Genome-wide analysis of genetic diversity and artificial selection in Large White pigs in Russia

Siroj Bakoev; Lyubov Getmantseva; Olga Kostyunina; Nekruz Bakoev; Yuri Prytkov; Alexander Usatov; Tatiana V Tatarinova

doi:10.7717/peerj.11595

Genome-wide analysis of genetic diversity and artificial selection in Large White pigs in Russia

PeerJ. 2021 Jul 2:9:e11595. doi: 10.7717/peerj.11595. eCollection 2021.

Authors

Siroj Bakoev^#^{1

2}, Lyubov Getmantseva^#¹, Olga Kostyunina¹, Nekruz Bakoev¹, Yuri Prytkov¹, Alexander Usatov³, Tatiana V Tatarinova^{4

5

6

7}

Affiliations

¹ Federal Research Center for Animal Husbandry named after Academy Member LK. Ernst, Dubrovitsy, Russia.
² Centre for Strategic Planning and Management of Biomedical Health Risks, Moscow, Russia.
³ South Federal University, Rostov-on-Don, Russia.
⁴ Department of Biology, University of La Verne, La Verne, CA, United States of America.
⁵ Department of Genomics and Bioinformatics, Institute of Fundamental Biology and Biotechnology, Siberian Federal University, Krasnoyarsk, Russia.
⁶ Institute for Information Transmission Problems, Moscow, Russia.
⁷ Vavilov Institute for General Genetics, Moscow, Russia.

^# Contributed equally.

Abstract

Breeding practices adopted at different farms are aimed at maximizing the profitability of pig farming. In this work, we have analyzed the genetic diversity of Large White pigs in Russia. We compared genomes of historic and modern Large White Russian breeds using 271 pig samples. We have identified 120 candidate regions associated with the differentiation of modern and historic pigs and analyzed genomic differences between the modern farms. The identified genes were associated with height, fitness, conformation, reproductive performance, and meat quality.

Keywords: Artificial selection; Breeding; Farming practices; Selection signals.

Grants and funding

This research was supported by the Russian Science Foundation (RSF) Project No.19-16-00109 (Genotyping of Large White Pigs), and RSF Project No. 19-76-10012 (Genotyping of Landrace and Duroc pigs). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.