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BMC Genetics

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https://www.readbyqxmd.com/read/28810876/prenatal-caloric-restriction-alters-lipid-metabolism-but-not-hepatic-fasn-gene-expression-and-methylation-profiles-in-rats
#1
Joanna Nowacka-Woszuk, Zofia E Madeja, Agata Chmurzynska
BACKGROUND: Undernutrition is an increasingly common problem. Insufficient calorie intake and nutrient deficiencies during pregnancy may have an impact not only on the mother, but may also alter metabolism in the infant. In this study, we have applied a calorie-restricted diet during gestation and examined its effect on hepatic Fasn mRNA and DNA methylation profiles in rats and their female progeny. The body composition and blood lipid profiles were also evaluated in both generations...
August 15, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28793859/investigating-knockdown-resistance-kdr-mechanism-against-pyrethroids-ddt-in-the-malaria-vector-anopheles-funestus-across-africa
#2
Helen Irving, Charles S Wondji
BACKGROUND: Understanding the molecular basis of insecticide resistance is key to improve the surveillance and monitoring of malaria vector populations under control. In the major malaria vector Anopheles funestus, little is currently known about the role of the knockdown resistance (kdr) mechanism. Here, we investigated the presence and contribution of knockdown resistance (kdr) to pyrethroids/DDT resistance observed in Anopheles funestus across Africa. RESULTS: Pyrosequencing genotyping and sequencing of the voltage gated sodium channel (VGSC) gene did not detect the common L1014F mutation in field collected An...
August 9, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28793857/mapping-of-leptin-and-its-syntenic-genes-to-chicken-chromosome-1p
#3
Eyal Seroussi, Frédérique Pitel, Sophie Leroux, Mireille Morisson, Susanne Bornelöv, Shoval Miyara, Sara Yosefi, Larry A Cogburn, David W Burt, Leif Anderson, Miriam Friedman-Einat
BACKGROUND: Misidentification of the chicken leptin gene has hampered research of leptin signaling in this species for almost two decades. Recently, the genuine leptin gene with a GC-rich (~70%) repetitive-sequence content was identified in the chicken genome but without indicating its genomic position. This suggests that such GC-rich sequences are difficult to sequence and therefore substantial regions are missing from the current chicken genome assembly. RESULTS: A radiation hybrid panel of chicken-hamster Wg3hCl2 cells was used to map the genome location of the chicken leptin gene...
August 9, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28789633/variations-in-5s-rdnas-in-diploid-and-tetraploid-offspring-of-red-crucian-carp-%C3%A3-common-carp
#4
Lihai Ye, Chun Zhang, Xiaojun Tang, Yiyi Chen, Shaojun Liu
BACKGROUND: The allotetraploid hybrid fish (4nAT) that was created in a previous study through an intergeneric cross between red crucian carp (Carassius auratus red var., ♀) and common carp (Cyprinus carpio L., ♂) provided an excellent platform to investigate the effect of hybridization and polyploidization on the evolution of 5S rDNA. The 5S rDNAs of paternal common carp were made up of a coding sequence (CDS) and a non-transcribed spacer (NTS) unit, and while the 5S rDNAs of maternal red crucian carp contained a CDS and a NTS unit, they also contained a variable number of interposed regions (IPRs)...
August 8, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28768473/a-de-novo-missense-mutation-of-fgfr2-causes-facial-dysplasia-syndrome-in-holstein-cattle
#5
Jørgen S Agerholm, Fintan J McEvoy, Steffen Heegaard, Carole Charlier, Vidhya Jagannathan, Cord Drögemüller
BACKGROUND: Surveillance for bovine genetic diseases in Denmark identified a hitherto unreported congenital syndrome occurring among progeny of a Holstein sire used for artificial breeding. A genetic aetiology due to a dominant inheritance with incomplete penetrance or a mosaic germline mutation was suspected as all recorded cases were progeny of the same sire. Detailed investigations were performed to characterize the syndrome and to reveal its cause. RESULTS: Seven malformed calves were submitted examination...
