.We use Principal Component Analysis, a multidimensional technique to examine the relations between different exposure metrics for a group of subjects. Principal component Analysis (P.C.A.) enabled us to identify from the foreground 71.7% of the variance. The first component (42.7%) was characterized by central tendency; the second (29.0%) was composed of dispersion characteristics. The third component (17.2%) was composed of variability characteristics. This study confirm the need to improve exposure measurements by using at least two dimensions intensity and dispersion. (authors)

U1 snDNA clusters in grasshoppers: chromosomal dynamics and genomic organization

Science.gov (United States)

Anjos, A; Ruiz-Ruano, F J; Camacho, J P M; Loreto, V; Cabrero, J; de Souza, M J; Cabral-de-Mello, D C

2015-01-01

The spliceosome, constituted by a protein set associated with small nuclear RNA (snRNA), is responsible for mRNA maturation through intron removal. Among snRNA genes, U1 is generally a conserved repetitive sequence. To unveil the chromosomal/genomic dynamics of this multigene family in grasshoppers, we mapped U1 genes by fluorescence in situ hybridization in 70 species belonging to the families Proscopiidae, Pyrgomorphidae, Ommexechidae, Romaleidae and Acrididae. Evident clusters were observed in all species, indicating that, at least, some U1 repeats are tandemly arrayed. High conservation was observed in the first four families, with most species carrying a single U1 cluster, frequently located in the third or fourth longest autosome. By contrast, extensive variation was observed among Acrididae, from a single chromosome pair carrying U1 to all chromosome pairs carrying it, with occasional occurrence of two or more clusters in the same chromosome. DNA sequence analysis in Eyprepocnemis plorans (species carrying U1 clusters on seven different chromosome pairs) and Locusta migratoria (carrying U1 in a single chromosome pair) supported the coexistence of functional and pseudogenic lineages. One of these pseudogenic lineages was truncated in the same nucleotide position in both species, suggesting that it was present in a common ancestor to both species. At least in E. plorans, this U1 snDNA pseudogenic lineage was associated with 5S rDNA and short interspersed elements (SINE)-like mobile elements. Given that we conclude in grasshoppers that the U1 snDNA had evolved under the birth-and-death model and that its intragenomic spread might be related with mobile elements. PMID:25248465

DistMap: a toolkit for distributed short read mapping on a Hadoop cluster.

Directory of Open Access Journals (Sweden)

Ram Vinay Pandey

Full Text Available With the rapid and steady increase of next generation sequencing data output, the mapping of short reads has become a major data analysis bottleneck. On a single computer, it can take several days to map the vast quantity of reads produced from a single Illumina HiSeq lane. In an attempt to ameliorate this bottleneck we present a new tool, DistMap - a modular, scalable and integrated workflow to map reads in the Hadoop distributed computing framework. DistMap is easy to use, currently supports nine different short read mapping tools and can be run on all Unix-based operating systems. It accepts reads in FASTQ format as input and provides mapped reads in a SAM/BAM format. DistMap supports both paired-end and single-end reads thereby allowing the mapping of read data produced by different sequencing platforms. DistMap is available from http://code.google.com/p/distmap/

Demodulation effect is observed in neurones by exposure to low frequency modulated microwaves

International Nuclear Information System (INIS)

Perez-Bruzon, R N; Figols, T; Azanza, M J; Moral, A del

2010-01-01

Neurones exposure to a microwave (carrier f c =13.6 GHz; power P ≅ 5 mW; H o ≅ 0.10 Am -1 = 1.25 mOe; E 0 ≅ 3.5 V/m; ΔT ≅ 0.01 0 C; SAR: 3.1x10 -3 - 5.8x10 -3 W/Kg) EMF amplitude modulated by ELF-AC field (frequency, f m = 0-100 Hz) shows no electrophysiological effect under the carrier MF alone, but f requency resonances: at 2, 4, 8, 12, 16, 50, 100 Hz: demodulation effect. Resonances appear when applied ELF-MF is close to a dominant characteristic frequency of the neurone impulse Fourier spectrum. This is an interesting result considering that ELF-MF modulating RF or MW in the range of human EEG could induce frequency-resonant effects on exposed human brain.

Amplitude variations of ELF radio waves in the Earth-ionosphere cavity with the day-night non-uniformity

Science.gov (United States)

Galuk, Yu P.; Nickolaenko, A. P.; Hayakawa, M.

2018-04-01

The real structure of lower ionosphere should be taken into account when modeling the sub-ionospheric radio propagation in the extremely low frequency (ELF) band and studying the global electromagnetic (Schumann) resonance of the Earth-ionosphere cavity. In the present work we use the 2D (two dimensional) telegraph equations (2DTE) for evaluating the effect of the ionosphere day-night non-uniformity on the electromagnetic field amplitude at the Schumann resonance and higher frequencies. Properties of the cavity upper boundary were taken into account by the full wave solution technique for realistic vertical profiles of atmosphere conductivity in the ambient day and ambient night conditions. We solved the electromagnetic problem in a cavity with the day-night non-uniformity by using the 2DTE technique. Initially, the testing of the 2DTE solution was performed in the model of the sharp day-night interface. The further computations were carried out in the model of the smooth day-night transition. The major attention was directed to the effects at propagation paths "perpendicular" or "parallel" to the solar terminator line. Data were computed for a series of frequencies, the comparison of the results was made and interpretation was given to the observed effects.

Mapping seismic intensity using twitter data; A Case study: The February 26th, 2014 M5.9 Kefallinia (Greece) earthquake

Science.gov (United States)

Arapostathis, Stathis; Parcharidis, Isaak; Kalogeras, Ioannis; Drakatos, George

2015-04-01

In this paper we present an innovative approach for the development of seismic intensity maps in minimum time frame. As case study, a recent earthquake that occurred in Western Greece (Kefallinia Island, on February 26, 2014) is used. The magnitude of the earthquake was M=5.9 (Institute of Geodynamics - National Observatory of Athens). Earthquake's effects comprising damages in property and changes of the physical environment in the area. The innovative part of this research is that we use crowdsourcing as a source to assess macroseismic intensity information, coming out from twitter content. Twitter as a social media service with micro-blogging characteristics, a semantic structure which allows the storage of spatial content, and a high volume production of user generated content is a suitable source to obtain and extract knowledge related to macroseismic intensity in different geographic areas and in short time periods. Moreover the speed in which twitter content is generated affects us to have accurate results only a few hours after the occurrence of the earthquake. The method used in order to extract, evaluate and map the intensity related information is described in brief in this paper. At first, we pick out all the tweets that have been posted within the first 48 hours, including information related to intensity and refer to a geographic location. The geo-referencing of these tweets and their association with an intensity grade according to the European Macroseismic Scale (EMS98) based on the information they contain in text followed. Finally, we apply various spatial statistics and GIS methods, and we interpolate the values to cover all the appropriate geographic areas. The final output contains macroseismic intensity maps for the Lixouri area (Kefallinia Island), produced from twitter data that have been posted in the first six, twelve, twenty four and forty eight hours after the earthquake occurrence. Results are compared with other intensity maps for same

Basic Geomagnetic Network of the Republic of Croatia 2004 – 2012, with Geomagnetic Field Maps for 2009.5 epoch

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Mario Brkić

2013-12-01

Full Text Available After more than half a century, scientific book Basic Geomagnetic Network of the Republic of Croatia 2004 – 2012, with Geomagnetic Field Maps for 2009.5 epoch describes the recent geomagnetic field on Croatian territory. A review of research in the past decade as well as the original solutions makes the book a document of contribution to geodesy and geomagnetism in Croatia.The book’s introduction gives an overview of two centuries of history and the strategic, security, economic and scientific significance of knowing the geomagnetic field on the Croatian territory. All the activities related to the updating of the geomagnetic information, which took place in the last decade, signified a big step toward the countries where geomagnetic survey is a mature scientific and technical discipline, and a scientific contribution to understanding of the nature of the Earth's magnetism.The declination, inclination and total intensity maps (along with the normal annual changes for the epoch 2009.5 are given in the Appendix. The book Basic Geomagnetic Network of the Republic of Croatia 2004 – 2012, with Geomagnetic Field Maps for 2009.5 epoch (ISBN 978-953-293-521-9 is published by the State Geodetic Administration of the Republic of Croatia. Beside editor in chief, M. Brkić, the authors are: E. Vujić, D. Šugar, E. Jungwirth, D. Markovinović, M. Rezo, M. Pavasović, O. Bjelotomić, M. Šljivarić, M. Varga and V. Poslončec-Petrić. The book contains 48 pages and 3 maps, and is published in 200 copies. CIP record is available in digital catalogue of the National and University Library in Zagreb under number 861937.

