Comprehensive characterization of horse genome variation by whole-genome sequencing of 88 horses.

Jagannathan, Vidya; Gerber, Vinzenz; Rieder, S; Tetens, J; Thaller, G; Drögemüller, Cord; Leeb, Tosso (2019). Comprehensive characterization of horse genome variation by whole-genome sequencing of 88 horses. Animal genetics, 50(1), pp. 74-77. Blackwell 10.1111/age.12753

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Whole-genome sequencing studies are vital to gain a thorough understanding of genomic variation. Here, we summarize the results of a whole-genome sequencing study comprising 88 horses and ponies from diverse breeds at 19.1× average coverage. The paired-end reads were mapped to the current EquCab3.0 horse reference genome assembly, and we identified approximately 23.5 million single nucleotide variants and 2.3 million short indel variants. Our dataset included at least 7 million variants that were not previously reported. On average, each individual horse genome carried ∼5.7 million single nucleotides and 0.8 million small indel variants with respect to the reference genome assembly. The variants were functionally annotated. We provide two examples for potentially deleterious recessive alleles that were identified in a heterozygous state in individual genome sequences. Appropriate management of such deleterious recessive alleles in horse breeding programs should help to improve fertility and reduce the prevalence of heritable diseases. This comprehensive dataset has been made publicly available, will represent a valuable resource for future horse genetic studies and supports the goal of accelerating the rates of genetic gain in domestic horse.

Item Type:

Journal Article (Original Article)

Division/Institute:

05 Veterinary Medicine > Department of Clinical Veterinary Medicine (DKV) > Equine Clinic
05 Veterinary Medicine > Department of Clinical Veterinary Medicine (DKV)
05 Veterinary Medicine > Department of Clinical Research and Veterinary Public Health (DCR-VPH) > Institute of Genetics
05 Veterinary Medicine > Department of Clinical Research and Veterinary Public Health (DCR-VPH)

UniBE Contributor:

Jagannathan, Vidya; Gerber, Vinzenz; Drögemüller, Cord and Leeb, Tosso

Subjects:

500 Science > 590 Animals (Zoology)
600 Technology > 630 Agriculture
500 Science > 570 Life sciences; biology
600 Technology > 610 Medicine & health

ISSN:

0268-9146

Publisher:

Blackwell

Language:

English

Submitter:

Tosso Leeb

Date Deposited:

07 Mar 2019 12:34

Last Modified:

01 Mar 2020 02:30

Publisher DOI:

10.1111/age.12753

PubMed ID:

30525216

Uncontrolled Keywords:

Equus caballus WGS bioinformatics database genetic diversity variant

BORIS DOI:

10.7892/boris.125609

URI:

https://boris.unibe.ch/id/eprint/125609

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