Detection and characterisation of de novo structural variants in pigs

M.J. Steensma, Y.H. Lee, A.C. Bouwman, C. Pita Barros, M.F.L. Derks, M.C.A.M. Bink, B. Harlizius, A.E. Huisman, R.P.M.A. Crooijmans, M. Groenen, H.A. Mulder, C.M. Rochus

Research output: Chapter in Book/Report/Conference proceedingConference paperAcademic

Abstract

De novo mutations arising in the germline add to genetic variation. The number of de novo mutations occurring every generation, especially structural variants, has not been well studied in most species, including livestock. We used whole-genome sequencing from 46 pig trios from two commercial lines to identify de novo structural variants (dnSVs) present in the offspring. We characterised these dnSV by identifying their parent-of-origin, predicting their causal mechanisms, and identifying their functional annotations. We identified four dnSVs, including two clusters of mutations. One of these clusters contained a deletion, and three duplications, one of which was inverted. This cluster was the only dnSV that could be phased and was located in the paternal haplotype of the proband. All four identified dnSVs were located within the introns of genes. Our study is the first of its kind to identify and characterise dnSVs using whole genome shotgun sequence data in pigs.
Original languageEnglish
Title of host publicationProceedings of 12th World Congress on Genetics Applied to Livestock Production (WCGALP)
Subtitle of host publicationTechnical and species orientated innovations in animal breeding, and contribution of genetics to solving societal challenges
EditorsR.F. Veerkamp, Y. de Haas
Place of PublicationWageningen
PublisherWageningen Academic Publishers
Pages2329-2332
ISBN (Electronic)9789086869404
DOIs
Publication statusPublished - 2022
EventWorld Congress on Genetics Applied to Livestock Production: WCGALP 2022 - Rotterdam, Netherlands
Duration: 3 Jul 20228 Jul 2022

Conference

ConferenceWorld Congress on Genetics Applied to Livestock Production: WCGALP 2022
Country/TerritoryNetherlands
CityRotterdam
Period3/07/228/07/22

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