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

Autor: Noll, D., Leon, F., Brandt, D., Pistorius, P., Le Bohec, Céline, Bonadonna, F., Trathan P., N., Barbosa, A., Raya Rey, A., Dantas G. P., M., Bowie R. C., K., Poulin, E., Vianna J., A.
Přispěvatelé: Agencia Estatal de Investigación (España), Ministerio de Economía y Competitividad (España), University of South Carolina [Columbia], DST/NRF Centre of Excellence at the Percy FitzPatrick Institute for African Ornithology [South Africa], Nelson Mandela Metropolitan University [Port Elizabeth, South Africa], Département Ecologie, Physiologie et Ethologie (DEPE-IPHC), Institut Pluridisciplinaire Hubert Curien (IPHC), Université de Strasbourg (UNISTRA)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Ecologie comportementale (EC), École normale supérieure - Paris (ENS-PSL), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut National de la Recherche Agronomique (INRA)-Université Montpellier 2 - Sciences et Techniques (UM2)-Université Paris-Sud - Paris 11 (UP11)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Université de Bourgogne (UB)-Centre National de la Recherche Scientifique (CNRS), Universidad de Chile = University of Chile [Santiago] (UCHILE), Pontificia Universidad Católica de Chile (UC), University of California [Berkeley], University of California, Nelson Mandela University [Port Elizabeth], Université de Strasbourg (UNISTRA)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Centre Scientifique de Monaco (CSM), Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), British Antarctic Survey (BAS), Natural Environment Research Council (NERC), Museo Nacional de Ciencias Naturales [Madrid] (MNCN), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), Universidad Nacional de Tierra del Fuego, Antártida e islas del Atlántico Sur (UNTDF), Centro Austral de Investigaciones Científicas [Ushuaia] (CADIC), Consejo Nacional de Investigaciones Científicas y Técnicas [Buenos Aires] (CONICET), Pontifícia Universidade Católica de Minas Gerais (PUC Minas), University of California [Berkeley] (UC Berkeley), University of California (UC), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE)
Rok vydání: 2022
Předmět:
Zdroj: Digital.CSIC. Repositorio Institucional del CSIC
instname
Scientific Reports
Scientific Reports, Nature Publishing Group, 2022, 12, pp.3767
Scientific Reports, Nature Publishing Group, 2022, 12 (1), pp.3767. ⟨10.1038/s41598-022-07562-0⟩
Scientific Reports, 2022, 12, pp.3767. ⟨10.1038/s41598-022-07562-0⟩
ISSN: 2045-2322
Popis: 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) 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.
Financial support for this study was provided by Beca ANID Doctorado Nacional (Folio: 21171214), Millennium Institute Biodiversity of Antarctic and Subantarctic Ecosystems (BASE) ANID—Millennium Science Initiative Program—ICN2021_002, Inach RT_12-14, Fondecyt 1150517, PIA ACT172065 GAB, Center of genome regulation (CRG) ANID/FONDAP/15200002, the CNPq (431463/2016-6) and the PROANTAR, IPEV programs 137 ANTAVIA-ECOPHY and 354 ETHOTAAF and by the Spanish Research Agency (CGL2004-01348, CGL2007-60369, POL2006-06635 and CTM2015-64720-R).
Databáze: OpenAIRE
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