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BMC Genetics

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https://www.readbyqxmd.com/read/28420332/genetic-diversity-of-elaeis-oleifera-hbk-cortes-populations-using-cross-species-ssrs-implication-s-for-germplasm-utilization-and-conservation
#1
Maizura Ithnin, Chee-Keng Teh, Wickneswari Ratnam
BACKGROUND: The Elaeis oleifera genetic materials were assembled from its center of diversity in South and Central America. These materials are currently being preserved in Malaysia as ex situ living collections. Maintaining such collections is expensive and requires sizable land. Information on the genetic diversity of these collections can help achieve efficient conservation via maintenance of core collection. For this purpose, we have applied fourteen unlinked microsatellite markers to evaluate 532 E...
April 19, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28415964/quantitative-trait-locus-analysis-of-heterosis-for-plant-height-and-ear-height-in-an-elite-maize-hybrid-zhengdan-958-by-design-iii
#2
Hongjian Li, Qingsong Yang, Nannan Fan, Ming Zhang, Huijie Zhai, Zhongfu Ni, Yirong Zhang
BACKGROUND: Plant height (PH) and ear height (EH) are two important agronomic traits in maize selection breeding. F1 hybrid exhibit significant heterosis for PH and EH as compared to their parental inbred lines. To understand the genetic basis of heterosis controlling PH and EH, we conducted quantitative trait locus (QTL) analysis using a recombinant inbreed line (RIL) based design III population derived from the elite maize hybrid Zhengdan 958 in five environments. RESULTS: A total of 14 environmentally stable QTLs were identified, and the number of QTLs for Z1 and Z2 populations was six and eight, respectively...
April 17, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28412934/karyotype-diversity-and-chromosomal-organization-of-repetitive-dna-in-tityus-obscurus-scorpiones-buthidae
#3
Bruno Rafael Ribeiro de Almeida, Susana Suely Rodrigues Milhomem-Paixão, Renata Coelho Rodrigues Noronha, Cleusa Yoshiko Nagamachi, Marlyson Jeremias Rodrigues da Costa, Pedro Pereira de Oliveira Pardal, Johne Souza Coelho, Julio Cesar Pieczarka
BACKGROUND: Holocentric chromosomes occur in approximately 750 species of eukaryotes. Among them, the genus Tityus (Scorpiones, Buthidae) has a labile karyotype that shows complex multivalent associations during male meiosis. Thus, taking advantage of the excellent model provided by the Buthidae scorpions, here we analyzed the chromosomal distribution of several repetitive DNA classes on the holocentric chromosomes of different populations of the species Tityus obscurus Gervais, 1843, highlighting their involvement in the karyotypic differences found among them...
April 17, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28399816/ploidy-elicits-a-whole-genome-dosage-effect-growth-of-triploid-atlantic-salmon-is-linked-to-the-genetic-origin-of-the-second-maternal-chromosome-set
#4
A C Harvey, P G Fjelldal, M F Solberg, T Hansen, K A Glover
BACKGROUND: The Atlantic salmon aquaculture industry is investigating the feasibility of using sterile triploids to mitigate genetic interactions with wild conspecifics, however, studies investigating diploid and triploid performance often show contrasting results. Studies have identified dosage and dosage-compensation effects for gene expression between triploid and diploid salmonids, but no study has investigated how ploidy and parent-origin effects interact on a polygenic trait in divergent lines of Atlantic salmon (i...
April 11, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28388893/genome-wide-identification-and-expression-analysis-of-cllax-clpin-and-clabcb-genes-families-in-citrullus-lanatus-under-various-abiotic-stresses-and-grafting
#5
Chenliang Yu, Wenqi Dong, Yihua Zhan, Zong-An Huang, Zhimiao Li, Il Seop Kim, Chenghao Zhang
BACKGROUND: Auxin plays an important role in regulating plant growth and development as well as in the response of plants to abiotic stresses. Auxin is transported by three kinds of major protein families, including the AUXIN RESISTANT 1/LIKE AUX1 (AUX⁄LAX) influx carriers, the PIN-FORMED (PIN) efflux carriers and the ATP binding cassette B/P-glycoprotein/Multidrug-resistance (ABCB/MDR/PGP) efflux/condition carriers. The biological function of several auxin transporter genes has been well characterized in Arabidopsis thaliana...