Influence of contact force on voltage mapping: A combined magnetic resonance imaging and electroanatomic mapping study in patients with tetralogy of Fallot.

Science.gov (United States)

Teijeira-Fernandez, Elvis; Cochet, Hubert; Bourier, Felix; Takigawa, Masateru; Cheniti, Ghassen; Thompson, Nathaniel; Frontera, Antonio; Camaioni, Claudia; Massouille, Gregoire; Jalal, Zakaria; Derval, Nicolas; Iriart, Xavier; Denis, Arnaud; Hocini, Meleze; Haissaguerre, Michel; Jais, Pierre; Thambo, Jean-Benoit; Sacher, Frederic

2018-03-20

Voltage criteria for ventricular mapping have been obtained from small series of patients and prioritizing high specificity. The purpose of this study was to analyse the potential influence of contact force (CF) on voltage mapping and to define voltage cutoff values for right ventricular (RV) scar using the tetralogy of Fallot as a model of transmural RV scar and magnetic resonance imaging (MRI) as reference. Fourteen patients (age 32.6 ± 14.3 years; 5 female) with repaired tetralogy of Fallot underwent high-resolution cardiac MRI (1.25 × 1.25 × 2.5 mm). Scar, defined as pixels with intensity >50% maximum, was mapped over the RV geometry and merged within the CARTO system to RV endocardial voltage maps acquired using a 3.5-mm ablation catheter with CF technology (SmartTouch, Biosense Webster). In total, 2446 points were analyzed, 915 within scars and 1531 in healthy tissue according to MRI. CF correlated to unipolar (ρ = 0.186; P voltage in healthy tissue (ρ = 0.245; P voltage cutoffs of 5.19 mV for unipolar voltage and 1.76 mV for bipolar voltage, yielding sensitivity/specificity of 0.89/0.85 and 0.9/0.9, respectively. CF is an important factor to be taken into account for voltage mapping. If good CF is applied, unipolar and bipolar voltage cutoffs of 5.19 mV and 1.76 mV are optimal for identifying RV scar on endocardial mapping with the SmartTouch catheter. Data on the diagnostic accuracy of different voltage cutoff values are provided. Copyright © 2018 Heart Rhythm Society. Published by Elsevier Inc. All rights reserved.

Independent pseudogenization of CYP2J19 in penguins, owls and kiwis implicates gene in red carotenoid synthesis.

Science.gov (United States)

Emerling, Christopher A

2018-01-01

Carotenoids have important roles in bird behavior, including pigmentation for sexual signaling and improving color vision via retinal oil droplets. Yellow carotenoids are diet-derived, but red carotenoids (ketocarotenoids) are typically synthesized from yellow precursors via a carotenoid ketolase. Recent research on passerines has provided evidence that a cytochrome p450 enzyme, CYP2J19, is responsible for this reaction, though it is unclear if this function is phylogenetically restricted. Here I provide evidence that CYP2J19 is the carotenoid ketolase common to Aves using the genomes of 65 birds and the retinal transcriptomes of 15 avian taxa. CYP2J19 is functionally intact and robustly transcribed in all taxa except for several species adapted to foraging in dim light conditions. Two penguins, an owl and a kiwi show evidence of genetic lesions and relaxed selection in their genomic copy of CYP2J19, and six owls show evidence of marked reduction in CYP2J19 retinal transcription compared to nine diurnal avian taxa. Furthermore, one of the owls appears to transcribe a CYP2J19 pseudogene. Notably, none of these taxa are known to use red carotenoids for sexual signaling and several species of owls and penguins represent the only birds known to completely lack red retinal oil droplets. The remaining avian taxa belong to groups known to possess red oil droplets, are known or expected to deposit red carotenoids in skin and/or plumage, and/or frequently forage in bright light. The loss and reduced expression of CYP2J19 is likely an adaptation to maximize retinal sensitivity, given that oil droplets reduce the amount of light available to the retina. Copyright © 2017 Elsevier Inc. All rights reserved.

Custom OpenStreetMap Rendering – OpenTrackMap Experience

Directory of Open Access Journals (Sweden)

Radek Bartoň

2010-02-01

Full Text Available After 5 years of its existence, the OpenSteetMap [1] is becoming to be an important and valuable source of a geographic data for all people on the world. Although initially targeted to provide a map of cities for routing services, it can be exploited to other and often unexpected purposes. Such an utilization is an effort to map a network of hiking tracks of the Czech Tourist Club [2].  To support and apply this endeavour, the OpenTrackMap [3] project was started. Its aim is to primarily provide a customized rendering style for Mapnik renderer which emphasizes map features important to tourists and displays a layer with hiking tracks. This article presents obstacles which such project must face and it can be used as a tutorial for other projects of similar type.

Results of a Musa mapping project

International Nuclear Information System (INIS)

Lagoda, P.J.L.; Noyer, J.L.; Baurens, F.C.

1998-01-01

A completed map, based on two selfed progenies from two banana cultivars (M53 and SFB5) is presented (roughly 1200 cM). More than three hundred markers are linked in 11 linkage groups representing the genome (2n=22) of Musa acuminata. Roughly one third of the markers are co-dominant restriction fragment polymorphisms (RFLPs; one hundred) or micro satellites (thirty). Two thirds of the markers are dominant amplified fragment length polymorphisms (AFLPs; 10% could be considered to be co-dominant). The mean linkage distance is 3 cM, but marker density still should be increased on a couple of linkage groups. Particularities for a mapping job in banana are discussed. Due to Musa acuminata sub-species specific translocations, up to 36% of all the markers tested show important segregation distortions. The need for a cooperative mapping initiative based on a proposed ''frame-map'' harbouring evenly spaced co-dominant ''anchor'' markers is proposed. CIRAD has published 45 sequence tagged micro satellite sites (STMS) in the EMBL database which are accessible at: ''http://www.ebi.ac.uk/'' using the keywords LAGODA and MICROSATELLITE (EMBL accessions X87258 to X87265, X90740 to X90750 and Z85950 to Z85977). (author)

An entropy regularization method applied to the identification of wave distribution function for an ELF hiss event

Science.gov (United States)

Prot, Olivier; SantolíK, OndřEj; Trotignon, Jean-Gabriel; Deferaudy, Hervé

2006-06-01

An entropy regularization algorithm (ERA) has been developed to compute the wave-energy density from electromagnetic field measurements. It is based on the wave distribution function (WDF) concept. To assess its suitability and efficiency, the algorithm is applied to experimental data that has already been analyzed using other inversion techniques. The FREJA satellite data that is used consists of six spectral matrices corresponding to six time-frequency points of an ELF hiss-event spectrogram. The WDF analysis is performed on these six points and the results are compared with those obtained previously. A statistical stability analysis confirms the stability of the solutions. The WDF computation is fast and without any prespecified parameters. The regularization parameter has been chosen in accordance with the Morozov's discrepancy principle. The Generalized Cross Validation and L-curve criterions are then tentatively used to provide a fully data-driven method. However, these criterions fail to determine a suitable value of the regularization parameter. Although the entropy regularization leads to solutions that agree fairly well with those already published, some differences are observed, and these are discussed in detail. The main advantage of the ERA is to return the WDF that exhibits the largest entropy and to avoid the use of a priori models, which sometimes seem to be more accurate but without any justification.

Geologic map of the Weldona 7.5′ quadrangle, Morgan County, Colorado

Science.gov (United States)

Berry, Margaret E.; Taylor, Emily M.; Slate, Janet L.; Paces, James B.; Hanson, Paul R.; Brandt, Theodore R.

