Genome‐wide association study identifies candidate markers for bull fertility in Holstein dairy cattle

Peñagaricano, Francisco; Weigel, K.A.; Khatib, Hasan

doi:10.1111/j.1365-2052.2012.02350.x

Cited by 63 publications

(52 citation statements)

References 31 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The data set analyzed by Druet et al (2009) contained only 148 microsatellite markers (ranging from 2 to 10 per chromosome), and none were located on Bos taurus X (BTX), which is known to have an effect on bull fertility (Blaschek et al 2011). Feugang et al (2009) and Peñagaricano et al (2012) used more informative data sets of 10K and 50K SNP chips respectively, but applied relatively simple statistical approaches for detection the association between SNP and semen-quality measures. Only the studies of Blaschek et al (2011) and Fortes et al (2012Fortes et al ( , 2013 showed a combination of dense SNP chips (Illumina BovineSNP50 and Illumina Bovine HD BeadChips; Illumina, San Diego, CA) and robust statistical models.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide association study for semen production traits in Holstein-Friesian bulls

Suchocki

Szyda

2015

Journal of Dairy Science

View full text Add to dashboard Cite

Identifying genomic regions, particularly individual genes associated with semen quality traits, may be very important for improving sire fertility via selective breeding. The aim of the study was to estimate (co)variance components and effects of single nucleotide polymorphisms (SNP) from the Illumina BovineSNP50 BeadChip (Illumina, San Diego, CA) on semen production traits and to find candidate genes for these traits. The analyzed data set originates from the Polish Holstein-Friesian dairy cattle population and consists of 1,212 bulls kept at 4 artificial insemination stations. For each bull, 5 semen production traits were collected: sperm concentration, semen volume, number of spermatozoa, motility, and motility score. A multitrait mixed model was used to estimate genetic parameters. The parameters obtained were used to estimate SNP effects for each trait separately by the mixed model, which is used in the Polish direct genomic value project. Additionally, genes located in the vicinity of significant SNP were selected as candidate genes. For motility, 20 genome-wide significant SNP, located on 12 autosomes, were identified. For sperm concentration, we found 7 significant SNP: 3 on chromosome X, and 1 on chromosomes 1, 6, 23, and 24. For semen volume and motility score, 3 and 1 significant SNP were detected, respectively. All these SNP were located on chromosome X. For the number of spermatozoa, 12 significant SNP were observed. Six SNP were located on chromosome X, 3 on chromosome 8, and 1 on chromosomes 2, 7, and 16. This study clearly indicated a key role of the X chromosome in the determination of semen quality and emphasized that including such traits into genetic evaluation should be strongly considered.

show abstract

Section: Introductionmentioning

confidence: 99%

Genome-wide association study for semen production traits in Holstein-Friesian bulls

Suchocki

Szyda

2015

Journal of Dairy Science

View full text Add to dashboard Cite

show abstract

“…For example, a region with effects on both production and fertility traits was reported on chromosome 5 [52,79,111,119,132]. The significant variants identified in this region (at 87-100 Mb on chromosome 5) were reported to be associated with C22:1 milk fatty acid content, milk fat yield [52,132], protein yield [28], calving to first service interval [111] and sire conception rate in Angus, Brown Swiss and Holstein cattle [60,117]. Several candidate genes were reported within this region including ST8SIA1, ABCC9, GABARAPL1 and SLO1C1 [111,119].…”

Section: Genomic Regions and Genes Affecting Multiple Traits In Dairymentioning

confidence: 99%

Tissues, Metabolic Pathways and Genes of Key Importance in Lactating Dairy Cattle

Nayeri

Stothard

2016

Springer Science Reviews

View full text Add to dashboard Cite

Milk and dairy products are valuable sources of food for humans. Increased milk yield and changes in milk composition in dairy cows have been achieved through a variety of means including better nutrition, management and genetic selection. This selection can be performed without consideration of the specific genes and genetic variation involved. However, association analysis using dense SNP genotyping panels provides an approach for identifying genomic regions affecting milk production. Coupling physiological and metabolic information with association analysis results can provide greater insight into the specific genetic variants and molecular mechanisms affecting production traits as well as the potential effects of these variants on fertility in dairy cattle. To this end, this review highlights key tissues, metabolic pathways and genes of importance in lactating dairy cattle, particularly early in lactation. Physiological and metabolic adaptations in three key tissues (adipose, mammary gland and liver) are discussed, followed by the important endocrine adaptations during negative energy balance. Key genes mediating metabolic and endocrine adaptations are also highlighted. Finally, genes that account for variation in production traits are presented in relation to the tissues and processes described. Knowledge of the genes and pathways involved will be important for ongoing efforts aimed at finding other genes and variants that contribute to milk production and fertility traits. Also, a better understanding of the molecular basis of these traits may lead to more accurate genomic predictions.

