Genome-Wide Mapping of Loci Explaining Variance in Scrotal Circumference in Nellore Cattle

Utsunomiya, Yuri Tani; Carmo, Adriana Santana do; Neves, Haroldo Henrique de Rezende; Carvalheiro, Roberto; Matos, Márcia Cristina; Zavarez, Ludmilla Balbo; Ito, Pier Kenji Rauschkolb Katsuda; O'Brien, Ana M. Pérez; Sölkner, Johann; Porto-Neto, Laércio R.; Schenkel, F.S.; McEwan, John C.; Cole, J.B.; Silva, Marcos V. G. B. da; Tassell, Curtis P. Van; Sonstegard, Tad S.; Garcia, José Fernando

doi:10.1371/journal.pone.0088561

Cited by 37 publications

(31 citation statements)

References 38 publications

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“…Although genome mapping analysis detected potential chromosome regions explaining the maximum 3% of the genetic variance, this percentage could be considered a relevant proportion, as previously reported in cattle (Utsunomiya et al, 2014). The evidence is that AFC inheritance is complex as it is controlled by multiple loci across the genome.…”

Section: Discussionmentioning

confidence: 72%

Genome‐wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle

Mota

Guimarães

Fortes

et al. 2017

J Animal Breeding Genetics

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We performed a genome-wide mapping for the age at first calving (AFC) with the goal of annotating candidate genes that regulate fertility in Nellore cattle. Phenotypic data from 762 cows and 777k SNP genotypes from 2,992 bulls and cows were used. Single nucleotide polymorphism (SNP) effects based on the single-step GBLUP methodology were blocked into adjacent windows of 1 Megabase (Mb) to explain the genetic variance. SNP windows explaining more than 0.40% of the AFC genetic variance were identified on chromosomes 2, 8, 9, 14, 16 and 17. From these windows, we identified 123 coding protein genes that were used to build gene networks. From the association study and derived gene networks, putative candidate genes (e.g., PAPPA, PREP, FER1L6, TPR, NMNAT1, ACAD10, PCMTD1, CRH, OPKR1, NPBWR1 and NCOA2) and transcription factors (TF) (STAT1, STAT3, RELA, E2F1 and EGR1) were strongly associated with female fertility (e.g., negative regulation of luteinizing hormone secretion, folliculogenesis and establishment of uterine receptivity). Evidence suggests that AFC inheritance is complex and controlled by multiple loci across the genome. As several windows explaining higher proportion of the genetic variance were identified on chromosome 14, further studies investigating the interaction across haplotypes to better understand the molecular architecture behind AFC in Nellore cattle should be undertaken.

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Section: Discussionmentioning

confidence: 72%

Genome‐wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle

Mota

Guimarães

Fortes

et al. 2017

J Animal Breeding Genetics

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“…These results indicate that genes related to ADG and SC could also be related to AFC. In fact, at least one single nucleotide polymorphism (SNP) within the region between 78.85 and 79.85 Mb on chromosome 10, and one SNP within the region between 23.4 and 33.85 Mb on chromosome 14 have been reported to affect both SC and AFC in Nellore cattle [34, 35]. …”

Section: Discussionmentioning

confidence: 99%

Selection of performance-tested young bulls and indirect responses in commercial beef cattle herds on pasture and in feedlots

et al. 2016

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BackgroundCentral testing is used to select young bulls which are likely to contribute to increased net income of the commercial beef cattle herd. We present genetic parameters for growth and reproductive traits on performance-tested young bulls and commercial animals that are raised on pasture and in feedlots.MethodsRecords on young bulls and heifers in performance tests or commercial herds were used. Genetic parameters for growth and reproductive traits were estimated. Correlated responses for commercial animals when selection was applied on performance-tested young bulls were computed.ResultsThe 90% highest posterior density (HPD90) intervals for heritabilities of final weight (FW), average daily gain (ADG) and scrotal circumference (SC) ranged from 0.41 to 0.49, 0.23 to 0.30 and 0.47 to 0.57, respectively, for performance-tested young bulls on pasture, from 0.45 to 0.60, 0.20 to 0.32 and 0.56 to 0.70, respectively, for performance-tested young bulls in feedlots, from 0.29 to 0.33, 0.14 to 0.18 and 0.35 to 0.45, respectively, for commercial animals on pasture, and from 0.24 to 0.44, 0.13 to 0.24 and 0.35 to 0.57 respectively, for commercial animals in feedlots. The HPD90 intervals for genetic correlations of FW, ADG and SC in performance-tested young bulls on pasture (feedlots) with FW, ADG and SC in commercial animals on pasture (feedlots) ranged from 0.86 to 0.96 (0.83 to 0.94), 0.78 to 0.90 (0.40 to 0.79) and from 0.92 to 0.97 (0.50 to 0.83), respectively. Age at first calving was genetically related to ADG (HPD90 interval = −0.48 to −0.06) and SC (HPD90 interval = −0.41 to −0.05) for performance-tested young bulls on pasture, however it was not related to ADG (HPD90 interval = −0.29 to 0.10) and SC (HPD90 interval = −0.35 to 0.13) for performance-tested young bulls in feedlots.ConclusionsHeritabilities for growth and SC are higher for performance-tested young bulls than for commercial animals. Evaluating and selecting for increased growth and SC on performance-tested young bulls is efficient to improve growth, SC and age at first calving in commercial animals. Evaluating and selecting performance-tested young bulls is more efficient for young bulls on pasture than in feedlots.

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“…Utsunomiya et al . (2014) also detected an association of the region containing PLAG1 with estimated breeding value (EBV) for SC in Nellore ( Bos indicus ) bulls, although the direction of the association is not indicated. Currently there is no information about PLAG1 for affecting timing of puberty.…”

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 Mapping of Loci Explaining Variance in Scrotal Circumference in Nellore Cattle

Cited by 37 publications

References 38 publications

Genome‐wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle

Genome‐wide association study and annotating candidate gene networks affecting age at first calving in Nellore cattle

Selection of performance-tested young bulls and indirect responses in commercial beef cattle herds on pasture and in feedlots

PLAG1 and NCAPG‐LCORL in livestock

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