Genome-wide assessment and mapping of inbreeding depression identifies candidate genes associated with semen traits in Holstein bulls. Ghoreishifar, M., Vahedi, S. M., Salek Ardestani, S., Khansefid, M., & Pryce, J. E. BMC Genomics, 24(1):230, May, 2023. ![Genome-wide assessment and mapping of inbreeding depression identifies candidate genes associated with semen traits in Holstein bulls [link]](https://bibbase.org/img/filetypes/link.svg "link")
Paper doi abstract bibtex The reduction in phenotypic performance of a population due to mating between close relatives is called inbreeding depression. The genetic background of inbreeding depression for semen traits is poorly understood. Thus, the objectives were to estimate the effect of inbreeding and to identify genomic regions underlying inbreeding depression of semen traits including ejaculate volume (EV), sperm concentration (SC), and sperm motility (SM). The dataset comprised ~ 330 K semen records from ~ 1.5 K Holstein bulls genotyped with 50 K single nucleotide polymorphism (SNP) BeadChip. Genomic inbreeding coefficients were estimated using runs of homozygosity (i.e., FROH \textgreater 1 Mb) and excess of SNP homozygosity (FSNP). The effect of inbreeding was estimated by regressing phenotypes of semen traits on inbreeding coefficients. Associated variants with inbreeding depression were also detected by regressing phenotypes on ROH state of the variants.
@article{ghoreishifarGenomewideAssessmentMapping2023,
title = {Genome-wide assessment and mapping of inbreeding depression identifies candidate genes associated with semen traits in {Holstein} bulls},
volume = {24},
issn = {1471-2164},
url = {https://doi.org/10.1186/s12864-023-09298-1},
doi = {10.1186/s12864-023-09298-1},
abstract = {The reduction in phenotypic performance of a population due to mating between close relatives is called inbreeding depression. The genetic background of inbreeding depression for semen traits is poorly understood. Thus, the objectives were to estimate the effect of inbreeding and to identify genomic regions underlying inbreeding depression of semen traits including ejaculate volume (EV), sperm concentration (SC), and sperm motility (SM). The dataset comprised {\textasciitilde} 330 K semen records from {\textasciitilde} 1.5 K Holstein bulls genotyped with 50 K single nucleotide polymorphism (SNP) BeadChip. Genomic inbreeding coefficients were estimated using runs of homozygosity (i.e., FROH {\textgreater} 1 Mb) and excess of SNP homozygosity (FSNP). The effect of inbreeding was estimated by regressing phenotypes of semen traits on inbreeding coefficients. Associated variants with inbreeding depression were also detected by regressing phenotypes on ROH state of the variants.},
number = {1},
urldate = {2025-03-31},
journal = {BMC Genomics},
author = {Ghoreishifar, Mohammad and Vahedi, Seyed Milad and Salek Ardestani, Siavash and Khansefid, Majid and Pryce, Jennie E.},
month = may,
year = {2023},
keywords = {Dairy cattle, Inbreeding depression, Male fertility, Runs of homozygosity (ROH), Sperm quality},
pages = {230},
}
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Thus, the objectives were to estimate the effect of inbreeding and to identify genomic regions underlying inbreeding depression of semen traits including ejaculate volume (EV), sperm concentration (SC), and sperm motility (SM). The dataset comprised ~ 330 K semen records from ~ 1.5 K Holstein bulls genotyped with 50 K single nucleotide polymorphism (SNP) BeadChip. Genomic inbreeding coefficients were estimated using runs of homozygosity (i.e., FROH \\textgreater 1 Mb) and excess of SNP homozygosity (FSNP). The effect of inbreeding was estimated by regressing phenotypes of semen traits on inbreeding coefficients. 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