August 2, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28764663/erratum-to-detection-of-gene-environment-interactions-in-the-presence-of-linkage-disequilibrium-and-noise-by-using-genetic-risk-scores-with-internal-weights-from-elastic-net-regression
#6
Anke Hüls, Katja Ickstadt, Tamara Schikowski, Ursula Krämer
No abstract text is available yet for this article.
August 1, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28764649/genetic-structure-and-relationships-within-and-between-cultivated-and-wild-korarima-aframomum-corrorima-braun-p-c-m-jansen-in-ethiopia-as-revealed-by-simple-sequence-repeat-ssr-markers
#7
Dagmawit Chombe, Endashaw Bekele, Tomas Bryngelsson, Abel Teshome, Mulatu Geleta
BACKGROUND: Korarima [Aframomum corrorima (Braun) P.C.M. Jansen] is a spice crop native to Ethiopia. Understanding the extent and partitioning of diversity within and among crop landraces and their wild relatives is among the first steps in conserving and measuring their genetic potential. The present study is aimed at characterizing the population genetic structure and relationships between cultivated and wild korarima in the southwestern part of Ethiopia. RESULTS: We analyzed a total of 195 individuals representing seven wild and fourteen cultivated populations...
August 1, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28743254/association-between-serotonin-transporter-gene-polymorphisms-and-increased-suicidal-risk-among-hiv-positive-patients-in-uganda
#8
Allan Kalungi, Soraya Seedat, Sian M J Hemmings, Lize van der Merwe, Moses L Joloba, Ann Nanteza, Noeline Nakassujja, Harriet Birabwa, Jennifer Serwanga, Pontiano Kaleebu, Eugene Kinyanda
BACKGROUND: Persons living with HIV/AIDS (PLWHA) are at an increased risk of suicide. Increased suicidal risk is a predictor of future attempted and completed suicides and has been associated with poor quality of life and poor adherence with antiretroviral therapy. Clinical risk factors have low predictive value for suicide, hence the interest in potential neurobiological correlates and specific heritable markers of suicide vulnerability. The serotonin transporter gene has previously been implicated in the aetiology of increased suicidal risk in non-HIV infected study populations and its variations may provide a platform for identifying genetic risk for suicidality among PLWHA...
July 25, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28738830/resampling-based-tests-for-lasso-in-genome-wide-association-studies
#9
Jaron Arbet, Matt McGue, Snigdhansu Chatterjee, Saonli Basu
BACKGROUND: Genome-wide association studies involve detecting association between millions of genetic variants and a trait, which typically use univariate regression to test association between each single variant and the phenotype. Alternatively, Lasso penalized regression allows one to jointly model the relationship between all genetic variants and the phenotype. However, it is unclear how to best conduct inference on the individual Lasso coefficients, especially in high-dimensional settings...
July 24, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28732471/gene-expression-patterns-of-chicken-neuregulin-3-in-association-with-copy-number-variation-and-frameshift-deletion
#10
Hideaki Abe, Daiki Aoya, Hiro-Aki Takeuchi, Miho Inoue-Murayama
BACKGROUND: Neuregulin 3 (NRG3) plays a key role in central nervous system development and is a strong candidate for human mental disorders. Thus, genetic variation in NRG3 may have some impact on a variety of phenotypes in non-mammalian vertebrates. Recently, genome-wide screening for short insertions and deletions in chicken (Gallus gallus) genomes has provided useful information about structural variation in functionally important genes. NRG3 is one such gene that has a putative frameshift deletion in exon 2, resulting in premature termination of translation...
