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https://www.readbyqxmd.com/read/28550644/high-genetic-diversity-of-giardia-duodenalis-assemblage-e-in-pre-weaned-dairy-calves-in-shanghai-china-revealed-by-multilocus-genotyping
#1
Xiaolan Wang, Min Cai, Wen Jiang, Yuping Wang, Yue Jin, Na Li, Yaqiong Guo, Yaoyu Feng, Lihua Xiao
Giardia duodenalis is a common parasitic protozoan in human and animals. Epidemiological and molecular data are available from dairy cattle in many industrialized countries, but information on genetic diversity at multiple genetic loci is limited, especially in pre-weaned dairy calves. In this study, 818 fecal specimens were collected from five dairy cattle farms located in suburbs of Shanghai, China, with two to five samplings per farm. G. duodenalis assemblages and subtypes were determined using multilocus genotyping (MLG) at the β-giardin (bg), glutamate dehydrogenase (gdh), and triosephosphate isomerase (tpi) loci...
May 26, 2017: Parasitology Research
https://www.readbyqxmd.com/read/28550605/high-throughput-snp-genotyping-of-modern-and-wild-emmer-wheat-for-yield-and-root-morphology-using-a-combined-association-and-linkage-analysis
#2
Stuart J Lucas, Ayten Salantur, Selami Yazar, Hikmet Budak
Durum wheat (Triticum turgidum var. durum Desf.) is a major world crop that is grown primarily in areas of the world that experience periodic drought, and therefore, breeding climate-resilient durum wheat is a priority. High-throughput single nucleotide polymorphism (SNP) genotyping techniques have greatly increased the power of linkage and association mapping analyses for bread wheat, but as yet there is no durum wheat-specific platform available. In this study, we evaluate the new 384HT Wheat Breeders Array for its usefulness in tetraploid wheat breeding by genotyping a breeding population of F6 hybrids, derived from multiple crosses between T...
May 26, 2017: Functional & Integrative Genomics
https://www.readbyqxmd.com/read/28550496/prostate-cancer-in-jordanian-arab-population-erg-status-and-relationship-with-clinicopathologic-characteristics
#3
Najla Aldaoud, Nour Abdo, Samir Al Bashir, Mohammad Alqudah, Noor Marji, Hiba Alzou'bi, Rami Alazab, Kiril Trpkov
TMPRSS2/ERG fusion was found to be the most common genetic event in prostate adenocarcinoma. There is a strong correlation between the fusion and ERG-positive immunostaining. Many studies showed racial variation in ERG expression in prostate cancer patients. There is no data however on the rate of ERG-positive cancer in Jordanian or Arab population. We evaluated the frequency and the significance of ERG fusion in Jordanian-Arab population using immunohistochemistry for ERG. The cohort included 193 prostate cancer specimens: 109 needle core biopsies, 45 radical prostatectomies, 37 transurethral resections of prostate, and 2 enucleation specimens...
May 26, 2017: Virchows Archiv: An International Journal of Pathology
https://www.readbyqxmd.com/read/28550018/a-unified-characterization-of-population-structure-and-relatedness
#4
Bruce S Weir, Jérôme Goudet
Many population genetic activities, ranging from evolutionary studies to association mapping to forensic identification, rely on appropriate estimates of population structure or relatedness. All applications require recognition that quantities with an underlying meaning of allelic dependence are not defined in an absolute sense, but instead are made "relative to" some set of alleles other than the target set. The 1984 Weir and Cockerham FST estimate made explicit that the reference set of alleles was across populations, whereas standard kinship estimates do not make the reference explicit...
May 26, 2017: Genetics
https://www.readbyqxmd.com/read/28550015/statistical-methods-for-latent-class-quantitative-trait-loci-mapping
#5
Shuyun Ye, Rhonda Bacher, Mark P Keller, Alan D Attie, Christina Kendziorski
Identifying the genetic basis of complex traits is an important problem with the potential to impact a broad range of biological endeavors. A number of effective statistical methods are available for quantitative trait loci (QTL) mapping that allow for the efficient identification of multiple, potentially interacting, loci under a variety of experimental conditions. Although proven useful in hundreds of studies, the majority of these methods assume a single model common to each subject and consequently sacrifice power and accuracy when genetically distinct subclasses exist...
