Molecules and Cells

Korean Society for Molecular and Cellular Biology (한국분자세포생물학회)
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Evolutionary Analyses of Hanwoo (Korean Cattle)-Specific Single-Nucleotide Polymorphisms and Genes Using Whole-Genome Resequencing Data of a Hanwoo Population

  • Lee, Daehwan (Department of Stem Cell and Regenerative Biology, Konkuk University) ;
  • Cho, Minah (Department of Stem Cell and Regenerative Biology, Konkuk University) ;
  • Hong, Woon-young (Department of Stem Cell and Regenerative Biology, Konkuk University) ;
  • Lim, Dajeong (National Institute of Animal Science) ;
  • Kim, Hyung-Chul (National Institute of Animal Science) ;
  • Cho, Yong-Min (National Institute of Animal Science) ;
  • Jeong, Jin-Young (National Institute of Animal Science) ;
  • Choi, Bong-Hwan (National Institute of Animal Science) ;
  • Ko, Younhee (Department of Clinical Genetics, Department of Pediatrics, Yonsei University College of Medicine) ;
  • Kim, Jaebum (Department of Stem Cell and Regenerative Biology, Konkuk University)
  • Received : 2016.06.14
  • Accepted : 2016.08.16
  • Published : 2016.09.30
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Abstract

Advances in next generation sequencing (NGS) technologies have enabled population-level studies for many animals to unravel the relationships between genotypic differences and traits of specific populations. The objective of this study was to perform evolutionary analysis of single nucleotide polymorphisms (SNP) in genes of Korean native cattle Hanwoo in comparison to SNP data from four other cattle breeds (Jersey, Simmental, Angus, and Holstein) and four related species (pig, horse, human, and mouse) obtained from public databases through NGS-based resequencing. We analyzed population structures and differentiation levels for the five cattle breeds and estimated species-specific SNPs with their origins and phylogenetic relationships among species. In addition, we identified Hanwoo-specific genes and proteins, and determined distinct changes in protein-protein interactions among five species (cattle, pig, horse, human, mouse) in the STRING network database by additionally considering indirect protein interactions. We found that the Hanwoo population was clearly different from the other four cattle populations. There were Hanwoo-specific genes related to its meat trait. Protein interaction rewiring analysis also confirmed that there were Hanwoo-specific protein-protein interactions that might have contributed to its unique meat quality.

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References

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