2018-03-21

The Weldona 7.5′ quadrangle is located on the semiarid plains of northeastern Colorado, along the South Platte River corridor where the river has incised into Upper Cretaceous Pierre Shale. The Pierre Shale is largely covered by surficial deposits that formed from alluvial, eolian, and hillslope processes operating in concert with environmental changes from the Pleistocene to the present. The South Platte River, originating high in the Colorado Rocky Mountains, has played a major role in shaping surficial geology in the map area, which is several tens of kilometers downstream from where headwater tributaries join the river. Recurrent glaciation (and deglaciation) of basin headwaters has affected river discharge and sediment supply far downstream, influencing deposition of alluvium and river incision in the Weldona quadrangle. During the Pleistocene the course of the river within the map area shifted progressively southward as it incised, and by late middle Pleistocene the river was south of its present position, cutting and filling deep paleochannels now covered by younger alluvium. The river shifted back to the north during the late Pleistocene. Kiowa and Bijou Creeks are unglaciated tributaries originating in the Colorado Piedmont east of the Front Range that also have played a major role in shaping surficial geology of the map area. Periodically during the late Pleistocene, major flood events on these tributaries deposited large volumes of sediment at their confluences, forming a broad, low-gradient fan of sidestream alluvium that could have occasionally dammed the river for short periods of time. Eolian sand deposits of the Sterling (north of river) and Fort Morgan (south of river) dune fields cover much of the quadrangle and record past episodes of sand mobilization during times of prolonged drought. With the onset of irrigation and damming during historical times, the South Platte River has changed from a broad, shallow, and sandy braided river with highly

A Servicewide Benthic Mapping Program for National Parks

Science.gov (United States)

Moses, Christopher S.; Nayegandhi, Amar; Beavers, Rebecca; Brock, John

2010-01-01

In 2007, the National Park Service (NPS) Inventory and Monitoring Program directed the initiation of a benthic habitat mapping program in ocean and coastal parks in alignment with the NPS Ocean Park Stewardship 2007-2008 Action Plan. With 74 ocean and Great Lakes parks stretching over more than 5,000 miles of coastline across 26 States and territories, this Servicewide Benthic Mapping Program (SBMP) is essential. This program will deliver benthic habitat maps and their associated inventory reports to NPS managers in a consistent, servicewide format to support informed management and protection of 3 million acres of submerged National Park System natural and cultural resources. The NPS and the U.S. Geological Survey (USGS) convened a workshop June 3-5, 2008, in Lakewood, Colo., to discuss the goals and develop the design of the NPS SBMP with an assembly of experts (Moses and others, 2010) who identified park needs and suggested best practices for inventory and mapping of bathymetry, benthic cover, geology, geomorphology, and some water-column properties. The recommended SBMP protocols include servicewide standards (such as gap analysis, minimum accuracy, final products) as well as standards that can be adapted to fit network and park unit needs (for example, minimum mapping unit, mapping priorities). SBMP Mapping Process. The SBMP calls for a multi-step mapping process for each park, beginning with a gap assessment and data mining to determine data resources and needs. An interagency announcement of intent to acquire new data will provide opportunities to leverage partnerships. Prior to new data acquisition, all involved parties should be included in a scoping meeting held at network scale. Data collection will be followed by processing and interpretation, and finally expert review and publication. After publication, all digital materials will be archived in a common format. SBMP Classification Scheme. The SBMP will map using the Coastal and Marine Ecological

CrowdMapping: A Crowdsourcing-Based Terminology Mapping Method for Medical Data Standardization.

Science.gov (United States)

Mao, Huajian; Chi, Chenyang; Huang, Boyu; Meng, Haibin; Yu, Jinghui; Zhao, Dongsheng

2017-01-01

Standardized terminology is the prerequisite of data exchange in analysis of clinical processes. However, data from different electronic health record systems are based on idiosyncratic terminology systems, especially when the data is from different hospitals and healthcare organizations. Terminology standardization is necessary for the medical data analysis. We propose a crowdsourcing-based terminology mapping method, CrowdMapping, to standardize the terminology in medical data. CrowdMapping uses a confidential model to determine how terminologies are mapped to a standard system, like ICD-10. The model uses mappings from different health care organizations and evaluates the diversity of the mapping to determine a more sophisticated mapping rule. Further, the CrowdMapping model enables users to rate the mapping result and interact with the model evaluation. CrowdMapping is a work-in-progress system, we present initial results mapping terminologies.

A Fine Physical Map of the Rice Chromosome 4

Science.gov (United States)

Zhao, Qiang; Zhang, Yu; Cheng, Zhukuan; Chen, Mingsheng; Wang, Shengyue; Feng, Qi; Huang, Yucheng; Li, Ying; Tang, Yesheng; Zhou, Bo; Chen, Zhehua; Yu, Shuliang; Zhu, Jingjie; Hu, Xin; Mu, Jie; Ying, Kai; Hao, Pei; Zhang, Lei; Lu, Yiqi; Zhang, Lei S.; Liu, Yilei; Yu, Zhen; Fan, Danlin; Weng, Qijun; Chen, Ling; Lu, Tingting; Liu, Xiaohui; Jia, Peixin; Sun, Tongguo; Wu, Yongrui; Zhang, Yujun; Lu, Ying; Li, Can; Wang, Rong; Lei, Haiyan; Li, Tao; Hu, Hao; Wu, Mei; Zhang, Runquan; Guan, Jianping; Zhu, Jia; Fu, Gang; Gu, Minghong; Hong, Guofan; Xue, Yongbiao; Wing, Rod; Jiang, Jiming; Han, Bin

2002-01-01

As part of an international effort to completely sequence the rice genome, we have produced a fine bacterial artificial chromosome (BAC)-based physical map of the Oryza sativa japonica Nipponbare chromosome 4 through an integration of 114 sequenced BAC clones from a taxonomically related subspecies O. sativa indica Guangluai 4 and 182 RFLP and 407 expressed sequence tag (EST) markers with the fingerprinted data of the Nipponbare genome. The map consists of 11 contigs with a total length of 34.5 Mb covering 94% of the estimated chromosome size (36.8 Mb). BAC clones corresponding to telomeres, as well as to the centromere position, were determined by BAC-pachytene chromosome fluorescence in situ hybridization (FISH). This gave rise to an estimated length ratio of 5.13 for the long arm and 2.9 for the short arm (on the basis of the physical map), which indicates that the short arm is a highly condensed one. The FISH analysis and physical mapping also showed that the short arm and the pericentromeric region of the long arm are rich in heterochromatin, which occupied 45% of the chromosome, indicating that this chromosome is likely very difficult to sequence. To our knowledge, this map provides the first example of a rapid and reliable physical mapping on the basis of the integration of the data from two taxonomically related subspecies. [The following individuals and institutions kindly provided reagents, samples, or unpublished information as indicated in the paper: S. McCouch, T. Sasaki, and Monsanto.] PMID:11997348

Concentrations of levofloxacin (HR 355) in the respiratory tract following a single oral dose in patients undergoing fibre-optic bronchoscopy.

Science.gov (United States)

Andrews, J M; Honeybourne, D; Jevons, G; Brenwald, N P; Cunningham, B; Wise, R

1997-10-01

Concentrations of levofloxacin were measured in bronchial biopsies, alveolar macrophages (AM), epithelial lining fluid (ELF) and serum following a single oral dose. Concentrations were measured by a microbiological assay method. A total of 35 patients undergoing fibre-optic bronchoscopy were studied. Mean serum, AM, ELF and biopsy concentrations were as follows. 0.5 h: 4.73 mg/L, 19.1 mg/L, 4.74 mg/L and 4.3 mg/kg; 1 h: 6.6 mg/L, 32.5 mg/L, 10.8 mg/L and 8.3 mg/kg; 2 h: 4.9 mg/L, 41.9 mg/L, 9.0 mg/L and 6.5 mg/kg; 4 h: 4.1 mg/L, 27.7 mg/L, 10.9 mg/L and 6.0 mg/kg; and 6-8 h: 4.0 mg/L, 38.4 mg/L, 9.6 mg/L and 4.0 mg/kg respectively. Mean serum and AM concentrations at 12-24 h were 1.2 and 13.9 mg/L respectively (concentrations in biopsy and ELF were only measurable in three of the six patients). These concentrations exceed the MIC90s of the common respiratory pathogens, Haemophilus influenzae (0.015 mg/L), Moraxella catarrhalis (0.06 mg/L) and Streptococcus pneumoniae (1 mg/L) and suggest that levofloxacin should be efficacious in the treatment of community- and hospital-acquired respiratory infection.

