Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.

In Greece, a number of local sheep breeds are raised in a wide range of ecological niches across the country. These breeds can be used for the identification of genetic variants that contribute to local adaptation. To this end, 50k genotypes of 90 local sheep from mainland Greece (Epirus, n = 35 and...

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Autores principales:	Antonios Kominakis, Eirini Tarsani, Ariadne L Hager-Theodorides, Ioannis Mastranestasis, Dimitra Gkelia, Ioannis Hadjigeorgiou
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/ce4b18163bdc48259e9bf7e8024b9bd9
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spelling	oai:doaj.org-article:ce4b18163bdc48259e9bf7e8024b9bd92021-12-02T20:14:33ZGenetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.1932-620310.1371/journal.pone.0257461https://doaj.org/article/ce4b18163bdc48259e9bf7e8024b9bd92021-01-01T00:00:00Zhttps://doi.org/10.1371/journal.pone.0257461https://doaj.org/toc/1932-6203In Greece, a number of local sheep breeds are raised in a wide range of ecological niches across the country. These breeds can be used for the identification of genetic variants that contribute to local adaptation. To this end, 50k genotypes of 90 local sheep from mainland Greece (Epirus, n = 35 and Peloponnesus, n = 55) were used, as well as 147 genotypes of sheep from insular Greece (Skyros, n = 21), Lemnos, n = 36 and Lesvos, n = 90). Principal components and phylogenetic analysis along with admixture and spatial point patterns analyses suggested genetic differentiation of 'mainland-island' populations. Genome scans for signatures of selection and genome-wide association analysis (GWAS) pointed to one highly differentiating marker on OAR4 (FST = 0.39, FLK = 21.93, FDR p-value = 0.10) that also displayed genome wide significance (FDR p-value = 0.002) during GWAS. A total number of 6 positional candidate genes (LOC106990429, ZNF804B, TEX47, STEAP4, SRI and ADAM22) were identified within 500 kb flanking regions around the significant marker. In addition, two QTLs related to fat tail deposition are reported in genomic regions 800 kb downstream the significant marker. Based on gene ontology analysis and literature evidence, the identified candidate genes possess biological functions relevant to local adaptation that worth further investigation.Antonios KominakisEirini TarsaniAriadne L Hager-TheodoridesIoannis MastranestasisDimitra GkeliaIoannis HadjigeorgiouPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 16, Iss 9, p e0257461 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Antonios Kominakis Eirini Tarsani Ariadne L Hager-Theodorides Ioannis Mastranestasis Dimitra Gkelia Ioannis Hadjigeorgiou Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.
description	In Greece, a number of local sheep breeds are raised in a wide range of ecological niches across the country. These breeds can be used for the identification of genetic variants that contribute to local adaptation. To this end, 50k genotypes of 90 local sheep from mainland Greece (Epirus, n = 35 and Peloponnesus, n = 55) were used, as well as 147 genotypes of sheep from insular Greece (Skyros, n = 21), Lemnos, n = 36 and Lesvos, n = 90). Principal components and phylogenetic analysis along with admixture and spatial point patterns analyses suggested genetic differentiation of 'mainland-island' populations. Genome scans for signatures of selection and genome-wide association analysis (GWAS) pointed to one highly differentiating marker on OAR4 (FST = 0.39, FLK = 21.93, FDR p-value = 0.10) that also displayed genome wide significance (FDR p-value = 0.002) during GWAS. A total number of 6 positional candidate genes (LOC106990429, ZNF804B, TEX47, STEAP4, SRI and ADAM22) were identified within 500 kb flanking regions around the significant marker. In addition, two QTLs related to fat tail deposition are reported in genomic regions 800 kb downstream the significant marker. Based on gene ontology analysis and literature evidence, the identified candidate genes possess biological functions relevant to local adaptation that worth further investigation.
format	article
author	Antonios Kominakis Eirini Tarsani Ariadne L Hager-Theodorides Ioannis Mastranestasis Dimitra Gkelia Ioannis Hadjigeorgiou
author_facet	Antonios Kominakis Eirini Tarsani Ariadne L Hager-Theodorides Ioannis Mastranestasis Dimitra Gkelia Ioannis Hadjigeorgiou
author_sort	Antonios Kominakis
title	Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.
title_short	Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.
title_full	Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.
title_fullStr	Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.
title_full_unstemmed	Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.
title_sort	genetic differentiation of mainland-island sheep of greece: implications for identifying candidate genes for long-term local adaptation.
publisher	Public Library of Science (PLoS)
publishDate	2021
url	https://doaj.org/article/ce4b18163bdc48259e9bf7e8024b9bd9
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Genetic differentiation of mainland-island sheep of Greece: Implications for identifying candidate genes for long-term local adaptation.

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