OMIA:002397-9913 : Haplotype with homozygous deficiency, SI16H5 in Bos taurus

Categories: Mortality / aging (incl. embryonic lethal)

Links to MONDO diseases: No links.

Mendelian trait/disorder: yes

Mode of inheritance: Autosomal recessive lethal

Considered a defect: yes

Key variant known: no

Mapping: Jenko et al. (2019): "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. ... We 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) ... . [Haplotype] SI16A5 [was located] on chromosome 16 (51,811,400–53,434,159 bp) in Simmental... ."

Clinical features: Jenko et al. (2019): Haplotype SI6H5 was "associated with decreased insemination success rate and a longer interval between insemination and calving."

Prevalence: The haplotype frequency was 8.8% in 11559 genotyped Simmental animals.

Breed: Simmental (Cattle) (VBO_0000380).

Cite this entry

Nicholas, F. W., Tammen, I., & Sydney Informatics Hub. (2021). OMIA:002397-9913: Online Mendelian Inheritance in Animals (OMIA) [dataset].


2019 Jenko, J., McClure, M.C., Matthews, D., McClure, J., Johnsson, M., Gorjanc, G., Hickey, J.M. :
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. Genet Sel Evol 51:9, 2019. Pubmed reference: 30836944 . DOI: 10.1186/s12711-019-0452-z.

Edit History

  • Created by Imke Tammen2 on 25 Aug 2021
  • Changed by Imke Tammen2 on 25 Aug 2021