Genome-wide association studies of female reproduction in tropically adapted beef cattle1

Hawken, Rachel; Zhang, Y. D.; Fortes, M. R. S.; Collis, E.; Barris, Wes; Corbet, N. J.; Williams, Patrick James; Fordyce, Geoffry; Holroyd, R. G.; Walkley, J.R.W.; Barendse, W.; Johnston, David; Prayaga, K. C.; Tier, Bruce; Reverter, Antônio; Lehnert, S. A.

doi:10.2527/jas.2011-4410

Cited by 129 publications

(146 citation statements)

References 55 publications

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“…pdf, verified 17 February 2012). Imputation resulted in better coverage of the X chromosome, adding new data to the previous heifer study on AGECL (Hawken et al 2012). This improved X chromosome coverage for the heifers and all genotypes obtained for bulls are reported here for the first time.…”

Section: Genotypesmentioning

confidence: 79%

“…To assist selection and identify genes underlying fertility, we performed a GWAS in a sample of bulls with a measurement for puberty, namely the age at a scrotal circumference of 26 cm (AGE26). The present study is the first report of a GWAS regarding scrotal circumference in bulls, while the GWAS on AGECL in heifers represents a re-analysis of a previously reported study (Hawken et al 2012). The Brahman heifers measured for AGECL were the mothers of the bulls measured for AGE26.…”

Section: Introductionmentioning

confidence: 83%

“…Positions for each SNP were based on the UMD3 assembly of the bovine genome sequence (available from http:// www.livestockgenomics.csiro.au/cgi-bin/gbrowse/btauUMD3/, verified 14 December 2011). Genotypes for 843 heifers had been generated previously using the BovineSNP50 v1 array and were reported in two recent GWAS that analysed growth traits and reproduction traits, including AGECL (Bolormaa et al 2011;Hawken et al 2012).…”

Section: Genotypesmentioning

confidence: 99%

“…Using birth date to define calibration and validation datasets is a tested approach (Hayes et al 2010). A GWAS for AGECL using the full dataset has been reported previously (Hawken et al 2012), but the results reserving 363 heifers for a validation exercise are reported only here. No previous study exists to relate the GWAS for AGE26 reported here.…”

Section: Genome-wide Association Studymentioning

confidence: 99%

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Finding genes for economically important traits: Brahman cattle puberty

Fortes

Lehnert

Bolormaa³

et al. 2012

Anim. Prod. Sci.

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Abstract. Age at puberty is an important component of reproductive performance in beef cattle production systems. Brahman cattle are typically late-pubertal relative to Bos taurus cattle and so it is of economic relevance to select for early age at puberty. To assist selection and elucidate the genes underlying puberty, we performed a genome-wide association study (GWAS) using the BovineSNP50 chip (~54 000 polymorphisms) in Brahman bulls (n = 1105) and heifers (n = 843) and where the heifers were previously analysed in a different study. In a new attempt to generate unbiased estimates of singlenucleotide polymorphism (SNP) effects and proportion of variance explained by each SNP, the available data were halved on the basis of year and month of birth into a calibration and validation set. The traits that defined age at puberty were, in heifers, the age at which the first corpus luteum was detected (AGECL, h 2 = 0.56 AE 0.11) and in bulls, the age at a scrotal circumference of 26 cm (AGE26, h 2 = 0.78 AE 0.10). At puberty, heifers were on average older (751 AE 142 days) than bulls (555 AE 101 days), but AGECL and AGE26 were genetically correlated (r = 0.20 AE 0.10). There were 134 SNPs associated with AGECL and 146 SNPs associated with AGE26 (P < 0.0001). From these SNPs, 32 (~22%) were associated (P < 0.0001) with both traits. These top 32 SNPs were all located on Chromosome BTA 14, between 21.95 Mb and 28.4 Mb. These results suggest that the genes located in that region of BTA 14 play a role in pubertal development in Brahman cattle. There are many annotated genes underlying this region of BTA 14 and these are the subject of current research. Further, we identified a region on Chromosome X where markers were associated (P < 1.00E-8) with AGE26, but not with AGECL. Information about specific genes and markers add value to our understanding of puberty and potentially contribute to genomic selection. Therefore, identifying these genes contributing to genetic variation in AGECL and AGE26 can assist with the selection for early onset of puberty.

