Introgression contributes to distribution of structural variations in cattle

Maulik Upadhyay*, Martijn F.L. Derks, Göran Andersson, Ivica Medugorac, Martien A.M. Groenen, Richard P.M.A. Crooijmans

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

Abstract

Structural variations (SVs) are an important source of phenotypic diversity in cattle. Here, 72 whole genome sequences representing taurine and zebu cattle were used to identify SVs. Applying multiple approaches, 16,738 SVs were identified. A comparison against the Database of Genomic Variants archives revealed that 1575 SVs were novel in our data. A novel duplication covering the entire GALNT15 gene, was observed only in N'Dama. A duplication, which was previously reported only in zebu and associated with navel length, was also observed in N'Dama. Investigation of a novel deletion located upstream of CAST13 gene and identified only in Italian cattle and zebu, revealed its introgressed origin in the former. Overall, our data highlights how the SVs distribution in cattle is also shaped by forces such as demographical differences and gene flow. The cattle SVs of this study and its meta-data can be visualized on an interactive genome browser at https://tinyurl.com/svCowArs

Original languageEnglish
Pages (from-to)3092-3102
Number of pages11
JournalGenomics
Volume113
Issue number5
Early online date7 Jul 2021
DOIs
Publication statusPublished - 2021

Keywords

  • GALNT15
  • Indicine
  • Introgression
  • Structural variations
  • Taurine
  • Whole genome sequences

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