Features of the organization of bread wheat chromosome 5BS based on physical mapping

Czech Academy of Sciences Publication Activity Database

Salina, E.A.; Nesterov, V.; Frenkel, Z.; Kiseleva, V. I.; Timonova, E. M.; Magni, F.; Vrána, Jan; Šafář, Jan; Šimková, Hana; Doležel, Jaroslav; Korol, A.; Sergeeva, E.M.

2018-01-01

Roč. 19, FEB 9 (2018), č. článku 80. ISSN 1471-2164 R&D Projects: GA ČR GBP501/12/G090; GA MŠk(CZ) LO1204 Institutional support: RVO:61389030 Keywords : Chromosome 5BS * Genetic markers * Hexaploid wheat * Physical mapping * Sequencing * Synteny * Triticum aestivum Subject RIV: EB - Genetics ; Molecular Biology OBOR OECD: Genetics and heredity (medical genetics to be 3) Impact factor: 3.729, year: 2016

Longitudinal predictive ability of mapping models: examining post-intervention EQ-5D utilities derived from baseline MHAQ data in rheumatoid arthritis patients.

Science.gov (United States)

Kontodimopoulos, Nick; Bozios, Panagiotis; Yfantopoulos, John; Niakas, Dimitris

2013-04-01

The purpose of this methodological study was to to provide insight into the under-addressed issue of the longitudinal predictive ability of mapping models. Post-intervention predicted and reported utilities were compared, and the effect of disease severity on the observed differences was examined. A cohort of 120 rheumatoid arthritis (RA) patients (60.0% female, mean age 59.0) embarking on therapy with biological agents completed the Modified Health Assessment Questionnaire (MHAQ) and the EQ-5D at baseline, and at 3, 6 and 12 months post-intervention. OLS regression produced a mapping equation to estimate post-intervention EQ-5D utilities from baseline MHAQ data. Predicted and reported utilities were compared with t test, and the prediction error was modeled, using fixed effects, in terms of covariates such as age, gender, time, disease duration, treatment, RF, DAS28 score, predicted and reported EQ-5D. The OLS model (RMSE = 0.207, R(2) = 45.2%) consistently underestimated future utilities, with a mean prediction error of 6.5%. Mean absolute differences between reported and predicted EQ-5D utilities at 3, 6 and 12 months exceeded the typically reported MID of the EQ-5D (0.03). According to the fixed-effects model, time, lower predicted EQ-5D and higher DAS28 scores had a significant impact on prediction errors, which appeared increasingly negative for lower reported EQ-5D scores, i.e., predicted utilities tended to be lower than reported ones in more severe health states. This study builds upon existing research having demonstrated the potential usefulness of mapping disease-specific instruments onto utility measures. The specific issue of longitudinal validity is addressed, as mapping models derived from baseline patients need to be validated on post-therapy samples. The underestimation of post-treatment utilities in the present study, at least in more severe patients, warrants further research before it is prudent to conduct cost-utility analyses in the context

A physical map of the heterozygous grapevine 'Cabernet Sauvignon' allows mapping candidate genes for disease resistance

Directory of Open Access Journals (Sweden)

Scalabrin Simone

2008-06-01

Full Text Available Abstract Background Whole-genome physical maps facilitate genome sequencing, sequence assembly, mapping of candidate genes, and the design of targeted genetic markers. An automated protocol was used to construct a Vitis vinifera 'Cabernet Sauvignon' physical map. The quality of the result was addressed with regard to the effect of high heterozygosity on the accuracy of contig assembly. Its usefulness for the genome-wide mapping of genes for disease resistance, which is an important trait for grapevine, was then assessed. Results The physical map included 29,727 BAC clones assembled into 1,770 contigs, spanning 715,684 kbp, and corresponding to 1.5-fold the genome size. Map inflation was due to high heterozygosity, which caused either the separation of allelic BACs in two different contigs, or local mis-assembly in contigs containing BACs from the two haplotypes. Genetic markers anchored 395 contigs or 255,476 kbp to chromosomes. The fully automated assembly and anchorage procedures were validated by BAC-by-BAC blast of the end sequences against the grape genome sequence, unveiling 7.3% of chimerical contigs. The distribution across the physical map of candidate genes for non-host and host resistance, and for defence signalling pathways was then studied. NBS-LRR and RLK genes for host resistance were found in 424 contigs, 133 of them (32% were assigned to chromosomes, on which they are mostly organised in clusters. Non-host and defence signalling genes were found in 99 contigs dispersed without a discernable pattern across the genome. Conclusion Despite some limitations that interfere with the correct assembly of heterozygous clones into contigs, the 'Cabernet Sauvignon' physical map is a useful and reliable intermediary step between a genetic map and the genome sequence. This tool was successfully exploited for a quick mapping of complex families of genes, and it strengthened previous clues of co-localisation of major NBS-LRR clusters and

Nature of the bonding in the AuNgX (Ng = Ar, Kr, Xe; X = F, Cl, Br, I) molecules. Topological study on electron density and the electron localization function (ELF).

Science.gov (United States)

Makarewicz, Emilia; Gordon, Agnieszka J; Berski, Slawomir

2015-03-19

Topological analysis of the electron localization function (ELF) has been carried out for the AuNgX (Ng = Ar, Kr, Xe; X = F, Cl, Br, I) molecules using the wave function approximated by the CCSD, MP2, and DFT(B3LYP, M062X) methods including zero-order regular approximation (ZORA). In the Ng-F bond, the bonding disynaptic attractor V(Ng,F) is missing; therefore, there are no signs of the covalent binding. The nature of the Au-Ng bond depends on the computational method used. Analysis of the ELF carried out for the AuArF and AuXeF molecules, with the wave function approximated by the CCSD and MP2 methods, shows the V(Au,Ng) attractor possibly corresponding to a partially covalent binding between the gold and noble gas atom. However, its very small basin population (<1e) and a very large value of the variance of the basin population suggest that the Au-Ng bond has a very delocalized character. Such bond nature may be related to the charge shift concept with a resonance of the Au(-+)NgX, Au(+-)NgX hybrids. The weakest Au-Ng bond, in terms of the smallest amount of electron density for the V(Au,Ng) basin, is found for the AuKrF molecule with the CCSD method (0.13e). The MP2 method, however, does not yield any V(Au, Ng) population; hence, the covalent Au-Kr bond is not confirmed. Because the V(Au,Ng) attractor is also not observed with the DFT method, the proper characterization of the Au-Ng bond requires proper description of correlation effects. Additional studies on the Au2 and [AuXe](+) molecules, performed at the CCSD and B3LYP levels, exhibit no V(Au,Au) and V(Au,Xe) bonding basins either.

Improvement of algorithm using Kohonen`s self-organizing feature map for the traveling salesman problem; Kohonen jiko soshikika tokucho mappu wo mochiita ukai serusuman mondai kaiho no kairyo

Energy Technology Data Exchange (ETDEWEB)

Fujimura, K.; Tokutaka, H.; Tanaka, H.; Kishida, S. [Tottori Univ., Tottori (Japan); Oshima, Y. [Mita Industrial Co. Ltd., Osaka (Japan)

1996-02-20

Traveling salesman problem (TSP) is one of the combinatorial optimization problems. The solution of this problem is to seek the way of how to visit every city only once within the shortest traveling distance. The solutions of this problem are studied a lot hitherto since they are the index for observing the basic properties of optimization algorithm. The method of Angeniol using the elf-organizing feature map is greatly forceful from the viewpoint of its short calculating time. In this study, regarding the algorithm of Angeniol, the conditions of obtaining the shortest tour length within shorter time are examined. Namely, a half of calculating time is reduced by changing Angeniol method into the method of making the node create after the searches of M cities. Additionally, the calculating time for unchanged tour length is reduced to one fourth by adding an inertia item in accordance with the variation of the number of total nodes. 14 refs., 8 figs.

