Showing results for: [ Animal Breeding ]
X chromosome variants are associated with male fertility traits in two bovine populations. Fortes, Porto-Neto et al. 2020.
Twenty-five phenotypes were measured as indicators of bull fertility (1099 Br... moreahman and 1719 Tropical Composite bulls). Measurements included sperm morphology, scrotal circumference, and sperm chromatin phenotypes such as DNA fragmentation and protamine deficiency. We estimated the heritability of these phenotypes and carried genome-wide association studies (GWAS) within breed, using the bovine high-density chip, to detect quantitative trait loci (QTL). Our analyses suggested that both sperm DNA fragmentation and sperm protamine deficiency are heritable (h2 ranging from 0.10 to 0.22). To confirm these first estimates of heritability further studies on sperm chromatin traits, with larger datasets are desirable. Our GWAS identified QTL for bull fertility traits, based on at least five polymorphisms (P < 10-8) for each QTL. Most of the significant polymorphisms detected in both breeds were on the X chromosome. The QTL were breed-specific, but for some traits, a closer inspection of GWAS results revealed suggestive SNP associations (P < 10-7) in both breeds. For example, the QTL for inhibin in Braham could be relevant to Tropical Composites too (many polymorphisms reached P < 10-7 in the same region). The QTL for sperm midpiece morphological abnormalities on X (QTL peak at 4.92 Mb, P < 10-17) is an example of a breed-specific QTL, supported by several significant SNPs (P < 10-8) in Brahman, but absent in Tropical Composites. The reported GWAS results add evidence to the mammalian specialization of the X chromosome, which during evolution has accumulated genes linked to spermatogenesis. Some of the polymorphisms on X were associated to more than one genetically correlated trait (correlations ranged from 0.33 to 0.51). Correlations and shared polymorphism associations support the hypothesis that these phenotypes have the same underlying cause, i.e. defective spermatogenesis. Genetic improvement for bull fertility is possible through genomic selection, which is likely more accurate if the QTL on X are considered in the predictions. Polymorphisms associated with male fertility accumulate on X in cattle, as in humans and mice, suggesting specialization of this chromosome.less
MLA: L.GEN.1818 Bull fertility update: historical data, new cohort and advanced genomics - Livestock genetics and genomics - Published 20 Jul 2020
SNP genotypes, collected from 11 populations and 184 Pacific oysters, as part of a published study on genetic diversity. Details of published work are:
"Assessment of genetic diversity and population ... morestructure in cultured Australian Pacific oysters". Animal Genetics (In Press).less
SIP 254 FY18 - Functional Annotation of Salmon Genome - - Published 02 Jul 2019
Data related to Naval-Sanchez et al. 2019 "Selection Signatures in heat-resistant cattle reveal missense mutations in damage response gene HELB".
Whole genome sequences from the 1000 Bull Gen... moreomes Project (Run6, Bos taurus, and Bos indicus) for breeds chosen as a reference for imputation were retrieved (Daetwyler et al. 2014; Hayes and Daetwyler 2018). This results in 440 whole-genome sequences across 18 cattle breeds.
Breeds were grouped in accordance to their phenotypes and reported genomic crosses as taurine (humpless), indicine (with hump), admixed or African sanga, the two latter being stabilized composite breeds (Rege J 1999; Hanotte et al. 2002; Rege J et al. 2007; Mwai et al. 2015; Felius, Marleen et al. 2016).
The dataset contains 186 European Taurine, 102 Asiatic indicine and 80 cross-bred genomes as well as a set of African samples composed of 12 taurine, 41 sanga and 19 indicine.
Genomic Analytics in the Realm of Big Data (OCE Post-Doc) - - Published 17 Jun 2019
DNA samples from sheep from all over the world representing 3,500 samples from 90 breeds. This collection is held on behalf of the International Sheep Genomics Consortium (ISCG).
Legacy data - Biological Specimen Collections - Published 19 Nov 2012
Collection contains semen from bulls from the Boran-Tuli Importation Program in 1991 and part of the Belmont Beef Breeding Program from the late 1970s through to 2011. The collection comprises several... more thousand straws associated with the development of tropically adapted Bos taurus and Bos indicus cattle. less
Legacy data - Biological Specimen Collections - Published 12 Nov 2012