Assessing Genetic Diversity and Searching for Selection Signatures by Comparison between the Indigenous Livni and Duroc Breeds in Local Livestock of the Central Region of Russia
-
Published:2022-10-11
Issue:10
Volume:14
Page:859
-
ISSN:1424-2818
-
Container-title:Diversity
-
language:en
-
Short-container-title:Diversity
Author:
Chernukha Irina1, Abdelmanova Alexandra2, Kotenkova Elena1ORCID, Kharzinova Veronika2ORCID, Zinovieva Natalia2ORCID
Affiliation:
1. V.M. Gorbatov Federal Research Center for Food Systems, Experimental Clinic and Research Laboratory for Bioactive Substances of Animal Origin, Talalikhina St., 26, 109316 Moscow, Russia 2. L.K. Ernst Federal Research Center for Animal Husbandry, 142132 Podolsk, Russia
Abstract
Indigenous pig breeds are mainly associated with the adaptive capacity that is necessary to respond adequately to climate change, food security, and livelihood needs, and natural resources conservation. Livni pigs are an indigenous fat-type breed farmed in a single farm in the Orel region and located in the Central European part of the Russian Federation. To determine the genomic regions and genes that are affected by artificial selection, we conducted the comparative study of two pig breeds with different breeding histories and breeding objectives, i.e., the native fat-type Livni and meat-type Duroc breeds using the Porcine GGP HD BeadChip, which contains ~80,000 SNPs. To check the Livni pigs for possible admixture, the Landrace and the Large White breeds were included into the study of genetic diversity as these breeds participated in the formation of the Livni pigs. We observed the highest level of genetic diversity in Livni pigs compared to commercial breeds (UHE = 0.409 vs. 0.319–0.359, p < 0.001; AR = 1.995 vs. 1.894–1.964, p < 0.001). A slight excess of heterozygotes was found in all of the breeds. We identified 291 candidate genes, which were localized within the regions under putative selection, including 22 and 228 genes, which were specific for Livni and Duroc breeds, respectively, and 41 genes common for both breeds. A detailed analysis of the molecular functions identified the genes, which were related to the formation of meat and fat traits, and adaptation to environmental stress, including extreme temperatures, which were different between breeds. Our research results are useful for conservation and sustainable breeding of Livni breed, which shows a high level of genetic diversity. This makes Livni one of the valuable national pig genetic resources.
Funder
Russian Science Foundation Russian Ministry of Science and Higher Education
Subject
Nature and Landscape Conservation,Agricultural and Biological Sciences (miscellaneous),Ecological Modeling,Ecology
Reference126 articles.
1. Sejian, V., Bhatta, R., Gaughan, J., Malik, P., Naqvi, S., and Lal, R. (2017). Sheep Production Adapting to Climate Change, Springer. [1st ed.]. 2. Genetic resources and genomics for adaptation of livestock to climate change;Boettcher;Front. Genet.,2015 3. A comprehensive genome-wide scan detects genomic regions related to local adaptation and climate resilience in Mediterranean domestic sheep;Tsartsianidou;Genet. Sel. Evol.,2021 4. Passamonti, M.M., Somenzi, E., Barbato, M., Chillemi, G., Colli, L., Joost, S., Milanesi, M., Negrini, R., Santini, M., and Vajana, E. (2021). The Quest for Genes Involved in Adaptation to Climate Change in Ruminant Livestock. Animals, 11. 5. Prospects for sustainability of pig production in relation to climate change and novel feed resources;Rauw;J. Sci. Food Agric.,2020
Cited by
1 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献
|
|