show abstract

“…Most of the reports have highlighted the most significant SNPs, but varied results have been obtained. Several SNPs exhibiting significant associations with poor sperm motility, sperm concentration, bull fertility and fertilizing ability of sperm, and subsequent embryonic development were found; however, detailed SNP information was not provided [2][3][4][5]. Therefore, candidate gene approaches have been applied to detect variations or polymorphisms existing among individuals in a bull population to detect specific DNA regions and to increase selection efficiency, particularly in low-heritability sperm quality traits.…”

Section: Introductionmentioning

confidence: 96%

“…With advancements in genetic and molecular techniques, DNA polymorphisms have been applied in marker-assisted selection of animals. Several studies have investigated single-nucleotide polymorphism (SNP) associations with sperm quality traits by genome-wide association analyses in various cattle populations [2][3][4]. Most of the reports have highlighted the most significant SNPs, but varied results have been obtained.…”

Section: Introductionmentioning

confidence: 97%

TNP1 Functional SNPs in bta-miR-532 and bta-miR-204 Target Sites Are Associated with Semen Quality Traits in Chinese Holstein Bulls1

Zhang

Yang

et al. 2015

Biology of Reproduction

View full text Add to dashboard Cite

Transition nuclear proteins (TNPs), major proteins found in the chromatin of condensing spermatids, have been implicated in spermatogenesis and male fertility. In this study, DNA samples were collected from 404 Chinese Holstein bulls and sequenced to identify genetic variants in the 3'-untranslated region (UTR) of TNP1 and to investigate genetic variations in the TNP1 gene and their common haplotypes. This study was also conducted to determine whether these variations affect bovine semen quality traits and expression levels by PCR-restriction fragment length polymorphism, bioinformatics analyses, quantitative real-time PCR (qPCR), and fluorescence assay. Results showed that one new single-nucleotide polymorphism (SNP; g. 528 G>A, ss1388116558) and one reported SNP (g. 442 A>G, rs110469441) were found in the 3'-UTR of the TNP1 gene. Bioinformatics analysis results revealed that both loci were located in bta-miR-532-binding and bta-miR-204-binding regions, respectively. Association studies revealed that bulls with H1H1 (AGAG) and H1H3 (AGGG) haplotype combinations exhibited a lower deformity rate than those with other haplotype combinations (P < 0.05). The qPCR results showed that the relative mRNA expression of TNP1 in bulls with H1H1 haplotype combination was significantly higher than that in bulls with H4H4 haplotype combination (P < 0.05). MicroRNA qPCR results suggested that bta-miR-532 expression was downregulated by 5-fold in adult bull testicular tissues compared with that in fetal bull testicular tissues; by contrast, bta-miR-204 expression was downregulated by 1.6-fold. Luciferase assay results also indicated that TNP1 expression was directly targeted by bta-miR-532 and bta-miR-204 in murine Leydig tumor cell lines. These results provide the first indication of g. 442 A>G-mediated and g. 528 G>A-mediated translational suppression in which SNPs altered the binding of bta-miR-204 and bta-miR-532 to the 3'-UTR of TNP1; the mediated translational suppression could be involved in the regulation of TNP1 expression and may influence the morphological characteristics of Chinese Holstein bull sperm. We propose that SNPs on the TNP1 3'-UTR may help select semen quality trait in Chinese Holstein bulls in the dairy industry.

show abstract

Genome‐wide association study identifies candidate markers for bull fertility in Holstein dairy cattle

Cited by 63 publications

References 31 publications

Genome-wide association study for semen production traits in Holstein-Friesian bulls

Genome-wide association study for semen production traits in Holstein-Friesian bulls

Tissues, Metabolic Pathways and Genes of Key Importance in Lactating Dairy Cattle

TNP1 Functional SNPs in bta-miR-532 and bta-miR-204 Target Sites Are Associated with Semen Quality Traits in Chinese Holstein Bulls1

Contact Info

Product

Resources

About