July 21, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28732466/estimation-of-linkage-disequilibrium-and-effective-population-size-in-new-zealand-sheep-using-three-different-methods-to-create-genetic-maps
#11
Vincent Prieur, Shannon M Clarke, Luiz F Brito, John C McEwan, Michael A Lee, Rudiger Brauning, Ken G Dodds, Benoît Auvray
BACKGROUND: Investments in genetic selection have played a major role in the New Zealand sheep industry competitiveness. Selection may erode genetic diversity, which is a crucial factor for the success of breeding programs. Better understanding of linkage disequilibrium (LD) and ancestral effective population size (Ne) through quantifying this diversity and comparison between populations allows for more informed decisions with regards to selective breeding taking population genetic diversity into account...
July 21, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28716086/dynamics-in-multiplicity-of-plasmodium-falciparum-infection-among-children-with-asymptomatic-malaria-in-central-ghana
#12
Akua Kyerewaa Botwe, Kwaku Poku Asante, George Adjei, Samuel Assafuah, David Dosoo, Seth Owusu-Agyei
BACKGROUND: The determinants of malaria parasite virulence is not entirely known, but the outcome of malaria infection (asymptomatic or symptomatic) has been associated with carriage of distinct parasite genotypes. Alleles considered important for erythrocyte invasion and selected as candidate targets for malaria vaccine development are increasingly being shown to have distinct characteristics in infection outcomes. Any unique/distinct patterns or alleles linked to infection outcome should be reproducible for a given malaria-cohort regardless of location, time or intervention...
July 17, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28709395/karyotype-differentiation-in-tellin-shells-bivalvia-tellinidae
#13
Daniel García-Souto, Gonzalo Ríos, Juan J Pasantes
BACKGROUND: Although Tellinidae is one of the largest and most diverse families of bivalves, its taxonomy is utterly chaotic. This is mainly due to the morphological diversity and homoplasy displayed by their shells and to the scarcity of the molecular phylogenetic studies performed on them. A molecular cytogenetic analysis of four tellin shell species, Bosemprella incarnata, Macomangulus tenuis, Moerella donacina and Serratina serrata, was performed. To molecularly characterize the analyzed specimens, the sequence of a fragment of the mitochondrial cytochrome c oxidase subunit I (COI) was also studied...
July 14, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28693419/de-novo-transcriptomic-analysis-of-cowpea-vigna-unguiculata-l-walp-for-genic-ssr-marker-development
#14
Honglin Chen, Lixia Wang, Xiaoyan Liu, Liangliang Hu, Suhua Wang, Xuzhen Cheng
BACKGROUND: Cowpea [Vigna unguiculata (L.) Walp.] is one of the most important legumes in tropical and semi-arid regions. However, there is relatively little genomic information available for genetic research on and breeding of cowpea. The objectives of this study were to analyse the cowpea transcriptome and develop genic molecular markers for future genetic studies of this genus. RESULTS: Approximately 54 million high-quality cDNA sequence reads were obtained from cowpea based on Illumina paired-end sequencing technology and were de novo assembled to generate 47,899 unigenes with an N50 length of 1534 bp...
July 11, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28679362/genome-wide-association-study-identifies-candidate-genes-for-piglet-splay-leg-syndrome-in-different-populations
#15
Xingjie Hao, Graham Plastow, Chunyan Zhang, Sutong Xu, Zhiqiu Hu, Tianfu Yang, Kai Wang, Huawei Yang, Xiaoxue Yin, Shili Liu, Zhenghua Wang, Zhiquan Wang, Shujun Zhang
BACKGROUND: Piglet splay leg syndrome (PSL) is one of the most frequent genetic defects, and can cause considerable economic loss in pig production. The present understanding of etiology and pathogenesis of PSL is poor. The current study focused on identifying loci associated with PSL through a genome-wide association study (GWAS) performed with the Illumina Porcine60 SNP Beadchip v2.0. The study was a case/control design with four pig populations (Duroc, Landrace, Yorkshire and one crossbred of Landrace × Yorkshire)...
