ArticleGenetics, selection, evolution : GSE2019
Analysis of a large dataset reveals haplotypes carrying putatively recessive lethal and semi-lethal alleles with pleiotropic effects on economically important traits in beef cattle.
Article in Genetics, selection, evolution : GSE, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 28 citations in OpenAlex.
- Genome-wide association study of mature cow size traits in American Angus cattle.Mammalian genome : official journal of the International Mammalian Genome Society · 2026Article
- Haplotypes affecting stillbirth and fertility in Icelandic Dairy Cattle.Journal of applied genetics · 2025Article
- Effect of genomic regions harboring putative lethal haplotypes on reproductive performance in closed experimental selection lines of Nellore cattle.Scientific reports · 2025Article
- Population dynamics of potentially harmful haplotypes: a pedigree analysis.BMC genomics · 2024Article
- Purifying and balancing selection on embryonic semi-lethal haplotypes in a wild mammal.Evolution letters · 2024Article
- Distortion of Mendelian segregation across the Angus cattle genome uncovering regions affecting reproduction.Scientific reports · 2023Article
- Identification of candidate lethal haplotypes and genomic association with post-natal mortality and reproductive traits in Nellore cattle.Scientific reports · 2023Article
- Host genetic control on rumen microbiota and its impact on dairy traits in sheep.Genetics, selection, evolution : GSE · 2022Article
- Performance of Swedish Warmblood fragile foal syndrome carriers and breeding prospects.Genetics, selection, evolution : GSE · 2022Article
- Genetic architecture and lifetime dynamics of inbreeding depression in a wild mammal.Nature communications · 2021Article
- A Systematic Review of Genomic Regions and Candidate Genes Underlying Behavioral Traits in Farmed Mammals and Their Link with Human Disorders.Animals : an open access journal from MDPI · 2021Review
- Whole-genome resequencing reveals loci with allelic transmission ratio distortion in FMolecular genetics and genomics : MGG · 2021Article
- A Missense Mutation in theFrontiers in genetics · 2021Article
- Discovering lethal alleles across the turkey genome using a transmission ratio distortion approach.Animal genetics · 2020Article
- Article
- Management of lethal recessive alleles in beef cattle through the use of mate selection software.Genetics, selection, evolution : GSE · 2019Article
- Removal of alleles by genome editing (RAGE) against deleterious load.Genetics, selection, evolution : GSE · 2019Article
- Analysis of the Progeny of Sibling Matings Reveals Regulatory Variation Impacting the Transcriptome of Immune Cells in Commercial Chickens.Frontiers in genetics · 2019Article
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIn livestock, deleterious recessive alleles can result in reduced economic performance of homozygous individuals in multiple ways, e.g. early embryonic death, death soon after birth, or semi-lethality with incomplete penetrance causing reduced viability. While death is an easy phenotype to score, reduced viability is not as easy to identify. However, it can sometimes be observed as reduced conception rates, longer calving intervals, or lower survival for live born animals.
methodsIn this paper, we searched for haplotypes that carry putatively recessive lethal or semi-lethal alleles in 132,725 genotyped Irish beef cattle from five breeds: Aberdeen Angus, Charolais, Hereford, Limousin, and Simmental. We phased the genotypes in sliding windows along the genome and used five tests to identify haplotypes with absence of or reduced homozygosity. Then, we associated the identified haplotypes with 44,351 insemination records that indicated early embryonic death, and postnatal survival records. Finally, we assessed haplotype pleiotropy by estimating substitution effects on estimates of breeding value for 15 economically important traits in beef production.
resultsWe found support for one haplotype that carries a putatively recessive lethal (chromosome 16 in Simmental) and two haplotypes that carry semi-lethal alleles (chromosome 14 in Aberdeen Angus and chromosome 19 in Charolais), with population frequencies of 8.8, 15.2, and 14.4%, respectively. These three haplotypes showed pleiotropic effects on economically important traits for beef production. Their allele substitution effects are €2.30, €3.42, and €1.47 for the terminal index and €1.03, - €3.11, and - €0.88 for the replacement index, where the standard deviations for the terminal index are €22.52, €18.65, and €22.70 and for the replacement index they are €31.35, €29.82, and €35.79. We identified ZFAT as the candidate gene for semi-lethality in Aberdeen Angus, several candidate genes for the lethal Simmental haplotype, and no candidate genes for the semi-lethal Charolais haplotype.
conclusionsWe analysed genotype, reproduction, survival, and production data to detect haplotypes that carry putatively recessive lethal or semi-lethal alleles in Irish beef cattle and identified one lethal and two semi-lethal haplotypes, which have pleiotropic effects on economically important traits in beef production.
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