Smart "geomorphological" map browsing - a tale about geomorphological maps and the internet

Science.gov (United States)

Geilhausen, M.; Otto, J.-C.

2012-04-01

With the digital production of geomorphological maps, the dissemination of research outputs now extends beyond simple paper products. Internet technologies can contribute to both, the dissemination of geomorphological maps and access to geomorphologic data and help to make geomorphological knowledge available to a greater public. Indeed, many national geological surveys employ end-to-end digital workflows from data capture in the field to final map production and dissemination. This paper deals with the potential of web mapping applications and interactive, portable georeferenced PDF maps for the distribution of geomorphological information. Web mapping applications such as Google Maps have become very popular and widespread and increased the interest and access to mapping. They link the Internet with GIS technology and are a common way of presenting dynamic maps online. The GIS processing is performed online and maps are visualised in interactive web viewers characterised by different capabilities such as zooming, panning or adding further thematic layers, with the map refreshed after each task. Depending on the system architecture and the components used, advanced symbology, map overlays from different applications and sources and their integration into a Desktop GIS are possible. This interoperability is achieved through the use of international open standards that include mechanisms for the integration and visualisation of information from multiple sources. The portable document format (PDF) is commonly used for printing and is a standard format that can be processed by many graphic software and printers without loss of information. A GeoPDF enables the sharing of geospatial maps and data in PDF documents. Multiple, independent map frames with individual spatial reference systems are possible within a GeoPDF, for example, for map overlays or insets. Geospatial functionality of a GeoPDF includes scalable map display, layer visibility control, access to attribute

Oxygen atom transfer reactions from Mimoun complexes to sulfides and sulfoxides. A bonding evolution theory analysis.

Science.gov (United States)

González-Navarrete, Patricio; Sensato, Fabricio R; Andrés, Juan; Longo, Elson

2014-08-07

In this research, a comprehensive theoretical investigation has been conducted on oxygen atom transfer (OAT) reactions from Mimoun complexes to sulfides and sulfoxides. The joint use of the electron localization function (ELF) and Thom's catastrophe theory (CT) provides a powerful tool to analyze the evolution of chemical events along a reaction pathway. The progress of the reaction has been monitored by structural stability domains from ELF topology while the changes between them are controlled by turning points derived from CT which reveal that the reaction mechanism can be separated in several steps: first, a rupture of the peroxo O1-O2 bond, then a rearrangement of lone pairs of the sulfur atom occurs and subsequently the formation of S-O1 bond. The OAT process involving the oxidation of sulfides and sulfoxides is found to be an asynchronous process where O1-O2 bond breaking and S-O1 bond formation processes do not occur simultaneously. Nucleophilic/electrophilic characters of both dimethyl sulfide and dimethyl sulfoxide, respectively, are sufficiently described by our results, which hold the key to unprecedented insight into the mapping of electrons that compose the bonds while the bonds change.

Electron velocity map imaging and theoretical study on CuXH (X = O and S) anions

Science.gov (United States)

Qin, Zhengbo; Wang, Hui; Ren, Yangdi; Zheng, Xianfeng; Cui, Zhifeng; Tang, Zichao

2018-01-01

Vibrationally resolved photoelectron spectra of CuOH- and CuSH- have been determined via velocity map imaging method to investigate the transitions of X1A‧ ← X2A‧ at 532 nm. Adiabatic detachment energies of CuOH- and CuSH- are assigned to 0.995(12) and 1.098(12) eV, respectively. Combined theoretical calculations with Franck-Condon simulations, it allows extracting the vibrational frequencies in neutral, which yields 629(32) cm-1 with Cusbnd O stretching mode and 387(24) cm-1 with Cusbnd S stretching mode for CuXH (X = O and S). Parallel transition properties of photoelectron angular distributions (PADs) for both species are correlated to the photodetachment of SOMO orbitals, which mainly involved in the Cu atom s orbital and partial s orbital in other atoms. Based on chemical bonding analyses (Wiberg, NAO, Mayer, NRT, and ELF), it is suggested that a trend is observed with a subtle variation of covalent component from weak covalent behavior between Cusbnd O in CuOH-1/0 to stronger covalent bonding between Cusbnd S in CuSH-1/0 (especially for non-ignorable covalent component in CuSH species) though ionic bonding dominates both in Cusbnd O and Cusbnd S bonds for the two systems.

Islands of biogeodiversity in arid lands on a polygons map study: Detecting scale invariance patterns from natural resources maps.

Science.gov (United States)

Ibáñez, J J; Pérez-Gómez, R; Brevik, Eric C; Cerdà, A

2016-12-15

Many maps (geology, hydrology, soil, vegetation, etc.) are created to inventory natural resources. Each of these resources is mapped using a unique set of criteria, including scales and taxonomies. Past research indicates that comparing results of related maps (e.g., soil and geology maps) may aid in identifying mapping deficiencies. Therefore, this study was undertaken in Almeria Province, Spain to (i) compare the underlying map structures of soil and vegetation maps and (ii) investigate if a vegetation map can provide useful soil information that was not shown on a soil map. Soil and vegetation maps were imported into ArcGIS 10.1 for spatial analysis, and results then exported to Microsoft Excel worksheets for statistical analyses to evaluate fits to linear and power law regression models. Vegetative units were grouped according to the driving forces that determined their presence or absence: (i) climatophilous (ii) lithologic-climate; and (iii) edaphophylous. The rank abundance plots for both the soil and vegetation maps conformed to Willis or Hollow Curves, meaning the underlying structures of both maps were the same. Edaphophylous map units, which represent 58.5% of the vegetation units in the study area, did not show a good correlation with the soil map. Further investigation revealed that 87% of the edaphohygrophilous units were found in ramblas, ephemeral riverbeds that are not typically classified and mapped as soils in modern systems, even though they meet the definition of soil given by the most commonly used and most modern soil taxonomic systems. Furthermore, these edaphophylous map units tend to be islands of biodiversity that are threatened by anthropogenic activity in the region. Therefore, this study revealed areas that need to be revisited and studied pedologically. The vegetation mapped in these areas and the soils that support it are key components of the earth's critical zone that must be studied, understood, and preserved. Copyright © 2016

Protective effects of pulmonary epithelial lining fluid on oxidative stress and DNA single-strand breaks caused by ultrafine carbon black, ferrous sulphate and organic extract of diesel exhaust particles

Energy Technology Data Exchange (ETDEWEB)

Chuang, Hsiao-Chi [School of Respiratory Therapy, College of Medicine, Taipei Medical University, Taipei, Taiwan (China); Division of Pulmonary Medicine, Department of Internal Medicine, Shuang Ho Hospital, Taipei Medical University, Taipei, Taiwan (China); Cheng, Yi-Ling; Lei, Yu-Chen [Institute of Occupational Medicine and Industrial Hygiene, College of Public Health, National Taiwan University, Taipei, Taiwan (China); Chang, Hui-Hsien [Institute of Environmental Health, College of Public Health, National Taiwan University, Taipei, Taiwan (China); Cheng, Tsun-Jen, E-mail: tcheng@ntu.edu.tw [Institute of Occupational Medicine and Industrial Hygiene, College of Public Health, National Taiwan University, Taipei, Taiwan (China); Department of Public Health, College of Public Health, National Taiwan University, Taipei, Taiwan (China)

