Genomic diversity and geographical structure of the Pyrenean desman
The Pyrenean desman (Galemys pyrenaicus) is a small semi-aquatic mammal endemic to the Iberian Peninsula. The species has recently experienced a strong decline and some of its populations are severely threatened with extinction. To help in the preservation of this species, it is critical to understand its genetic structure and main evolutionary units, as these may have specific local adaptations and could be of great conservation value. Sequencing reduced representation libraries (ddRAD) from 26 specimens selected from across its entire range, we obtained around 45,000 loci per specimen and 1185 single nucleotide polymorphisms. Heterozygosity varied substantially among individuals from different areas. Interestingly, specimens from the southeastern Pyrenees had some of the lowest proportions of heterozygous positions inferred from genome-wide data in mammals so far. In addition, we estimated a tree reflecting genomic divergence, performed a principal component analysis, and carried out a Bayesian analysis of the population structure. Combined evidence supported the existence of five distinct genomic clusters largely coincident with the main mountain ranges where the species occurs, with few specimens presenting relevant admixture levels. There was good correspondence between these populations and the mitochondrial lineages detected in a previous study, yet substantial differences in some areas demonstrate the importance of performing genomic analysis to reveal the whole population history. Although the analysis of further specimens is necessary to better characterize the distribution of the different evolutionary units, the distinctive geographical structure of this species revealed by the genomic data should be considered in future conservation plans.
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Format: | artículo biblioteca |
Language: | English |
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Springer
2016-12
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Subjects: | Galemys pyrenaicus, ddRAD, SNPs, Conservation genomics, Genetic structure, |
Online Access: | http://hdl.handle.net/10261/151706 http://dx.doi.org/10.13039/501100003329 |
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dig-ibe-es-10261-1517062018-09-27T07:49:52Z Genomic diversity and geographical structure of the Pyrenean desman Querejeta Coma, Marina González-Esteban, Jorge Gómez, Asunción Fernández-González, Ángel Aymerich, Pere Gosálbez, Joaquim Escoda, Lídia Igea, Javier Castresana, José Ministerio de Economía y Competitividad (España) Galemys pyrenaicus ddRAD SNPs Conservation genomics Genetic structure The Pyrenean desman (Galemys pyrenaicus) is a small semi-aquatic mammal endemic to the Iberian Peninsula. The species has recently experienced a strong decline and some of its populations are severely threatened with extinction. To help in the preservation of this species, it is critical to understand its genetic structure and main evolutionary units, as these may have specific local adaptations and could be of great conservation value. Sequencing reduced representation libraries (ddRAD) from 26 specimens selected from across its entire range, we obtained around 45,000 loci per specimen and 1185 single nucleotide polymorphisms. Heterozygosity varied substantially among individuals from different areas. Interestingly, specimens from the southeastern Pyrenees had some of the lowest proportions of heterozygous positions inferred from genome-wide data in mammals so far. In addition, we estimated a tree reflecting genomic divergence, performed a principal component analysis, and carried out a Bayesian analysis of the population structure. Combined evidence supported the existence of five distinct genomic clusters largely coincident with the main mountain ranges where the species occurs, with few specimens presenting relevant admixture levels. There was good correspondence between these populations and the mitochondrial lineages detected in a previous study, yet substantial differences in some areas demonstrate the importance of performing genomic analysis to reveal the whole population history. Although the analysis of further specimens is necessary to better characterize the distribution of the different evolutionary units, the distinctive geographical structure of this species revealed by the genomic data should be considered in future conservation plans. This work was financially supported by research Projects CGL2011-22640 and CGL2014-53968-P of the “Plan