April 7, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28381212/low-depth-genotyping-by-sequencing-gbs-in-a-bovine-population-strategies-to-maximize-the-selection-of-high-quality-genotypes-and-the-accuracy-of-imputation
#6
Jean-Simon Brouard, Brian Boyle, Eveline M Ibeagha-Awemu, Nathalie Bissonnette
BACKGROUND: Genotyping-by-sequencing (GBS) has emerged as a powerful and cost-effective approach for discovering and genotyping single-nucleotide polymorphisms. The GBS technique was largely used in crop species where its low sequence coverage is not a drawback for calling genotypes because inbred lines are almost homozygous. In contrast, only a few studies used the GBS technique in animal populations (with sizeable heterozygosity rates) and many of those that have been published did not consider the quality of the genotypes produced by the bioinformatic pipelines...
April 5, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28381206/transcriptome-profiling-of-arabian-horse-blood-during-training-regimens
#7
Katarzyna Ropka-Molik, Monika Stefaniuk-Szmukier, Kacper Żukowski, Katarzyna Piórkowska, Artur Gurgul, Monika Bugno-Poniewierska
BACKGROUND: Arabian horses are believed to be one of the oldest and most influential horse breeds in the world. Blood is the main tissue involved in maintaining body homeostasis, and it is considered a marker of the processes taking place in the other tissues. Thus, the aim of our study was to identify the genetic basis of changes occurring in the blood of Arabian horses subjected to a training regimen and to compare the global gene expression profiles between different training periods (T1: after a slow canter phase that is considered a conditioning phase, T2: after an intense gallop phase, and T3: at the end of the racing season) and between trained and untrained horses (T0)...
April 5, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28356074/a-deletion-in-the-intergenic-region-upstream-of-ednrb-causes-head-spot-in-the-rat-strain-kfrs4-kyo
#8
Minako Yoshihara, Tetsuya Sato, Daisuke Saito, Osamu Ohara, Takashi Kuramoto, Mikita Suyama
BACKGROUND: Head spot is one of the phenotypes identified in the KFRS4/Kyo rat strain. Although previous linkage analysis suggested that Ednrb, which is frequently involved in coat color variations in various animals, could be the gene responsible for this phenotype, no mutations have been identified in its coding region. RESULTS: To identify mutations causative of this phenotype in KFRS4/Kyo, we analyzed target capture sequencing data that we recently generated...
March 29, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28356055/a-genome-wide-association-study-reveals-a-locus-for-bilateral-iridal-hypopigmentation-in-holstein-friesian-cattle
#9
Anne K Hollmann, Martina Bleyer, Andrea Tipold, Jasmin N Neßler, Wilhelm E Wemheuer, Ekkehard Schütz, Bertram Brenig
BACKGROUND: Eye pigmentation abnormalities in cattle are often related to albinism, Chediak-Higashi or Tietz like syndrome. However, mutations only affecting pigmentation of coat color and eye have also been described. Herein 18 Holstein Friesian cattle affected by bicolored and hypopigmented irises have been investigated. RESULTS: Affected animals did not reveal any ophthalmological or neurological abnormalities besides the specific iris color differences. Coat color of affected cattle did not differ from controls...
March 29, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28340564/erratum-to-schrodinger-s-scat-a-critical-review-of-the-currently-available-tiger-panthera-tigris-and-leopard-panthera-pardus-specific-primers-in-india-and-a-novel-leopard-specific-primer
#10
Pranay Amruth Maroju, Sonu Yadav, Vishnupriya Kolipakam, Shweta Singh, Qamar Qureshi, Yadvendradev Jhala
No abstract text is available yet for this article.
