Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.

<h4>Background</h4>During the past decades, neutral DNA markers have been extensively employed to study demography, population genetics and structure in livestock, but less interest has been devoted to the evaluation of livestock adaptive potential through the identification of genomic r...

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Autores principales:	Licia Colli, Stéphane Joost, Riccardo Negrini, Letizia Nicoloso, Paola Crepaldi, Paolo Ajmone-Marsan, ECONOGENE Consortium
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2014
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/5441a495e22d48dba50378edcf00344f
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spelling	oai:doaj.org-article:5441a495e22d48dba50378edcf00344f2021-11-18T08:34:53ZAssessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.1932-620310.1371/journal.pone.0086668https://doaj.org/article/5441a495e22d48dba50378edcf00344f2014-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/24497965/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>During the past decades, neutral DNA markers have been extensively employed to study demography, population genetics and structure in livestock, but less interest has been devoted to the evaluation of livestock adaptive potential through the identification of genomic regions likely to be under natural selection.<h4>Methodology/principal findings</h4>Landscape genomics can greatly benefit the entire livestock system through the identification of genotypes better adapted to specific or extreme environmental conditions. Therefore we analyzed 101 AFLP markers in 43 European and Western Asian goat breeds both with Matsam software, based on a correlative approach (SAM), and with Mcheza and Bayescan, two FST based software able to detect markers carrying signatures of natural selection. Matsam identified four loci possibly under natural selection--also confirmed by FST-outlier methods--and significantly associated with environmental variables such as diurnal temperature range, frequency of precipitation, relative humidity and solar radiation.<h4>Conclusions/significance</h4>These results show that landscape genomics can provide useful information on the environmental factors affecting the adaptive potential of livestock living in specific climatic conditions. Besides adding conservation value to livestock genetic resources, this knowledge may lead to the development of novel molecular tools useful to preserve the adaptive potential of local breeds during genetic improvement programs, and to increase the adaptability of industrial breeds to changing environments.Licia ColliStéphane JoostRiccardo NegriniLetizia NicolosoPaola CrepaldiPaolo Ajmone-MarsanECONOGENE ConsortiumPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 9, Iss 1, p e86668 (2014)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Licia Colli Stéphane Joost Riccardo Negrini Letizia Nicoloso Paola Crepaldi Paolo Ajmone-Marsan ECONOGENE Consortium Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.
description	<h4>Background</h4>During the past decades, neutral DNA markers have been extensively employed to study demography, population genetics and structure in livestock, but less interest has been devoted to the evaluation of livestock adaptive potential through the identification of genomic regions likely to be under natural selection.<h4>Methodology/principal findings</h4>Landscape genomics can greatly benefit the entire livestock system through the identification of genotypes better adapted to specific or extreme environmental conditions. Therefore we analyzed 101 AFLP markers in 43 European and Western Asian goat breeds both with Matsam software, based on a correlative approach (SAM), and with Mcheza and Bayescan, two FST based software able to detect markers carrying signatures of natural selection. Matsam identified four loci possibly under natural selection--also confirmed by FST-outlier methods--and significantly associated with environmental variables such as diurnal temperature range, frequency of precipitation, relative humidity and solar radiation.<h4>Conclusions/significance</h4>These results show that landscape genomics can provide useful information on the environmental factors affecting the adaptive potential of livestock living in specific climatic conditions. Besides adding conservation value to livestock genetic resources, this knowledge may lead to the development of novel molecular tools useful to preserve the adaptive potential of local breeds during genetic improvement programs, and to increase the adaptability of industrial breeds to changing environments.
format	article
author	Licia Colli Stéphane Joost Riccardo Negrini Letizia Nicoloso Paola Crepaldi Paolo Ajmone-Marsan ECONOGENE Consortium
author_facet	Licia Colli Stéphane Joost Riccardo Negrini Letizia Nicoloso Paola Crepaldi Paolo Ajmone-Marsan ECONOGENE Consortium
author_sort	Licia Colli
title	Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.
title_short	Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.
title_full	Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.
title_fullStr	Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.
title_full_unstemmed	Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.
title_sort	assessing the spatial dependence of adaptive loci in 43 european and western asian goat breeds using aflp markers.
publisher	Public Library of Science (PLoS)
publishDate	2014
url	https://doaj.org/article/5441a495e22d48dba50378edcf00344f
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Assessing the spatial dependence of adaptive loci in 43 European and Western Asian goat breeds using AFLP markers.

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