Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds

Abstract Background Sheep were among the first animals to be domesticated. They are raised all over the world and produce a major scale of animal-based protein for human consumption and play an important role in agricultural economy. Iran is one of the important locations for sheep genetic resources...

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Autores principales:	Leila Mohamadipoor Saadatabadi, Mohammadreza Mohammadabadi, Zeinab Amiri Ghanatsaman, Olena Babenko, Ruslana Stavetska, Oleksandr Kalashnik, Dmytro Kucher, Oleksandr Kochuk-Yashchenko, Hojjat Asadollahpour Nanaei
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Candidate genes Middle east ovis aries Positive selection Veterinary medicine SF600-1100
Acceso en línea:	https://doaj.org/article/72c837b5846148dea29c30ee05b792a8
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spelling	oai:doaj.org-article:72c837b5846148dea29c30ee05b792a82021-12-05T12:16:51ZSignature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds10.1186/s12917-021-03077-41746-6148https://doaj.org/article/72c837b5846148dea29c30ee05b792a82021-12-01T00:00:00Zhttps://doi.org/10.1186/s12917-021-03077-4https://doaj.org/toc/1746-6148Abstract Background Sheep were among the first animals to be domesticated. They are raised all over the world and produce a major scale of animal-based protein for human consumption and play an important role in agricultural economy. Iran is one of the important locations for sheep genetic resources in the world. Here, we compared the Illumina Ovine SNP50 BeadChip data of three Iranian local breeds (Moghani, Afshari and Gezel), as a population that does not undergone artificial breeding programs as yet, and five other sheep breeds namely East Friesian white, East Friesian brown, Lacaune, DorsetHorn and Texel to detect genetic mechanisms underlying economical traits and daptation to harsh environments in sheep. Results To identify genomic regions that have been targeted by positive selection, we used fixation index (Fst) and nucleotide diversity (Pi) statistics. Further analysis indicated candidate genes involved in different important traits such as; wool production included crimp of wool (PTPN3, NBEA and KRTAP20–2 genes), fiber diameter (PIK3R4 gene), hair follicle development (LHX2 gene), the growth and development of fiber (COL17A1 gene)), adaptation to hot arid environments (CORIN gene), adaptive in deficit water status (CPQ gene), heat stress (PLCB4, FAM107B, NBEA, PIK3C2B and USP43 genes) in sheep. Conclusions We detected several candidate genes related to wool production traits and adaptation to hot arid environments in sheep that can be applicable for inbreeding goals. Our findings not only include the results of previous researches, but also identify a number of novel candidate genes related to studied traits. However, more works will be essential to acknowledge phenotype- genotype relationships of the identified genes in our study.Leila Mohamadipoor SaadatabadiMohammadreza MohammadabadiZeinab Amiri GhanatsamanOlena BabenkoRuslana StavetskaOleksandr KalashnikDmytro KucherOleksandr Kochuk-YashchenkoHojjat Asadollahpour NanaeiBMCarticleCandidate genesMiddle eastovis ariesPositive selectionVeterinary medicineSF600-1100ENBMC Veterinary Research, Vol 17, Iss 1, Pp 1-9 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Candidate genes Middle east ovis aries Positive selection Veterinary medicine SF600-1100
spellingShingle	Candidate genes Middle east ovis aries Positive selection Veterinary medicine SF600-1100 Leila Mohamadipoor Saadatabadi Mohammadreza Mohammadabadi Zeinab Amiri Ghanatsaman Olena Babenko Ruslana Stavetska Oleksandr Kalashnik Dmytro Kucher Oleksandr Kochuk-Yashchenko Hojjat Asadollahpour Nanaei Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds
description	Abstract Background Sheep were among the first animals to be domesticated. They are raised all over the world and produce a major scale of animal-based protein for human consumption and play an important role in agricultural economy. Iran is one of the important locations for sheep genetic resources in the world. Here, we compared the Illumina Ovine SNP50 BeadChip data of three Iranian local breeds (Moghani, Afshari and Gezel), as a population that does not undergone artificial breeding programs as yet, and five other sheep breeds namely East Friesian white, East Friesian brown, Lacaune, DorsetHorn and Texel to detect genetic mechanisms underlying economical traits and daptation to harsh environments in sheep. Results To identify genomic regions that have been targeted by positive selection, we used fixation index (Fst) and nucleotide diversity (Pi) statistics. Further analysis indicated candidate genes involved in different important traits such as; wool production included crimp of wool (PTPN3, NBEA and KRTAP20–2 genes), fiber diameter (PIK3R4 gene), hair follicle development (LHX2 gene), the growth and development of fiber (COL17A1 gene)), adaptation to hot arid environments (CORIN gene), adaptive in deficit water status (CPQ gene), heat stress (PLCB4, FAM107B, NBEA, PIK3C2B and USP43 genes) in sheep. Conclusions We detected several candidate genes related to wool production traits and adaptation to hot arid environments in sheep that can be applicable for inbreeding goals. Our findings not only include the results of previous researches, but also identify a number of novel candidate genes related to studied traits. However, more works will be essential to acknowledge phenotype- genotype relationships of the identified genes in our study.
format	article
author	Leila Mohamadipoor Saadatabadi Mohammadreza Mohammadabadi Zeinab Amiri Ghanatsaman Olena Babenko Ruslana Stavetska Oleksandr Kalashnik Dmytro Kucher Oleksandr Kochuk-Yashchenko Hojjat Asadollahpour Nanaei
author_facet	Leila Mohamadipoor Saadatabadi Mohammadreza Mohammadabadi Zeinab Amiri Ghanatsaman Olena Babenko Ruslana Stavetska Oleksandr Kalashnik Dmytro Kucher Oleksandr Kochuk-Yashchenko Hojjat Asadollahpour Nanaei
author_sort	Leila Mohamadipoor Saadatabadi
title	Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds
title_short	Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds
title_full	Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds
title_fullStr	Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds
title_full_unstemmed	Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds
title_sort	signature selection analysis reveals candidate genes associated with production traits in iranian sheep breeds
publisher	BMC
publishDate	2021
url	https://doaj.org/article/72c837b5846148dea29c30ee05b792a8
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Signature selection analysis reveals candidate genes associated with production traits in Iranian sheep breeds

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