Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing
Abstract 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), Chinstr...
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ftdoajarticles:oai:doaj.org/article:d23930027b324dd187007bf5cef27a77 2023-05-15T13:57:20+02:00 Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing Juliana A. Vianna Daly Noll Isidora Mura-Jornet Paulina Valenzuela-Guerra Daniel González-Acuña Cristell Navarro David E. Loyola Gisele P. M. Dantas https://doi.org/10.1590/1678-4685-gmb-2016-0224 https://doaj.org/article/d23930027b324dd187007bf5cef27a77 EN eng Sociedade Brasileira de Genética http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400676&lng=en&tlng=en https://doaj.org/toc/1678-4685 1678-4685 doi:10.1590/1678-4685-gmb-2016-0224 https://doaj.org/article/d23930027b324dd187007bf5cef27a77 Genetics and Molecular Biology, Vol 40, Iss 3, Pp 676-687 microsatellite markers penguin genome polymorphism tetranucleotide Genetics QH426-470 article ftdoajarticles https://doi.org/10.1590/1678-4685-gmb-2016-0224 2022-12-31T06:08:26Z Abstract 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. Article in Journal/Newspaper Antarc* Antarctic Antarctica antarcticus Gentoo penguin Directory of Open Access Journals: DOAJ Articles Antarctic Genetics and Molecular Biology 40 3 676 687 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
microsatellite markers penguin genome polymorphism tetranucleotide Genetics QH426-470 |
spellingShingle |
microsatellite markers penguin genome polymorphism tetranucleotide Genetics QH426-470 Juliana A. Vianna Daly Noll Isidora Mura-Jornet Paulina Valenzuela-Guerra Daniel González-Acuña Cristell Navarro David E. Loyola Gisele P. M. Dantas Comparative genome-wide polymorphic microsatellite markers in Antarctic penguins through next generation sequencing |
topic_facet |
microsatellite markers penguin genome polymorphism tetranucleotide Genetics QH426-470 |
description |
Abstract 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 |
Article in Journal/Newspaper |
author |
Juliana A. Vianna Daly Noll Isidora Mura-Jornet Paulina Valenzuela-Guerra Daniel González-Acuña Cristell Navarro David E. Loyola Gisele P. M. Dantas |
author_facet |
Juliana A. Vianna Daly Noll Isidora Mura-Jornet Paulina Valenzuela-Guerra Daniel González-Acuña Cristell Navarro David E. Loyola Gisele P. M. Dantas |
author_sort |
Juliana A. Vianna |
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 |
url |
https://doi.org/10.1590/1678-4685-gmb-2016-0224 https://doaj.org/article/d23930027b324dd187007bf5cef27a77 |
geographic |
Antarctic |
geographic_facet |
Antarctic |
genre |
Antarc* Antarctic Antarctica antarcticus Gentoo penguin |
genre_facet |
Antarc* Antarctic Antarctica antarcticus Gentoo penguin |
op_source |
Genetics and Molecular Biology, Vol 40, Iss 3, Pp 676-687 |
op_relation |
http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572017000400676&lng=en&tlng=en https://doaj.org/toc/1678-4685 1678-4685 doi:10.1590/1678-4685-gmb-2016-0224 https://doaj.org/article/d23930027b324dd187007bf5cef27a77 |
op_doi |
https://doi.org/10.1590/1678-4685-gmb-2016-0224 |
container_title |
Genetics and Molecular Biology |
container_volume |
40 |
container_issue |
3 |
container_start_page |
676 |
op_container_end_page |
687 |
_version_ |
1766264965028642816 |