2013-02-01

Pulmonary epithelial lining fluid (ELF) is the first substance to make contact with inhaled particulate matter (PM) and interacts chemically with PM components. The objective of this study was to determine the role of ELF in oxidative stress, DNA damage and the production of proinflammatory cytokines following physicochemical exposure to PM. Ultrafine carbon black (ufCB, 15 nm; a model carbonaceous core), ferrous sulphate (FeSO{sub 4}; a model transition metal) and a diesel exhaust particle (DEP) extract (a model organic compound) were used to examine the acellular oxidative potential of synthetic ELF and non-ELF systems. We compared the effects of exposure to ufCB, FeSO{sub 4} and DEP extract on human alveolar epithelial Type II (A549) cells to determine the levels of oxidative stress, DNA single-strand breaks and interleukin-8 (IL-8) production in ELF and non-ELF systems. The effects of ufCB and FeSO{sub 4} on the acellular oxidative potential, cellular oxidative stress and DNA single-strand breakage were mitigated significantly by the addition of ELF, whereas there was no decrease following treatment with the DEP extract. There was no significant effect on IL-8 production following exposure to samples that were suspended in ELF/non-ELF systems. The results of the present study indicate that ELF plays an important role in the initial defence against PM in the pulmonary environment. Experimental components, such as ufCB and FeSO{sub 4}, induced the production of oxidative stress and led to DNA single-strand breaks, which were moderately prevented by the addition of ELF. These findings suggest that ELF plays a protective role against PM-driven oxidative stress and DNA damage. -- Highlights: ► To determine the role of ELF in ROS, DNA damage and IL-8 after exposure to PM. ► ufCB, FeSO{sub 4} and DEP extract were used to examine the protective effects of ELF. ► PM-driven oxidative stress and DNA single-strand breakage were mitigated by ELF. ► The findings

A Bayesian framework for cosmic string searches in CMB maps

Energy Technology Data Exchange (ETDEWEB)

Ciuca, Razvan; Hernández, Oscar F., E-mail: razvan.ciuca@mail.mcgill.ca, E-mail: oscarh@physics.mcgill.ca [Department of Physics, McGill University, 3600 rue University, Montréal, QC, H3A 2T8 (Canada)

2017-08-01

There exists various proposals to detect cosmic strings from Cosmic Microwave Background (CMB) or 21 cm temperature maps. Current proposals do not aim to find the location of strings on sky maps, all of these approaches can be thought of as a statistic on a sky map. We propose a Bayesian interpretation of cosmic string detection and within that framework, we derive a connection between estimates of cosmic string locations and cosmic string tension G μ. We use this Bayesian framework to develop a machine learning framework for detecting strings from sky maps and outline how to implement this framework with neural networks. The neural network we trained was able to detect and locate cosmic strings on noiseless CMB temperature map down to a string tension of G μ=5 ×10{sup −9} and when analyzing a CMB temperature map that does not contain strings, the neural network gives a 0.95 probability that G μ≤2.3×10{sup −9}.

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

Directory of Open Access Journals (Sweden)

Ching-Yu Cheng

2009-05-01

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

Demodulation effect is observed in neurones by exposure to low frequency modulated microwaves

Energy Technology Data Exchange (ETDEWEB)

Perez-Bruzon, R N; Figols, T; Azanza, M J [Laboratorio de Magnetobiologia, Departamento de Anatomia e Histologia Humanas, Facultad de Medicina, Universidad de Zaragoza (Spain); Moral, A del, E-mail: naogit@yahoo.co [Laboratorio de Magnetismo de Solidos, Departamento de Fisica de Materia Condensada and Instituto de Ciencia de Materiales de Aragon, Universidad de Zaragoza and CSIC (Spain)

2010-01-01

Neurones exposure to a microwave (carrier f{sub c}=13.6 GHz; power P {approx_equal} 5 mW; H{sub o} {approx_equal} 0.10 Am{sup -1} = 1.25 mOe; E{sub 0} {approx_equal} 3.5 V/m; {Delta}T {approx_equal} 0.01{sup 0}C; SAR: 3.1x10{sup -3} - 5.8x10{sup -3} W/Kg) EMF amplitude modulated by ELF-AC field (frequency, f{sub m}= 0-100 Hz) shows no electrophysiological effect under the carrier MF alone, but {sup f}requency resonances: at 2, 4, 8, 12, 16, 50, 100 Hz: demodulation effect. Resonances appear when applied ELF-MF is close to a dominant characteristic frequency of the neurone impulse Fourier spectrum. This is an interesting result considering that ELF-MF modulating RF or MW in the range of human EEG could induce frequency-resonant effects on exposed human brain.

ActionMap: A web-based software that automates loci assignments to framework maps.

Science.gov (United States)

Albini, Guillaume; Falque, Matthieu; Joets, Johann

2003-07-01

Genetic linkage computation may be a repetitive and time consuming task, especially when numerous loci are assigned to a framework map. We thus developed ActionMap, a web-based software that automates genetic mapping on a fixed framework map without adding the new markers to the map. Using this tool, hundreds of loci may be automatically assigned to the framework in a single process. ActionMap was initially developed to map numerous ESTs with a small plant mapping population and is limited to inbred lines and backcrosses. ActionMap is highly configurable and consists of Perl and PHP scripts that automate command steps for the MapMaker program. A set of web forms were designed for data import and mapping settings. Results of automatic mapping can be displayed as tables or drawings of maps and may be exported. The user may create personal access-restricted projects to store raw data, settings and mapping results. All data may be edited, updated or deleted. ActionMap may be used either online or downloaded for free (http://moulon.inra.fr/~bioinfo/).

Concentrations in plasma, epithelial lining fluid, alveolar macrophages and bronchial mucosa after a single intravenous dose of 1.6 mg/kg of iclaprim (AR-100) in healthy men.

Science.gov (United States)

Andrews, J; Honeybourne, D; Ashby, J; Jevons, G; Fraise, A; Fry, P; Warrington, S; Hawser, S; Wise, R

2007-09-01

A validated microbiological assay was used to measure concentrations of iclaprim (AR-100) in plasma, bronchial mucosa (BM), alveolar macrophages (AM) and epithelial lining fluid (ELF) after a single 1.6 mg/kg intravenous 60 min iv infusion of iclaprim. Male volunteers were randomly allocated to three nominal sampling time intervals 1-2 h (Group A), 3-4 h (Group B) and 5.5-7.0 h (Group C) after the start of the drug infusion. Mean iclaprim concentrations in plasma, BM, AM and ELF, respectively, were for Group A 0.59 mg/L (SD 0.18), 0.51 mg/kg (SD 0.17), 24.51 mg/L (SD 21.22) and 12.61 mg/L (SD 7.33); Group B 0.24 mg/L (SD 0.05), 0.35 mg/kg (SD 0.17), 7.16 mg/L (SD 1.91) and 6.38 mg/L (SD 5.17); and Group C 0.14 mg/L (SD 0.05), no detectable level in BM, 5.28 mg/L (SD 2.30) and 2.66 mg/L (SD 2.08). Iclaprim concentrations in ELF and AM exceeded the MIC(90) for penicillin-susceptible Streptococcus pneumoniae (MIC90 0.06 mg/L), penicillin-intermediate S. pneumoniae (MIC90 2 mg/L), penicillin-resistant S. pneumoniae (MIC90 4 mg/L) for 7, 7 and 4 h, respectively, and Chlamydia pneumoniae (MIC90 0.5 mg/L) for 7 h. Mean iclaprim concentrations in ELF exceeded the MIC90 for Haemophilus influenzae (MIC90 4 mg/L) and Moraxella catarrhalis (MIC90 8 mg/L) for up to 4 and 2 h, respectively; in AM the MIC90 was exceeded for up to 7 h. Furthermore, the MIC90 for methicillin-resistant Staphylococcus aureus of 0.12 mg/L was exceeded at all sites for up to 7 h. These data suggest that iclaprim reaches lung concentrations that should be effective in the treatment of community-acquired pneumonia.

Global 30m 2000-2014 Surface Water Dynamics Map Derived from All Landsat 5, 7, and 8

Science.gov (United States)

Hudson, A.; Hansen, M.

