Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation

Autores
Noll, D.; Leon, F.; Brandt, D.; Pistorius, P.; Le Bohec, C.; Bonadonna, F.; Trathan, P. N.; Barbosa, A.; Raya Rey, Andrea Nélida; Dantas, G. P. M.; Bowie, R. C. K.; Poulin, E.; Vianna, J. A.
Año de publicación
2022
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
Although mitochondrial DNA has been widely used in phylogeography, evidence has emerged that factors such as climate, food availability, and environmental pressures that produce high levels of stress can exert a strong influence on mitochondrial genomes, to the point of promoting the persistence of certain genotypes in order to compensate for the metabolic requirements of the local environment. As recently discovered, the gentoo penguins (Pygoscelis papua) comprise four highly divergent lineages across their distribution spanning the Antarctic and sub-Antarctic regions. Gentoo penguins therefore represent a suitable animal model to study adaptive processes across divergent environments. Based on 62 mitogenomes that we obtained from nine locations spanning all four gentoo penguin lineages, we demonstrated lineage-specific nucleotide substitutions for various genes, but only lineage-specific amino acid replacements for the ND1 and ND5 protein-coding genes. Purifying selection (dN/dS < 1) is the main driving force in the protein-coding genes that shape the diversity of mitogenomes in gentoo penguins. Positive selection (dN/dS > 1) was mostly present in codons of the Complex I (NADH genes), supported by two different codon-based methods at the ND1 and ND4 in the most divergent lineages, the eastern gentoo penguin from Crozet and Marion Islands and the southern gentoo penguin from Antarctica respectively. Additionally, ND5 and ATP6 were under selection in the branches of the phylogeny involving all gentoo penguins except the eastern lineage. Our study suggests that local adaptation of gentoo penguins has emerged as a response to environmental variability promoting the fixation of mitochondrial haplotypes in a non-random manner. Mitogenome adaptation is thus likely to have been associated with gentoo penguin diversification across the Southern Ocean and to have promoted their survival in extreme environments such as Antarctica. Such selective processes on the mitochondrial genome may also be responsible for the discordance detected between nuclear- and mitochondrial-based phylogenies of gentoo penguin lineages.
Fil: Noll, D.. Pontificia Universidad Católica de Chile; Chile. Universidad de Chile; Chile. Universidad Católica de Chile; Chile
Fil: Leon, F.. Universidad Católica de Chile; Chile. Pontificia Universidad Católica de Chile; Chile
Fil: Brandt, D.. University of California at Berkeley; Estados Unidos
Fil: Pistorius, P.. Nelson Mandela University; Sudáfrica
Fil: Le Bohec, C.. Centre Scientifique de Monaco; Mónaco. Université de Strasbourg; Francia
Fil: Bonadonna, F.. Université de Montpellier; Francia
Fil: Trathan, P. N.. British Antarctic Survey; Reino Unido
Fil: Barbosa, A.. Consejo Superior de Investigaciones Científicas. Museo Nacional de Ciencias Naturales; España
Fil: Raya Rey, Andrea Nélida. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Austral de Investigaciones Científicas; Argentina
Fil: Dantas, G. P. M.. Pontifícia Universidade Católica de Minas Gerais; Brasil
Fil: Bowie, R. C. K.. University of California at Berkeley; Estados Unidos
Fil: Poulin, E.. Universidad de Chile; Chile
Fil: Vianna, J. A.. Universidad Católica de Chile; Chile. Pontificia Universidad Católica de Chile; Chile
Materia
GENEIICA
ADAPTACION
`PINGÜINO PAPUA
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/216363
Acceder
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network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolationNoll, D.Leon, F.Brandt, D.Pistorius, P.Le Bohec, C.Bonadonna, F.Trathan, P. N.Barbosa, A.Raya Rey, Andrea NélidaDantas, G. P. M.Bowie, R. C. K.Poulin, E.Vianna, J. A.GENEIICAADAPTACION`PINGÜINO PAPUAhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Although mitochondrial DNA has been widely used in phylogeography, evidence has emerged that factors such as climate, food availability, and environmental pressures that produce high levels of stress can exert a strong influence on mitochondrial genomes, to the point of promoting the persistence of certain genotypes in order to compensate for the metabolic requirements of the local environment. As recently discovered, the gentoo penguins (Pygoscelis papua) comprise four highly divergent lineages across their distribution spanning the Antarctic and sub-Antarctic regions. Gentoo penguins therefore represent a suitable animal model to study adaptive processes across divergent environments. Based on 62 mitogenomes that we obtained from nine locations spanning all four gentoo penguin lineages, we demonstrated lineage-specific nucleotide substitutions for various genes, but only lineage-specific amino acid replacements for the ND1 and ND5 protein-coding genes. Purifying selection (dN/dS < 1) is the main driving force in the protein-coding genes that shape the diversity of mitogenomes in gentoo penguins. Positive selection (dN/dS > 1) was mostly present in codons of the Complex I (NADH genes), supported by two different codon-based methods at the ND1 and ND4 in the most divergent lineages, the eastern gentoo penguin from Crozet and Marion Islands and the southern gentoo penguin from Antarctica respectively. Additionally, ND5 and ATP6 were under selection in the branches of the phylogeny involving all gentoo penguins except the eastern lineage. Our study suggests that local adaptation of gentoo penguins has emerged as a response to