March 24, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28335717/genomic-regions-underlying-susceptibility-to-bovine-tuberculosis-in-holstein-friesian-cattle
#11
Kethusegile Raphaka, Oswald Matika, Enrique Sánchez-Molano, Raphael Mrode, Mike Peter Coffey, Valentina Riggio, Elizabeth Janet Glass, John Arthur Woolliams, Stephen Christopher Bishop, Georgios Banos
BACKGROUND: The significant social and economic loss as a result of bovine tuberculosis (bTB) presents a continuous challenge to cattle industries in the UK and worldwide. However, host genetic variation in cattle susceptibility to bTB provides an opportunity to select for resistant animals and further understand the genetic mechanisms underlying disease dynamics. METHODS: The present study identified genomic regions associated with susceptibility to bTB using genome-wide association (GWA), regional heritability mapping (RHM) and chromosome association approaches...
March 23, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28298201/the-patterns-of-genomic-variances-and-covariances-across-genome-for-milk-production-traits-between-chinese-and-nordic-holstein-populations
#12
Xiujin Li, Mogens Sandø Lund, Luc Janss, Chonglong Wang, Xiangdong Ding, Qin Zhang, Guosheng Su
BACKGROUND: With the development of SNP chips, SNP information provides an efficient approach to further disentangle different patterns of genomic variances and covariances across the genome for traits of interest. Due to the interaction between genotype and environment as well as possible differences in genetic background, it is reasonable to treat the performances of a biological trait in different populations as different but genetic correlated traits. In the present study, we performed an investigation on the patterns of region-specific genomic variances, covariances and correlations between Chinese and Nordic Holstein populations for three milk production traits...
March 15, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28288558/genetic-diversity-of-a-new-zealand-multi-breed-sheep-population-and-composite-breeds-history-revealed-by-a-high-density-snp-chip
#13
Luiz F Brito, John C McEwan, Stephen P Miller, Natalie K Pickering, Wendy E Bain, Ken G Dodds, Flávio S Schenkel, Shannon M Clarke
BACKGROUND: Knowledge about the genetic diversity of a population is a crucial parameter for the implementation of successful genomic selection and conservation of genetic resources. The aim of this research was to establish the scientific basis for the implementation of genomic selection in a composite Terminal sheep breeding scheme by providing consolidated linkage disequilibrium (LD) measures across SNP markers, estimating consistency of gametic phase between breed-groups, and assessing genetic diversity measures, such as effective population size (Ne), and population structure parameters, using a large number of animals (n = 14,845) genotyped with a high density SNP chip (606,006 markers)...
March 14, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28283021/gain-of-power-of-the-general-regression-model-compared-to-cochran-armitage-trend-tests-simulation-study-and-application-to-bipolar-disorder
#14
Marie-Hélène Dizier, Florence Demenais, Flavie Mathieu
BACKGROUND: Most genome-wide association studies assumed an additive model of inheritance which may result in significant loss of power when there is a strong departure from additivity. The General Regression Model (GRM), which allows performing an assumption-free test for association by testing for both additive effect and deviation from additive effect, may be more appropriate for association tests. Additionally, GRM allows testing the underlying genetic model. We compared the power of GRM association test to additive and other Cochran-Armitage Trend (CAT) tests through simulations and by applying GRM to a large case/control sample, the bipolar Welcome Trust Case Control Cohort data...
March 10, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28279167/novel-snp-markers-in-invge-and-sssi-genes-are-associated-with-natural-variation-of-sugar-contents-and-frying-color-in-solanum-tuberosum-group-phureja
#15
Diana Duarte-Delgado, Deissy Juyó, Christiane Gebhardt, Felipe Sarmiento, Teresa Mosquera-Vásquez
BACKGROUND: Potato frying color is an agronomic trait influenced by the sugar content of tubers. The candidate gene approach was employed to elucidate the molecular basis of this trait in Solanum tuberosum Group Phureja, which is mainly diploid and represents an important genetic resource for potato breeding. The objective of this research was to identify novel genetic variants related with frying quality in loci with key functions in carbohydrate metabolism, with the purpose of discovering genetic variability useful in breeding programs...