July 5, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28673260/gene-expression-variations-in-high-altitude-adaptation-a-case-study-of-the-asiatic-toad-bufo-gargarizans
#16
Weizhao Yang, Yin Qi, Bin Lu, Liang Qiao, Yayong Wu, Jinzhong Fu
BACKGROUND: Genome-wide investigation of molecular mechanisms for high-altitude adaptation has attracted great attention in the last few years. In order to understand the contribution of gene expression level variations to high-altitude adaptation in Asiatic toads (Bufo gargarizans), we implemented a reciprocal transplant experiment between low- and high-altitude sites and sequenced 12 transcriptomes from brain, heart, and liver tissues. RESULTS: A large number of genes with expression differences (DEGs) between high- and low-altitude individuals (193 fixed and 844 plastic) were identified, and the majority of them were tissue specific...
July 3, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28673243/genetic-effects-of-pdgfrb-and-march1-identified-in-gwas-revealing-strong-associations-with-semen-production-traits-in-chinese-holstein-bulls
#17
Shuli Liu, Hongwei Yin, Cong Li, Chunhua Qin, Wentao Cai, Mingyue Cao, Shengli Zhang
BACKGROUND: Using a genome-wide association study strategy, our previous study discovered 19 significant single-nucleotide polymorphisms (SNPs) related to semen production traits in Chinese Holstein bulls. Among them, three SNPs were within or close to the phosphodiesterase 3A (PDE3A), membrane associated ring-CH-type finger 1 (MARCH1) and platelet derived growth factor receptor beta (PDGFRB) genes. The present study was designed with the objectives of identifying genetic polymorphism of the PDE3A, PDGFRB and MARCH1 genes and their effects on semen production traits in a Holstein bull population...
July 3, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28673234/genomic-variability-in-mexican-chicken-population-using-copy-number-variants
#18
E Gorla, M C Cozzi, S I Román-Ponce, F J Ruiz López, V E Vega-Murillo, S Cerolini, A Bagnato, M G Strillacci
BACKGROUND: Copy number variations are genome polymorphism that influence phenotypic variation and are an important source of genetic variation in populations. The aim of this study was to investigate genetic variability in the Mexican Creole chicken population using CNVs. RESULTS: The Hidden Markov Model of the PennCNV software detected a total of 1924 CNVs in the genome of the 256 samples processed with Axiom® Genome-Wide Chicken Genotyping Array (Affymetrix)...
July 3, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28651548/canis-mtdna-hv1-database-a-web-based-tool-for-collecting-and-surveying-canis-mtdna-hv1-haplotype-in-public-database
#19
Quan Ke Thai, Dung Anh Chung, Hoang-Dung Tran
BACKGROUND: Canine and wolf mitochondrial DNA haplotypes, which can be used for forensic or phylogenetic analyses, have been defined in various schemes depending on the region analyzed. In recent studies, the 582 bp fragment of the HV1 region is most commonly used. 317 different canine HV1 haplotypes have been reported in the rapidly growing public database GenBank. These reported haplotypes contain several inconsistencies in their haplotype information. To overcome this issue, we have developed a Canis mtDNA HV1 database...
June 26, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28651540/cattle-phenotypes-can-disguise-their-maternal-ancestry
#20
Kanokwan Srirattana, Kieren McCosker, Tim Schatz, Justin C St John
BACKGROUND: Cattle are bred for, amongst other factors, specific traits, including parasite resistance and adaptation to climate. However, the influence and inheritance of mitochondrial DNA (mtDNA) are not usually considered in breeding programmes. In this study, we analysed the mtDNA profiles of cattle from Victoria (VIC), southern Australia, which is a temperate climate, and the Northern Territory (NT), the northern part of Australia, which has a tropical climate, to determine if the mtDNA profiles of these cattle are indicative of breed and phenotype, and whether these profiles are appropriate for their environments...
June 26, 2017: BMC Genetics
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