environmental variability promoting the fixation of mitochondrial haplotypes in a non-random manner. Mitogenome adaptation is thus likely to have been associated with gentoo penguin diversification across the Southern Ocean and to have promoted their survival in extreme environments such as Antarctica. Such selective processes on the mitochondrial genome may also be responsible for the discordance detected between nuclear- and mitochondrial-based phylogenies of gentoo penguin lineages.Fil: Noll, D.. Pontificia Universidad Católica de Chile; Chile. Universidad de Chile; Chile. Universidad Católica de Chile; ChileFil: Leon, F.. Universidad Católica de Chile; Chile. Pontificia Universidad Católica de Chile; ChileFil: Brandt, D.. University of California at Berkeley; Estados UnidosFil: Pistorius, P.. Nelson Mandela University; SudáfricaFil: Le Bohec, C.. Centre Scientifique de Monaco; Mónaco. Université de Strasbourg; FranciaFil: Bonadonna, F.. Université de Montpellier; FranciaFil: Trathan, P. N.. British Antarctic Survey; Reino UnidoFil: Barbosa, A.. Consejo Superior de Investigaciones Científicas. Museo Nacional de Ciencias Naturales; EspañaFil: Raya Rey, Andrea Nélida. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Austral de Investigaciones Científicas; ArgentinaFil: Dantas, G. P. M.. Pontifícia Universidade Católica de Minas Gerais; BrasilFil: Bowie, R. C. K.. University of California at Berkeley; Estados UnidosFil: Poulin, E.. Universidad de Chile; ChileFil: Vianna, J. A.. Universidad Católica de Chile; Chile. Pontificia Universidad Católica de Chile; ChileNature2022-12info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/216363Noll, D.; Leon, F.; Brandt, D.; Pistorius, P.; Le Bohec, C.; et al.; Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation; Nature; Scientific Reports; 12; 1; 12-2022; 1-132045-2322CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/doi/10.1038/s41598-022-07562-0info:eu-repo/semantics/altIdentifier/url/https://www.nature.com/articles/s41598-022-07562-0info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:09:03Zoai:ri.conicet.gov.ar:11336/216363instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-29 10:09:03.919CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
title Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
spellingShingle Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
Noll, D.
GENEIICA
ADAPTACION
`PINGÜINO PAPUA
title_short Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
title_full Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
title_fullStr Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
title_full_unstemmed Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
title_sort Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation
dc.creator.none.fl_str_mv Noll, D.
Leon, F.
Brandt, D.
Pistorius, P.
Le Bohec, C.
Bonadonna, F.
Trathan, P. N.
Barbosa, A.
Raya Rey, Andrea Nélida
Dantas, G. P. M.
Bowie, R. C. K.
Poulin, E.
Vianna, J. A.
author Noll, D.
author_facet Noll, D.
Leon, F.
Brandt, D.
Pistorius, P.
Le Bohec, C.
Bonadonna, F.
Trathan, P. N.
Barbosa, A.
Raya Rey, Andrea Nélida
Dantas, G. P. M.
Bowie, R. C. K.
Poulin, E.
Vianna, J. A.
author_role author
author2 Leon, F.
Brandt, D.
Pistorius, P.
Le Bohec, C.
Bonadonna, F.
Trathan, P. N.
Barbosa, A.
Raya Rey, Andrea Nélida
Dantas, G. P. M.
Bowie, R. C. K.
Poulin, E.
Vianna, J. A.
author2_role author
author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv GENEIICA
ADAPTACION
`PINGÜINO PAPUA
topic GENEIICA
ADAPTACION
`PINGÜINO PAPUA
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Although mitochondrial DNA has been widely used in phylogeography, evidence has emerged that factors such as climate, food availability, and environmental pressures that produce high levels of stress can exert a strong influence on mitochondrial genomes, to the point of promoting the persistence of certain genotypes in order to compensate for the metabolic requirements of the local environment. As recently discovered, the gentoo penguins (Pygoscelis papua) comprise four highly divergent lineages across their distribution spanning the Antarctic and sub-Antarctic regions. Gentoo penguins therefore represent a suitable animal model to study adaptive processes across divergent environments. Based on 62 mitogenomes that we obtained from nine locations spanning all four gentoo penguin lineages, we demonstrated lineage-specific nucleotide substitutions for various genes, but only lineage-specific amino acid replacements for the ND1 and ND5 protein-coding genes. Purifying selection (dN/dS < 1) is the main driving force in the protein-coding genes that shape the diversity of mitogenomes in gentoo penguins. Positive selection (dN/dS > 1) was mostly present in codons of the Complex I (NADH genes), supported by two different codon-based methods at the ND1 and ND4 in the most divergent lineages, the eastern gentoo penguin from Crozet and Marion Islands and the southern gentoo penguin from Antarctica respectively. Additionally, ND5 and ATP6 were under selection in the branches of the phylogeny involving all gentoo penguins except the eastern lineage. Our study suggests that local adaptation of gentoo penguins has emerged as a response to environmental variability promoting the fixation of mitochondrial haplotypes in a non-random manner. Mitogenome adaptation is thus likely to have been associated with gentoo penguin diversification across the Southern Ocean and to have promoted their survival in extreme environments such as Antarctica. Such selective processes on the mitochondrial genome may also be responsible for the discordance detected between nuclear- and mitochondrial-based phylogenies of gentoo penguin lineages.
