Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing
Microsatellites are valuable molecular markers for evolutionary and ecological studies. Next generation sequencing is responsible for the increasing number of microsatellites for non-model species. Penguins of the Pygoscelis genus are comprised of three species: Adélie (P. adeliae), Chinstrap (P. an...
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ftpubmed:oai:pubmedcentral.nih.gov:5596379 2023-05-15T14:03:51+02:00 Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing Vianna, Juliana A. Noll, Daly Mura-Jornet, Isidora Valenzuela-Guerra, Paulina González-Acuña, Daniel Navarro, Cristell Loyola, David E. Dantas, Gisele P. M. 2017 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5596379/ http://www.ncbi.nlm.nih.gov/pubmed/28898354 https://doi.org/10.1590/1678-4685-GMB-2016-0224 en eng Sociedade Brasileira de Genética http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5596379/ http://www.ncbi.nlm.nih.gov/pubmed/28898354 http://dx.doi.org/10.1590/1678-4685-GMB-2016-0224 Copyright © 2017, Sociedade Brasileira de Genética. http://creativecommons.org/licenses/by/4.0/ License information: This is an open-access article distributed under the terms of the Creative Commons Attribution License (type CC-BY), which permits unrestricted use, distribution and reproduction in any medium, provided the original article is properly cited. CC-BY Evolutionary Genetics Text 2017 ftpubmed https://doi.org/10.1590/1678-4685-GMB-2016-0224 2017-09-24T00:09:20Z Microsatellites are valuable molecular markers for evolutionary and ecological studies. Next generation sequencing is responsible for the increasing number of microsatellites for non-model species. Penguins of the Pygoscelis genus are comprised of three species: Adélie (P. adeliae), Chinstrap (P. antarcticus) and Gentoo penguin (P. papua), all distributed around Antarctica and the sub-Antarctic. The species have been affected differently by climate change, and the use of microsatellite markers will be crucial to monitor population dynamics. We characterized a large set of genome-wide microsatellites and evaluated polymorphisms in all three species. SOLiD reads were generated from the libraries of each species, identifying a large amount of microsatellite loci: 33,677, 35,265 and 42,057 for P. adeliae, P. antarcticus and P. papua, respectively. A large number of dinucleotide (66,139), trinucleotide (29,490) and tetranucleotide (11,849) microsatellites are described. Microsatellite abundance, diversity and orthology were characterized in penguin genomes. We evaluated polymorphisms in 170 tetranucleotide loci, obtaining 34 polymorphic loci in at least one species and 15 polymorphic loci in all three species, which allow to perform comparative studies. Polymorphic markers presented here enable a number of ecological, population, individual identification, parentage and evolutionary studies of Pygoscelis, with potential use in other penguin species. Text Antarc* Antarctic Antarctica antarcticus Gentoo penguin PubMed Central (PMC) Antarctic Genetics and Molecular Biology 40 3 676 687 |
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Evolutionary Genetics |
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Evolutionary Genetics Vianna, Juliana A. Noll, Daly Mura-Jornet, Isidora Valenzuela-Guerra, Paulina González-Acuña, Daniel Navarro, Cristell Loyola, David E. Dantas, Gisele P. M. Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing |
topic_facet |
Evolutionary Genetics |
description |
Microsatellites are valuable molecular markers for evolutionary and ecological studies. Next generation sequencing is responsible for the increasing number of microsatellites for non-model species. Penguins of the Pygoscelis genus are comprised of three species: Adélie (P. adeliae), Chinstrap (P. antarcticus) and Gentoo penguin (P. papua), all distributed around Antarctica and the sub-Antarctic. The species have been affected differently by climate change, and the use of microsatellite markers will be crucial to monitor population dynamics. We characterized a large set of genome-wide microsatellites and evaluated polymorphisms in all three species. SOLiD reads were generated from the libraries of each species, identifying a large amount of microsatellite loci: 33,677, 35,265 and 42,057 for P. adeliae, P. antarcticus and P. papua, respectively. A large number of dinucleotide (66,139), trinucleotide (29,490) and tetranucleotide (11,849) microsatellites are described. Microsatellite abundance, diversity and orthology were characterized in penguin genomes. We evaluated polymorphisms in 170 tetranucleotide loci, obtaining 34 polymorphic loci in at least one species and 15 polymorphic loci in all three species, which allow to perform comparative studies. Polymorphic markers presented here enable a number of ecological, population, individual identification, parentage and evolutionary studies of Pygoscelis, with potential use in other penguin species. |
format |
Text |
author |
Vianna, Juliana A. Noll, Daly Mura-Jornet, Isidora Valenzuela-Guerra, Paulina González-Acuña, Daniel Navarro, Cristell Loyola, David E. Dantas, Gisele P. M. |
author_facet |
Vianna, Juliana A. Noll, Daly Mura-Jornet, Isidora Valenzuela-Guerra, Paulina González-Acuña, Daniel Navarro, Cristell Loyola, David E. Dantas, Gisele P. M. |
author_sort |
Vianna, Juliana A. |
title |
Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing |
title_short |
Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing |
title_full |
Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing |
title_fullStr |
Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing |
title_full_unstemmed |
Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing |
title_sort |
comparative genome-wide polymorphic microsatellite markers in antarctic penguins through next generation sequencing |
publisher |
Sociedade Brasileira de Genética |
publishDate |
2017 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5596379/ http://www.ncbi.nlm.nih.gov/pubmed/28898354 https://doi.org/10.1590/1678-4685-GMB-2016-0224 |
geographic |
Antarctic |
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Antarctic |
genre |
Antarc* Antarctic Antarctica antarcticus Gentoo penguin |
genre_facet |
Antarc* Antarctic Antarctica antarcticus Gentoo penguin |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5596379/ http://www.ncbi.nlm.nih.gov/pubmed/28898354 http://dx.doi.org/10.1590/1678-4685-GMB-2016-0224 |
op_rights |
Copyright © 2017, Sociedade Brasileira de Genética. http://creativecommons.org/licenses/by/4.0/ License information: This is an open-access article distributed under the terms of the Creative Commons Attribution License (type CC-BY), which permits unrestricted use, distribution and reproduction in any medium, provided the original article is properly cited. |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.1590/1678-4685-GMB-2016-0224 |
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Genetics and Molecular Biology |
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40 |
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3 |
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676 |
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687 |
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1766274701381861376 |