March 9, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28274218/genotypic-background-of-the-recipient-plant-is-crucial-for-conferring-rb-gene-mediated-late-blight-resistance-in-potato
#16
Rajesh K Shandil, Swarup K Chakrabarti, Bir Pal Singh, Sanjeev Sharma, S Sundaresha, Surinder K Kaushik, Arvind K Bhatt, Nitya Nand Sharma
BACKGROUND: Late blight, caused by oomycetes pathogen Phytophthora infestans (Mont.) de Bary, is the most devastating potato disease in the world. RB gene from Solanum bulbocastanum has been shown to impart broad spectrum resistance against P. infestans races. In this study Katahdin transgenic event SP951 was used as male parent to cross with the popular Indian potato cultivars viz., Kufri Bahar (KB) and Kufri Jyoti (KJ) to enhance the late blight resistance. RESULTS: Populations of 271 F1seedlings from the crosses KB × SP951 (87) and KJ × SP951 (184) were screened for inheritance of RB transgene through PCR and bioassay...
March 9, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28270115/genetic-affinities-among-the-historical-provinces-of-romania-and-central-europe-as-revealed-by-an-mtdna-analysis
#17
Relu Cocoş, Sorina Schipor, Montserrat Hervella, Petru Cianga, Roxana Popescu, Claudia Bănescu, Mihai Constantinescu, Alina Martinescu, Florina Raicu
BACKGROUND: As a major crossroads between Asia and Europe, Romania has experienced continuous migration and invasion episodes. The precise routes may have been shaped by the topology of the territory and had diverse impacts on the genetic structure of mitochondrial DNA (mtDNA) in historical Romanian provinces. We studied 714 Romanians from all historical provinces, Wallachia, Dobrudja, Moldavia, and Transylvania, by analyzing the mtDNA control region and coding markers to encompass the complete landscape of mtDNA haplogroups...
March 7, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28270101/deciphering-alternative-splicing-and-nonsense-mediated-decay-modulate-expression-in-primary-lymphoid-tissues-of-birds-infected-with-avian-pathogenic-e-coli-apec
#18
Hongyan Sun
BACKGROUND: Avian pathogenic E. coli (APEC) can lead to a loss in millions of dollars in poultry annually because of mortality and produce contamination. Studies have verified that many immune-related genes undergo changes in alternative splicing (AS), along with nonsense mediated decay (NMD), to regulate the immune system under different conditions. Therefore, the splicing profiles of primary lymphoid tissues with systemic APEC infection need to be comprehensively examined. RESULTS: Gene expression in RNAseq data were obtained for three different immune tissues (bone marrow, thymus, and bursa) from three phenotype birds (non-challenged, resistant, and susceptible birds) at two time points...
March 7, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28253860/molecular-cytogenetic-differentiation-of-paralogs-of-hox-paralogs-in-duplicated-and-re-diploidized-genome-of-the-north-american-paddlefish-polyodon-spathula
#19
Radka Symonová, Miloš Havelka, Chris T Amemiya, William Mike Howell, Tereza Kořínková, Martin Flajšhans, David Gela, Petr Ráb
BACKGROUND: Acipenseriformes is a basal lineage of ray-finned fishes and comprise 27 extant species of sturgeons and paddlefishes. They are characterized by several specific genomic features as broad ploidy variation, high chromosome numbers, presence of numerous microchromosomes and propensity to interspecific hybridization. The presumed palaeotetraploidy of the American paddlefish was recently validated by molecular phylogeny and Hox genes analyses. A whole genome duplication in the paddlefish lineage was estimated at approximately 42 Mya and was found to be independent from several genome duplications evidenced in its sister lineage, i...
March 2, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28228093/comparative-profiling-of-hepatopancreas-transcriptomes-in-satiated-and-starving-pomacea-canaliculata
#20
Lei Yang, Tian-Yin Cheng, Fei-Yan Zhao
BACKGROUND: Although Pomacea canaliculata is native to South and Central America, it has become one of the most abundant invasive species worldwide and causes extensive damage to agriculture and horticulture. Conventional physical and chemical techniques have been used to eliminate P. canaliculata, but the effects are not ideal. Therefore, it is important to devise a new method based on a greater understanding of the biology of P. canaliculata. However, the molecular mechanisms underlying digestion and absorption in P...
February 22, 2017: BMC Genetics
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