2015-12-01

Water is critical for human life, agriculture, and ecosystems. A better understanding of where it is and how it is changing will enable better management of this valuable resource and guide protection of sensitive ecological areas. Global water maps have typically been representations of surface water at one given time. However, there is both seasonal and interannual variability: rivers meander, lakes disappear, floods arise. To address this ephemeral nature of water, in this study University of Maryland has developed a method that analyzes every Landsat 5, 7, and 8 scene from 1999-2015 to produce global seasonal maps (Winter, Spring, Summer, Fall) of surface water dynamics from 2000-2014. Each Landsat scene is automatically classified into land, water, cloud, haze, shadow, and snow via a decision tree algorithm. The land and water observations are aggregated per pixel into percent occurrence of water in a 3 year moving window for each meteorological season. These annual water percentages form a curve for each season that is discretized into a continuous 3 band RGB map. Frequency of water observation and type of surface water change (loss, gain, peak, or dip) is clearly seen through brightness and hue respectively. Additional data layers include: the year the change began, peak year, minimum year, and the year the change process ended. Currently these maps have been created for 18 1°x1° test tiles scattered around the world, and a portion of the September-November map over Bangladesh is shown below. The entire Landsat archive from 1999-2015 will be processed through a partnership with Google Earth Engine to complete the global product in the coming months. In areas where there is sufficient satellite data density (e.g. the United States), this project could be expanded to 1984-2015. This study provides both scientific researchers and the public an understandable, temporally rich, and globally consistent map showing surface water changes over time.

High-resolution spatiotemporal mapping of PM2.5 concentrations at Mainland China using a combined BME-GWR technique

Science.gov (United States)

Xiao, Lu; Lang, Yichao; Christakos, George

2018-01-01

With rapid economic development, industrialization and urbanization, the ambient air PM2.5 has become a major pollutant linked to respiratory, heart and lung diseases. In China, PM2.5 pollution constitutes an extreme environmental and social problem of widespread public concern. In this work we estimate ground-level PM2.5 from satellite-derived aerosol optical depth (AOD), topography data, meteorological data, and pollutant emission using an integrative technique. In particular, Geographically Weighted Regression (GWR) analysis was combined with Bayesian Maximum Entropy (BME) theory to assess the spatiotemporal characteristics of PM2.5 exposure in a large region of China and generate informative PM2.5 space-time predictions (estimates). It was found that, due to its integrative character, the combined BME-GWR method offers certain improvements in the space-time prediction of PM2.5 concentrations over China compared to previous techniques. The combined BME-GWR technique generated realistic maps of space-time PM2.5 distribution, and its performance was superior to that of seven previous studies of satellite-derived PM2.5 concentrations in China in terms of prediction accuracy. The purely spatial GWR model can only be used at a fixed time, whereas the integrative BME-GWR approach accounts for cross space-time dependencies and can predict PM2.5 concentrations in the composite space-time domain. The 10-fold results of BME-GWR modeling (R2 = 0.883, RMSE = 11.39 μg /m3) demonstrated a high level of space-time PM2.5 prediction (estimation) accuracy over China, revealing a definite trend of severe PM2.5 levels from the northern coast toward inland China (Nov 2015-Feb 2016). Future work should focus on the addition of higher resolution AOD data, developing better satellite-based prediction models, and related air pollutants for space-time PM2.5 prediction purposes.

A comparative map viewer integrating genetic maps for Brassica and Arabidopsis

Directory of Open Access Journals (Sweden)

Erwin Timothy A

2007-07-01

Full Text Available Abstract Background Molecular genetic maps provide a means to link heritable traits with underlying genome sequence variation. Several genetic maps have been constructed for Brassica species, yet to date, there has been no simple means to compare this information or to associate mapped traits with the genome sequence of the related model plant, Arabidopsis. Description We have developed a comparative genetic map database for the viewing, comparison and analysis of Brassica and Arabidopsis genetic, physical and trait map information. This web-based tool allows users to view and compare genetic and physical maps, search for traits and markers, and compare genetic linkage groups within and between the amphidiploid and diploid Brassica genomes. The inclusion of Arabidopsis data enables comparison between Brassica maps that share no common markers. Analysis of conserved syntenic blocks between Arabidopsis and collated Brassica genetic maps validates the application of this system. This tool is freely available over the internet on http://bioinformatics.pbcbasc.latrobe.edu.au/cmap. Conclusion This database enables users to interrogate the relationship between Brassica genetic maps and the sequenced genome of A. thaliana, permitting the comparison of genetic linkage groups and mapped traits and the rapid identification of candidate genes.

Genome Maps, a new generation genome browser.

Science.gov (United States)

Medina, Ignacio; Salavert, Francisco; Sanchez, Rubén; de Maria, Alejandro; Alonso, Roberto; Escobar, Pablo; Bleda, Marta; Dopazo, Joaquín

2013-07-01

Genome browsers have gained importance as more genomes and related genomic information become available. However, the increase of information brought about by new generation sequencing technologies is, at the same time, causing a subtle but continuous decrease in the efficiency of conventional genome browsers. Here, we present Genome Maps, a genome browser that implements an innovative model of data transfer and management. The program uses highly efficient technologies from the new HTML5 standard, such as scalable vector graphics, that optimize workloads at both server and client sides and ensure future scalability. Thus, data management and representation are entirely carried out by the browser, without the need of any Java Applet, Flash or other plug-in technology installation. Relevant biological data on genes, transcripts, exons, regulatory features, single-nucleotide polymorphisms, karyotype and so forth, are imported from web services and are available as tracks. In addition, several DAS servers are already included in Genome Maps. As a novelty, this web-based genome browser allows the local upload of huge genomic data files (e.g. VCF or BAM) that can be dynamically visualized in real time at the client side, thus facilitating the management of medical data affected by privacy restrictions. Finally, Genome Maps can easily be integrated in any web application by including only a few lines of code. Genome Maps is an open source collaborative initiative available in the GitHub repository (https://github.com/compbio-bigdata-viz/genome-maps). Genome Maps is available at: http://www.genomemaps.org.

PLOT3D (version-5): a computer code for drawing three dimensional graphs, maps and histograms, in single or multiple colours, for mono or stereoscopic viewing

International Nuclear Information System (INIS)

Jayaswal, Balhans

1987-01-01

PLOT3D series of graphic codes (version 1 to 5) have been developed for drawing three dimensional graphs, maps, histograms and simple layout diagrams on monochrome or colour raster graphic terminal and plotter. Of these, PLOT3D Version-5 is an advanced code, equipped with several features that make it specially suitable for drawing 3D maps, multicolour 3D and contour graphs, and 3D layout diagrams, in axonometric or perspective projection. Prior to drawing, graphic parameters that define orientation, magnification, smoothening, shading, colour-map, etc. of the figure can be selected interactively by means of simple commands on the user terminal, or by reading those commands from an input data file. This code requires linking with any one of three supporting libraries: PLOT 10 TCS, PLOT 10 IGL, and CALCOMP, and the figure can be plotted in single colour, or displayed in single or multiple colours depending upon the type of library support and output device. Furthermore, this code can also be used to plot left and right eye view projections of 3D figure for composing a stereoscopic image from them with the aid of a viewer. 14 figures. (author)

YouGenMap: a web platform for dynamic multi-comparative mapping and visualization of genetic maps

Science.gov (United States)

Keith Batesole; Kokulapalan Wimalanathan; Lin Liu; Fan Zhang; Craig S. Echt; Chun Liang

2014-01-01

Comparative genetic maps are used in examination of genome organization, detection of conserved gene order, and exploration of marker order variations. YouGenMap is an open-source web tool that offers dynamic comparative mapping capability of users' own genetic mapping between 2 or more map sets. Users' genetic map data and optional gene annotations are...

English as a lingua franca in higher education

DEFF Research Database (Denmark)

Björkman, Beyza

2011-01-01

The last decade has brought a number of changes for higher education in continental Europe and elsewhere, a major one being the increasing use of English as a lingua franca (ELF) as the medium of instruction. With this change, EAP is faced with a new group of learners who will need to use...... it predominantly in ELF settings to communicate with speakers from other first language backgrounds. This overview paper first discusses the changes that have taken place in the field of EAP in terms of student body, followed by an outline of the main findings of research carried out on ELF. These changes...... and the results of recent ELF research have important implications for EAP instruction and testing. It is argued here that EAP needs to be modified accordingly to cater for the needs of this group. These revolve around the two major issues: norms and standards for spoken English and target use. If the aim of EAP...

