Indel detection from Whole Genome Sequencing data and association with lipid metabolism in pigs.

ABSTRACT: The selection in commercial swine breeds for meat-production efficiency has been increasing among the past decades, reducing the intramuscular fat content, which has changed the sensorial and technological properties of pork. Through processes of natural adaptation and selective breeding, the accumulation of mutations has driven the genetic divergence between pig breeds. The most common and well-studied mutations are single-nucleotide polymorphisms (SNPs). However, insertions and deletions (indels) usually represents a fifth part of the detected mutations and should also be considered for animal breeding. In the present study, three different programs (Dindel, SAMtools mpileup, and GATK) were used to detect indels from Whole Genome Sequencing data of Iberian boars and Landrace sows. A tota

SUBMITTER: Crespo-Piazuelo D 

PROVIDER: S-EPMC6597088 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature