Copy Number Variation in Brown Swiss Dairy Cattle

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  • Paper

    Final published version, 174 KB, PDF document

  • Marlies A Dolezal, Universita degli Studi di Milano, University of Veterinary Medicine, Vienna, Austria, Italy
  • Alessandro Bagnato, Universita degli Studi di Milano, Italy
  • F Schiavini, Università degli Studi di Milano, Italy
  • E Santus, Associazione Nazionale Allevatori Bruna, Bussolengo, Italy, Italy
  • Lars-Erik Holm
  • Christian Bendixen
  • Frank Panitz
CNVs are increasingly recognized as substantial source of genetic variation, fueling studies that assess their impact on complex traits. In particular rare
CNVs have been suggested to potentially explain part of the missing heritability problem in genome wide association studies for complex traits. The objective of this study was to perform a high resolution genome scan for CNV, in a sample of 20 Brown Swiss dairy cattle bulls based on ~20x Illumina whole genome sesequencing data. Employing CNVnator for variant discovery, we present descriptive statistics for the CNVs detected and define consensus CNV regions at the population level. We identified 29,975 deletion-, 1,489 duplication- and 365 complex CNVRs, respectively, which cover 3.3% of the UMD3.1 autosome. We further compared NGS based CNV calls to CNV calls detected by PennCNV based on Illumina HD chip data for 17 bulls with high quality data for both platforms
Original languageEnglish
Publication year17 Aug 2014
Number of pages3
Publication statusPublished - 17 Aug 2014
Event10th World Congress on Genetics Applied to Livestock Production (WCGALP) - The Westin Bayshore, 1601 Bayshore Drive, Vancouver, BC V6G 2V4, Vancouver, Canada
Duration: 17 Aug 201422 Aug 2014
Conference number: 10th

Conference

Conference10th World Congress on Genetics Applied to Livestock Production (WCGALP)
Number10th
LocationThe Westin Bayshore, 1601 Bayshore Drive, Vancouver, BC V6G 2V4
CountryCanada
CityVancouver
Period17/08/201422/08/2014

    Research areas

  • dairy cattle , copy number variation

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