Nacional I + D+I del Ministerio de Economía y Competitividad” (Spain) to J.C. with contribution of project 014/2008 of the “Convocatoria de ayudas a proyectos de investigación en la Red de Parques Nacionales” (Spain) to J.G. M.Q. was supported by fellowship BES-2012-057135 of the Ministerio de Economía y Competitividad (Spain). Peer reviewed 2017-06-20T10:05:02Z 2017-06-20T10:05:02Z 2016-12 artículo http://purl.org/coar/resource_type/c_6501 Conservation Genetics 17(6): 1333-1344 (2016) 1566-0621 http://hdl.handle.net/10261/151706 10.1007/s10592-016-0865-y 1572-9737 http://dx.doi.org/10.13039/501100003329 en #PLACEHOLDER_PARENT_METADATA_VALUE# info:eu-repo/grantAgreement/MINECO/Plan Estatal de Investigación Científica y Técnica y de Innovación 2013-2016/CGL2014-53968-P http://doi.org/10.1007/s10592-016-0865-y Sí none Springer |
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Galemys pyrenaicus ddRAD SNPs Conservation genomics Genetic structure Galemys pyrenaicus ddRAD SNPs Conservation genomics Genetic structure |
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Galemys pyrenaicus ddRAD SNPs Conservation genomics Genetic structure Galemys pyrenaicus ddRAD SNPs Conservation genomics Genetic structure Querejeta Coma, Marina González-Esteban, Jorge Gómez, Asunción Fernández-González, Ángel Aymerich, Pere Gosálbez, Joaquim Escoda, Lídia Igea, Javier Castresana, José Genomic diversity and geographical structure of the Pyrenean desman |
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The Pyrenean desman (Galemys pyrenaicus) is a small semi-aquatic mammal endemic to the Iberian Peninsula. The species has recently experienced a strong decline and some of its populations are severely threatened with extinction. To help in the preservation of this species, it is critical to understand its genetic structure and main evolutionary units, as these may have specific local adaptations and could be of great conservation value. Sequencing reduced representation libraries (ddRAD) from 26 specimens selected from across its entire range, we obtained around 45,000 loci per specimen and 1185 single nucleotide polymorphisms. Heterozygosity varied substantially among individuals from different areas. Interestingly, specimens from the southeastern Pyrenees had some of the lowest proportions of heterozygous positions inferred from genome-wide data in mammals so far. In addition, we estimated a tree reflecting genomic divergence, performed a principal component analysis, and carried out a Bayesian analysis of the population structure. Combined evidence supported the existence of five distinct genomic clusters largely coincident with the main mountain ranges where the species occurs, with few specimens presenting relevant admixture levels. There was good correspondence between these populations and the mitochondrial lineages detected in a previous study, yet substantial differences in some areas demonstrate the importance of performing genomic analysis to reveal the whole population history. Although the analysis of further specimens is necessary to better characterize the distribution of the different evolutionary units, the distinctive geographical structure of this species revealed by the genomic data should be considered in future conservation plans. |
author2 |
Ministerio de Economía y Competitividad (España) |
author_facet |
Ministerio de Economía y Competitividad (España) Querejeta Coma, Marina González-Esteban, Jorge Gómez, Asunción Fernández-González, Ángel Aymerich, Pere Gosálbez, Joaquim Escoda, Lídia Igea, Javier Castresana, José |
format |
artículo |
topic_facet |
Galemys pyrenaicus ddRAD SNPs Conservation genomics Genetic structure |
author |
Querejeta Coma, Marina González-Esteban, Jorge Gómez, Asunción Fernández-González, Ángel Aymerich, Pere Gosálbez, Joaquim Escoda, Lídia Igea, Javier Castresana, José |
author_sort |
Querejeta Coma, Marina |
title |
Genomic diversity and geographical structure of the Pyrenean desman |
title_short |
Genomic diversity and geographical structure of the Pyrenean desman |
title_full |
Genomic diversity and geographical structure of the Pyrenean desman |
title_fullStr |
Genomic diversity and geographical structure of the Pyrenean desman |
title_full_unstemmed |
Genomic diversity and geographical structure of the Pyrenean desman |
title_sort |
genomic diversity and geographical structure of the pyrenean desman |
publisher |
Springer |
publishDate |
2016-12 |
url |
http://hdl.handle.net/10261/151706 http://dx.doi.org/10.13039/501100003329 |
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