May 26, 2017: Genetics
https://www.readbyqxmd.com/read/28550012/the-genetic-architecture-of-ovariole-number-in-drosophila-melanogaster-genes-with-major-quantitative-and-pleiotropic-effects
#6
Amanda S Lobell, Rachel R Kaspari, Yazmin L Serrano Negron, Susan T Harbison
Ovariole number has a direct role in the number of eggs produced by an insect, suggesting that it is a key morphological fitness trait. Many studies have documented the variability of ovariole number and its relationship to other fitness and life-history traits in natural populations of Drosophila However, the genes contributing to this variability are largely unknown. Here we conducted a genome-wide association study of ovariole number in a natural population of flies. Using mutations and RNAi-mediated knockdown, we confirmed the effects of twenty-four candidate genes on ovariole number, including a novel gene, anneboleyn (formerly CG32000), that impacts both ovariole morphology and numbers of offspring produced...
May 26, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/28549997/deep-sequencing-of-atrial-fibrillation-patients-with-mitral-valve-regurgitation-shows-no-evidence-of-mosaicism-but-reveals-novel-rare-germline-variants
#7
Emilie Gregers, Gustav Ahlberg, Thea Christensen, Javad Jabbari, Kirstine O Larsen, Cecilie B Herfelt, Kristoffer M Henningsen, Laura Andreasen, Jens J Thiis, Jens Lund, Susanne Holme, Stig Haunsø, Bo H Bentzen, Nicole Schmitt, Jesper H Svendsen, Morten S Olesen
BACKGROUND: Atrial fibrillation (AF) is the most common cardiac arrhythmia. Valvular heart disease is a strong predictor, yet the underlying molecular mechanisms are unknown. OBJECTIVE: We sought to investigate the prevalence of somatic variants in AF candidate genes in an AF patient population undergoing surgery for mitral valve regurgitation (MVR) to determine whether these patients are genetically predisposed to AF. METHODS: DNA was extracted from blood and left atrial tissue from 44 AF patients with MVR...
May 23, 2017: Heart Rhythm: the Official Journal of the Heart Rhythm Society
https://www.readbyqxmd.com/read/28549856/three-decades-of-managing-tomato-spotted-wilt-virus-in-peanut-in-southeastern-united-states
#8
REVIEW
R Srinivasan, M R Abney, A K Culbreath, R C Kemerait, R S Tubbs, W S Monfort, H R Pappu
Southeastern states namely Georgia, Florida, and Alabama produce two-thirds of the peanuts in the United States. Thrips-transmitted Tomato spotted wilt virus (TSWV), which causes spotted wilt disease, has been a major impediment to peanut production for the past three decades. The cultivars grown in the 1980s were extremely susceptible to TSWV. Early yield losses extended to tens of millions of dollars each year (up to 100% loss in many fields). This situation led to the creation of an interdisciplinary team known as "SWAT: Spotted Wilt Action Team"...
May 23, 2017: Virus Research
https://www.readbyqxmd.com/read/28549553/genetic-polymorphisms-of-12-x-str-loci-in-shaanxi-han-population-from-china
#9
Mao Sun, YunTao Zhang, XiaoNan Zhang, ShanMin Fu, YuanMing Wu
Allele frequencies for 12 X STR loci (DXS8378, DXS10159, DXS10162, DXS10164, DXS981, DXS6789, DXS7424, DXS101, DXS7133, GATA165B12, GATA31E08 and DXS7423) were obtained from a sample of 518 unrelated individuals from Shaanxi, China. We observed a total of 108 alleles in the group with the allelic frequency values ranging from less than 0.0014 to 0.6768. Our statistic analysis indicates that the 12 X STR conform to the Hardy-Weinberg's equilibrium. Heterozygosity among the studied 12 X STR loci showed a distribution of 42...
May 2017: Legal Medicine
https://www.readbyqxmd.com/read/28549552/haplotype-diversity-of-17-y-chromosome-str-loci-in-han-population-from-different-areas-of-sichuan-province-southwest-china
#10
Guangyao Fan, Wei Li, Yi Ye, Xuebo Li, Wendong Ge, Yongqiang Yang, Bing Long
The distribution of 17 Y-chromosome short tandem repeat (STR) loci, included in the AmpFlSTR®Yfiler™ amplification kit, were analyzed in six different samplings (N=878) from Sichuan, China. Haplotype diversity and discrimination capacity (DC) values were calculated. Pairwise Rst values were evaluated in AMOVA analysis and visualized through multidimensional scaling (MDS). A total of 547 unique haplotypes were detected. The observed haplotype diversity and discrimination capacity were 0.9995 and 0.7745, respectively...