Fil: Noll, D.. Pontificia Universidad Católica de Chile; Chile. Universidad de Chile; Chile. Universidad Católica de Chile; Chile
Fil: Leon, F.. Universidad Católica de Chile; Chile. Pontificia Universidad Católica de Chile; Chile
Fil: Brandt, D.. University of California at Berkeley; Estados Unidos
Fil: Pistorius, P.. Nelson Mandela University; Sudáfrica
Fil: Le Bohec, C.. Centre Scientifique de Monaco; Mónaco. Université de Strasbourg; Francia
Fil: Bonadonna, F.. Université de Montpellier; Francia
Fil: Trathan, P. N.. British Antarctic Survey; Reino Unido
Fil: Barbosa, A.. Consejo Superior de Investigaciones Científicas. Museo Nacional de Ciencias Naturales; España
Fil: Raya Rey, Andrea Nélida. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Austral de Investigaciones Científicas; Argentina
Fil: Dantas, G. P. M.. Pontifícia Universidade Católica de Minas Gerais; Brasil
Fil: Bowie, R. C. K.. University of California at Berkeley; Estados Unidos
Fil: Poulin, E.. Universidad de Chile; Chile
Fil: Vianna, J. A.. Universidad Católica de Chile; Chile. Pontificia Universidad Católica de Chile; Chile
description Although mitochondrial DNA has been widely used in phylogeography, evidence has emerged that factors such as climate, food availability, and environmental pressures that produce high levels of stress can exert a strong influence on mitochondrial genomes, to the point of promoting the persistence of certain genotypes in order to compensate for the metabolic requirements of the local environment. As recently discovered, the gentoo penguins (Pygoscelis papua) comprise four highly divergent lineages across their distribution spanning the Antarctic and sub-Antarctic regions. Gentoo penguins therefore represent a suitable animal model to study adaptive processes across divergent environments. Based on 62 mitogenomes that we obtained from nine locations spanning all four gentoo penguin lineages, we demonstrated lineage-specific nucleotide substitutions for various genes, but only lineage-specific amino acid replacements for the ND1 and ND5 protein-coding genes. Purifying selection (dN/dS < 1) is the main driving force in the protein-coding genes that shape the diversity of mitogenomes in gentoo penguins. Positive selection (dN/dS > 1) was mostly present in codons of the Complex I (NADH genes), supported by two different codon-based methods at the ND1 and ND4 in the most divergent lineages, the eastern gentoo penguin from Crozet and Marion Islands and the southern gentoo penguin from Antarctica respectively. Additionally, ND5 and ATP6 were under selection in the branches of the phylogeny involving all gentoo penguins except the eastern lineage. Our study suggests that local adaptation of gentoo penguins has emerged as a response to environmental variability promoting the fixation of mitochondrial haplotypes in a non-random manner. Mitogenome adaptation is thus likely to have been associated with gentoo penguin diversification across the Southern Ocean and to have promoted their survival in extreme environments such as Antarctica. Such selective processes on the mitochondrial genome may also be responsible for the discordance detected between nuclear- and mitochondrial-based phylogenies of gentoo penguin lineages.
publishDate 2022
dc.date.none.fl_str_mv 2022-12
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/216363
Noll, D.; Leon, F.; Brandt, D.; Pistorius, P.; Le Bohec, C.; et al.; Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation; Nature; Scientific Reports; 12; 1; 12-2022; 1-13
2045-2322
CONICET Digital
CONICET
url http://hdl.handle.net/11336/216363
identifier_str_mv Noll, D.; Leon, F.; Brandt, D.; Pistorius, P.; Le Bohec, C.; et al.; Positive selection over the mitochondrial genome and its role in the diversification of gentoo penguins in response to adaptation in isolation; Nature; Scientific Reports; 12; 1; 12-2022; 1-13
2045-2322
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/doi/10.1038/s41598-022-07562-0
info:eu-repo/semantics/altIdentifier/url/https://www.nature.com/articles/s41598-022-07562-0
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Nature
publisher.none.fl_str_mv Nature
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
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instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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