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Section: Genotypesmentioning

confidence: 79%

Section: Introductionmentioning

confidence: 83%

Section: Genotypesmentioning

confidence: 99%

Section: Genome-wide Association Studymentioning

confidence: 99%

See 2 more Smart Citations

Finding genes for economically important traits: Brahman cattle puberty

Fortes

Lehnert

Bolormaa³

et al. 2012

Anim. Prod. Sci.

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“…The height‐increasing allele in Bos taurus also increases height and weight in Brahman and Tropical Composites, and was associated with decreased serum insulin‐like growth factor 1 (IGF1) level (Hawken et al . 2012; Fortes et al . 2012, 2013a,2013b).…”

Section: Plag1mentioning

confidence: 99%

PLAG1 and NCAPG‐LCORL in livestock

Takasuga

2015

Animal Science Journal

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A recent progress on stature genetics has revealed simple genetic architecture in livestock animals in contrast to that in humans. PLAG1 and/or NCAPG‐LCORL, both of which are known as a locus for adult human height, have been detected for association with body weight/height in cattle and horses, and for selective sweep in dogs and pigs. The findings indicate a significant impact of these loci on mammalian growth or body size and usefulness of the natural variants for selective breeding. However, association with an unfavorable trait, such as late puberty or risk for a neuropathic disease, was also reported for the respective loci, indicating an importance to discriminate between causality and association. Here I review the recent findings on quantitative trait loci (QTL) for stature in livestock animals, mainly focusing on the PLAG1 and NCAPG‐LCORL loci. I also describe our recent efforts to identify the causative variation for the third major locus for carcass weight in Japanese Black cattle.

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Genome-wide association study for growth traits in Blanco Orejinegro and Romosinuano cattle

Bejarano,

Martínez,

Rocha

2023

Trop Anim Health Prod

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Growth traits are economically important characteristics for the genetic improvement of local cattle breeds. Genome-wide association studies (GWAS) provide valuable information to enhance the understanding on the genetics of complex traits. The aim of this study was to perform a GWAS to identify genomic regions and genes associated to birth weight, weaning weight adjusted for 240 days, 16 months, and 24 months weight in Romosinuano (ROMO) and Blanco Orejinegro (BON) cattle. A single-step genomic-BLUP was implemented using 596 BON and 569 ROMO individuals that were genotyped with an Illumina BovineSNP50 BeadChip. There were 25 regions of interest identified on different chromosomes, with few of them simultaneously associated with two or more growth traits and some were common to both breeds. The gene mapping allowed to find 173 annotations on these regions, from which 49 represent potential candidate genes with known growth-related functions in cattle and other species. Among the regions that were associated with several growth traits, that at 24 – 27 MB of BTA14, has important candidate genes such as LYPLA1, XKR4, TMEM68 and PLAG1. Another region of interest at 0.40–0.77 Mb of BTA23 was identified in both breeds, containing KHDRBS2 as a potential candidate gene influencing body weight. Future studies targeting these regions could provide more knowledge to uncover the genetic architecture underlying growth traits in BON and ROMO cattle. The genomic regions and genes identified in this study could be used to improve the prediction of genetic merit for growth traits in these creole cattle breeds.

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Genome-wide association studies of female reproduction in tropically adapted beef cattle1

Cited by 129 publications

References 55 publications

Finding genes for economically important traits: Brahman cattle puberty

Finding genes for economically important traits: Brahman cattle puberty

PLAG1 and NCAPG‐LCORL in livestock

Genome-wide association study for growth traits in Blanco Orejinegro and Romosinuano cattle

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