May 2017: Legal Medicine
https://www.readbyqxmd.com/read/28549550/forensic-efficiency-parameters-of-the-investigator-argus-x-12-kit-in-women-from-two-mestizo-and-seven-amerindian-populations-from-mexico
#11
I Cortés-Trujillo, B Ramos-González, O Salas-Salas, F Zuñiga-Chiquette, A Zetina Hernández, G Martínez-Cortés, M Ruiz-Hernández, A González-Martín, J F Ferragut, H Rangel-Villalobos
Allele frequency distribution and statistical parameters of forensic efficiency concerning the Investigator Argus X-12 kit (Qiagen, Hilden, Germany) were determined in a total sample of 641 unrelated Mexican females, including two Mestizo-admixed- populations (n=309) and seven Amerindian groups (n=332) from the main regions of the country. Most of the 12 X-STRs were in agreement with Hardy-Weinberg expectations in all nine Mexican populations. The power of discrimination in females (PD) and Median exclusion chance for trios (MECT) and duos (MECD) of this genetic system based on X-STRs were >99...
May 2017: Legal Medicine
https://www.readbyqxmd.com/read/28549546/population-genetic-analysis-of-xiamen-han-population-on-21-short-tandem-repeat-loci
#12
Lili Wu, Bin Pei, Peng Ran, Xiuyu Song
GlobalFiler™ Express amplification kit incorporates 21 commonly used autosomal short tandem repeat (STR) loci and three gender determination loci. In this study, we analyzed GlobalFiler STR loci on 1006 unrelated individuals sampled of the Han population from Xiamen city, Fujian province, China. No deviations from Hardy-Weinberg equilibrium were observed. The combined probability of exclusion (CPE) for all 21 STR loci were >0.99999999771. A comparison of the allele frequencies in the population under study has been performed with other published from East Asian population for the same loci...
May 2017: Legal Medicine
https://www.readbyqxmd.com/read/28549544/genetic-dissection-of-five-ethnic-groups-from-punjab-north-west-india-a-study-based-on-autosomal-markers
#13
Gagandeep Singh, Indu Talwar, Harkirat Singh Sandhu, Kawaljit Matharoo, A J S Bhanwer
The present study assessed the applicability of Alu insertion elements and Single Nucleotide Polymorphisms (SNPs) in forensic identification and estimated the extent of genetic variation in five major ethnic groups of Punjab, North-West India. A total of 1012 unrelated samples belonging to Banias, Brahmins, Jat Sikhs, Khatris and Scheduled Castes were genotyped for four Alu elements (ACE, APO, PLAT, D1) and six Single Nucleotide Polymorphisms [ESR (PvuII), LPL (PvuII), HTR2A (MspI), DRD2 Taq1A, Taq1B, Taq1D]...
May 2017: Legal Medicine
https://www.readbyqxmd.com/read/28549541/mitochondrial-control-region-diversity-in-sindhi-ethnic-group-of-pakistan
#14
Memona Yasmin, Allah Rakha, Saadia Noreen, Zeenat Salahuddin
The entire mitochondrial DNA control region (nt 16024-576) of 88 unrelated individuals of Sindhi ethnic group residing in different parts of Sindh province of Pakistan was sequenced. Out of 66 different observed haplotypes 50 were unique and 16 were shared by more than one individual. Results showed admixture of mtDNA pool constituting the haplogroups derived mainly from South Asia (47.6%) and West Eurasian (35.7%) whereas the contribution of the African haplogroup was very small (2.4%). High values of genetic diversity (0...
May 2017: Legal Medicine
https://www.readbyqxmd.com/read/28549482/several-strains-one-disease-experimental-investigation-of-vibrio-aestuarianus-infection-parameters-in-the-pacific-oyster-crassostrea-gigas
#15
Marie-Agnès Travers, Delphine Tourbiez, Leïla Parizadeh, Philippe Haffner, Angélique Kozic-Djellouli, Mohamed Aboubaker, Marcel Koken, Lionel Dégremont, Coralie Lupo
This study investigated oyster infection dynamics by different strains of Vibrio aestuarianus isolated before and after the apparent re-emergence of this pathogen observed in France in 2011. We conducted experiments to compare minimal infective dose, lethal dose 50 and bacterial shedding for six V. aestuarianus strains. Whatever the strain used, mortality was induced in juvenile oysters by intramuscular injection and reached 90-100% of mortality within 5 days. Moreover, bacterial shedding was comparable among strains and reached its maximum after 20 h (≈10 EXP5 bacteria/mL/animal)...