A q-deformed nonlinear map

International Nuclear Information System (INIS)

Jaganathan, Ramaswamy; Sinha, Sudeshna

2005-01-01

A scheme of q-deformation of nonlinear maps is introduced. As a specific example, a q-deformation procedure related to the Tsallis q-exponential function is applied to the logistic map. Compared to the canonical logistic map, the resulting family of q-logistic maps is shown to have a wider spectrum of interesting behaviours, including the co-existence of attractors-a phenomenon rare in one-dimensional maps

A new CYP21A1P/CYP21A2 chimeric gene identified in an Italian woman suffering from classical congenital adrenal hyperplasia form

Science.gov (United States)

Concolino, Paola; Mello, Enrica; Minucci, Angelo; Giardina, Emiliano; Zuppi, Cecilia; Toscano, Vincenzo; Capoluongo, Ettore

2009-01-01

Background More than 90% of Congenital Adrenal Hyperplasia (CAH) cases are associated with mutations in the 21-hydroxylase gene (CYP21A2) in the HLA class III area on the short arm of chromosome 6p21.3. In this region, a 30 kb deletion produces a non functional chimeric gene with its 5' and 3' ends corresponding to CYP21A1P pseudogene and CYP21A2, respectively. To date, five different CYP21A1P/CYP21A2 chimeric genes have been found and characterized in recent studies. In this paper, we describe a new CYP21A1P/CYP21A2 chimera (CH-6) found in an Italian CAH patient. Methods Southern blot analysis and CYP21A2 sequencing were performed on the patient. In addition, in order to isolate the new CH-6 chimeric gene, two different strategies were used. Results The CYP21A2 sequencing analysis showed that the patient was homozygote for the g.655C/A>G mutation and heterozygote for the p.P30L missense mutation. In addition, the promoter sequence revealed the presence, in heterozygosis, of 13 SNPs generally produced by microconversion events between gene and pseudogene. Southern blot analysis showed that the woman was heterozygote for the classic 30-kb deletion producing a new CYP21A1P/CYP21A2 chimeric gene (CH-6). The hybrid junction site was located between the end of intron 2 pseudogene, after the g.656C/A>G mutation, and the beginning of exon 3, before the 8 bp deletion. Consequently, CH-6 carries three mutations: the weak pseudogene promoter region, the p.P30L and the g.655C/A>G splice mutation. Conclusion We describe a new CYP21A1P/CYP21A2 chimera (CH-6), associated with the HLA-B15, DR13 haplotype, in a young Italian CAH patient. PMID:19624807

Acid Deposition Maps in Spain

International Nuclear Information System (INIS)

Artinano, B.; Cabal, H.; Garcia, C.

1998-01-01

Animal and monthly deposition velocity and total sulfur deposition maps have been performed for the peninsular Spain for 1992 by using the inferential method. To do this, updated databases with high space and time resolution, for land uses (CORINE) and meteorological information from analysis modelling for the same year, have been utilized. The final result are deposition maps in a 5x5 Km 2 grid which allow to assess the methodology used in Europe to obtain the maps of excedances over the critical loads of pollutants. (Author) 32 refs

Inducible Activation of ERK5 MAP Kinase Enhances Adult Neurogenesis in the Olfactory Bulb and Improves Olfactory Function

Science.gov (United States)

Wang, Wenbin; Lu, Song; Li, Tan; Pan, Yung-Wei; Zou, Junhui; Abel, Glen M.; Xu, Lihong; Storm, Daniel R.

2015-01-01

Recent discoveries have suggested that adult neurogenesis in the subventricular zone (SVZ) and olfactory bulb (OB) may be required for at least some forms of olfactory behavior in mice. However, it is unclear whether conditional and selective enhancement of adult neurogenesis by genetic approaches is sufficient to improve olfactory function under physiological conditions or after injury. Furthermore, specific signaling mechanisms regulating adult neurogenesis in the SVZ/OB are not fully defined. We previously reported that ERK5, a MAP kinase selectively expressed in the neurogenic regions of the adult brain, plays a critical role in adult neurogenesis in the SVZ/OB. Using a site-specific knock-in mouse model, we report here that inducible and targeted activation of the endogenous ERK5 in adult neural stem/progenitor cells enhances adult neurogenesis in the OB by increasing cell survival and neuronal differentiation. This conditional ERK5 activation also improves short-term olfactory memory and odor-cued associative olfactory learning under normal physiological conditions. Furthermore, these mice show enhanced recovery of olfactory function and have more adult-born neurons after a zinc sulfate-induced lesion of the main olfactory epithelium. We conclude that ERK5 MAP kinase is an important endogenous signaling pathway regulating adult neurogenesis in the SVZ/OB, and that conditional activation of endogenous ERK5 is sufficient to enhance adult neurogenesis in the OB thereby improving olfactory function both under normal conditions and after injury. PMID:25995470

Diversity of the Marine Cyanobacterium Trichodesmium: Characterization of the Woods Hole Culture Collection and Quantification of Field Populations

Science.gov (United States)

2009-09-01

stations on all four cruises; Fig. 5-4 C), and Plec - tonema sp. (North Pacific MP09-19, North Atlantic EN361-1, 2, 3; Fig. 5-4 D). Calothrix sp. was found in...under a chlorophyll filter; (C) ELF-labeled heterotrophic bacteria (Sta. MP09-16, 11 Aug 03, puff); (D) ELF-labeled cyanobacterium Plec - tonema sp...epiphyte of the pelagic diatom Chaetoceros (Foster and Zehr, 2006). While Plec - tonema is known to fix N2 only in lowered oxygen tension (Rippka et al

Measurement of Air Pollution from Satellites (MAPS) Space Radar Laboratory - 2 (SRL2) Carbon Monoxide 5 degree by 5 degree data

Data.gov (United States)

National Aeronautics and Space Administration — MAPS OverviewThe MAPS experiment measures the global distribution of carbon monoxide (CO) mixing ratios in the free troposphere. Because of MAPS' previous flights on...

Genetically engineered fusion of MAP-1 and factor H domains 1-5 generates a potent dual upstream inhibitor of both the lectin and alternative complement pathways

DEFF Research Database (Denmark)

Nordmaj, Mie Anemone; Munthe-Fog, Lea; Hein, Estrid

2015-01-01

Inhibition of the complement cascade has emerged as an option for treatment of a range of diseases. Mannose-binding lectin/ficolin/collectin-associated protein (MAP-1) is a pattern recognition molecule (PRM)-associated inhibitor of the lectin pathway. The central regulator of the alternative......:4 in a solid-phase functional assay, only the first 5 N-terminal domains of complement FH fused to the C-terminal part of full-length MAP-1 chimeric construct were able to combine inhibition of lectin and AP activation with an half maximal inhibitory concentration of ∼ 100 and 20 nM, respectively. No effect...

Uncertainty assessment of PM2.5 contamination mapping using spatiotemporal sequential indicator simulations and multi-temporal monitoring data

Science.gov (United States)

Yang, Yong; Christakos, George; Huang, Wei; Lin, Chengda; Fu, Peihong; Mei, Yang

2016-04-01

Because of the rapid economic growth in China, many regions are subjected to severe particulate matter pollution. Thus, improving the methods of determining the spatiotemporal distribution and uncertainty of air pollution can provide considerable benefits when developing risk assessments and environmental policies. The uncertainty assessment methods currently in use include the sequential indicator simulation (SIS) and indicator kriging techniques. However, these methods cannot be employed to assess multi-temporal data. In this work, a spatiotemporal sequential indicator simulation (STSIS) based on a non-separable spatiotemporal semivariogram model was used to assimilate multi-temporal data in the mapping and uncertainty assessment of PM2.5 distributions in a contaminated atmosphere. PM2.5 concentrations recorded throughout 2014 in Shandong Province, China were used as the experimental dataset. Based on the number of STSIS procedures, we assessed various types of mapping uncertainties, including single-location uncertainties over one day and multiple days and multi-location uncertainties over one day and multiple days. A comparison of the STSIS technique with the SIS technique indicate that a better performance was obtained with the STSIS method.

Mapping posttranscriptional modifications in 5S ribosomal RNA by MALDI mass spectrometry.

Science.gov (United States)

Kirpekar, F; Douthwaite, S; Roepstorff, P