May 26, 2017: Veterinary Research
https://www.readbyqxmd.com/read/28549454/genomic-adaptation-to-agricultural-environments-cabbage-white-butterflies-pieris-rapae-as-a-case-study
#16
Kristin L Sikkink, Megan E Kobiela, Emilie C Snell-Rood
BACKGROUND: Agricultural environments have long presented an opportunity to study evolution in action, and genomic approaches are opening doors for testing hypotheses about adaptation to crops, pesticides, and fertilizers. Here, we begin to develop the cabbage white butterfly (Pieris rapae) as a system to test questions about adaptation to novel, agricultural environments. We focus on a population in the north central United States as a unique case study: here, canola, a host plant, has been grown during the entire flight period of the butterfly over the last three decades...
May 26, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28549205/genetic-divergence-among-corn-hybrids-and-combining-ability-for-agronomic-and-bromatological-traits-of-silage
#17
E Gralak, M V Faria, A S T Figueiredo, D A Rizzardi, M Neumann, M C Mendes, C A Scapim, S Galbeiro
We assessed the impact of genetic divergence and the ability to combine corn hybrids used for the production of silage on the agronomic and bromatological traits of silage quality. We evaluated 18 corn hybrids used as genitors in a circulant diallel scheme in which each genitor hybrid participated in 9 hybrid combinations, and evaluated 100 treatments [18 genitor hybrids, 81 diallelic hybrids, and a commercial check hybrid (DKB330)] in a triple lattice 10 x 10 experimental design in two environments in Brazil...
May 25, 2017: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/28549203/polymorphisms-in-the-melatonin-receptor-gene-promoter-and-their-associations-with-fertility-characteristics-in-buffalo-herd-in-eastern-amazon
#18
E M Barbosa, B B Souza, R C Guimarães, L K N Silva, J S N Azevedo, E C Gonçalves, H F L Ribeiro, S T Rolim Filho, E Silva Filho
Buffalo production is spreading globally because of its economic advantage. Then, it has become necessary to improve the reproductive and productive efficiency of these animals, as well as to look for genetic factors that increase this efficiency. The objectives of this study were to characterize the promoter region of the melatonin 1A receptor gene (MTRN1A), to detect possible SNPs and associate them with fertility characteristics, and identify binding sites of transcription factors involved in the regulation of genetic expression in buffaloes in the Amazon...
May 25, 2017: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/28549194/disentangling-timing-of-admixture-patterns-of-introgression-and-phenotypic-indicators-in-a-hybridizing-wolf-population
#19
M Galaverni, R Caniglia, L Pagani, E Fabbri, A Boattini, E Randi
Hybridization is a natural or anthropogenic process that can deeply affect the genetic make-up of populations, possibly decreasing individual fitness but sometimes favouring local adaptations. The population of Italian wolves (Canis lupus), after protracted demographic declines and isolation, is currently expanding in anthropic areas, with documented cases of hybridization with stray domestic dogs. However, identifying admixture patterns in deeply introgressed populations is far from trivial. In this study, we used a panel of 170,000 SNPs analysed with multivariate, Bayesian and local ancestry reconstruction methods to identify hybrids, estimate their ancestry proportions and timing since admixture...
May 26, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/28549175/selfing-in-haploid-plants-and-efficacy-of-selection-codon-usage-bias-in-the-model-moss-physcomitrella-patens
#20
Péter Szövényi, Kristian K Ullrich, Stefan A Rensing, Daniel Lang, Nico van Gessel, Hans K Stenøien, Elena Conti, Ralf Reski
Long term reduction in effective population size will lead to major shift in genome evolution. In particular, when effective population size is small, genetic drift becomes dominant over natural selection. The onset of self-fertilization is one evolutionary event considerably reducing effective size of populations. Theory predicts that this reduction should be more dramatic in organisms capable for haploid than for diploid selfing. Although theoretically well-grounded, this assertion received mixed experimental support...
May 26, 2017: Genome Biology and Evolution
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