Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world

Autores: Sekely, Jill; Marchelli, Paula; Arana, María Veronica; Dauphin, Benjamin; Mattera, Maria Gabriela; Pastorino, Mario Juan; Scotti, Ivan; Soliani, Carolina; Heer, Katrin; Opgenoorth, Lars
Año de publicación: 2024
Idioma: inglés
Tipo de recurso: artículo
Estado: versión publicada
Descripción: Nothofagus pumilio is a foundation tree species that inhabits a 2000-km-long range in the southern Andes, a region with two perpendicular environmental gradients: temperature and photoperiod (North–South), and precipitation (West–East). We investigated local adaptation patterns by searching for relationships between environmental clines and signatures of adaptation in candidate genes related to stress response, growth, and phenology. Using a paired site sampling design within a landscape genome analysis, we analyzed 493 adult N. pumilio trees in 20 sampling sites across the species' latitudinal range. We screened 47,336 single nucleotide polymorphism (SNP) loci in 1632 contigs (i.e., coding regions along the genome). Population structure and genetic diversity analyses preceded four genome scan analyses using genetic and environmental data. Population structure and genetic diversity are mainly oriented along the latitude axis. Genome scans identified 445 outlier SNPs, which are loci showing signatures of selection. Temperature and photoperiod variables were associated with notably more outliers than precipitation. However, the most frequent biological functions among genes were water deprivation response and cold response, suggesting that stress response is comprised of complex and polygenic traits that are affected by many environmental variables. Our findings suggest that N. pumilio shows signatures of local adaptation to extant climate conditions, including temperature, photoperiod, and precipitation. However, climate change is likely to alter existing relationships among environmental conditions to which this species is currently adapted. These changes may have unpredictable consequences for the species' future survival, adaptation potential, and the people who depend upon these forests.
EEA Bariloche
Fil: Sekely, Jill. Philipps-Universität Marburg. Plant Ecology and Geobotany; Alemania
Fil: Sekely, Jill. Albert-Ludwigs Universität Freiburg. Forest Genetics; Alemania
Fil: Marchelli, Paula. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Marchelli, Paula. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Arana, María Veronica. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Arana, María Veronica. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Dauphin, Benjamin. Swiss Federal Research Institute WSL; Suiza
Fil: Mattera, Maria Gabriela. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Mattera, Maria Gabriela. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Pastorino, Mario Juan. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Pastorino, Mario Juan. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Scotti, Ivan. URFM. Institut national de recherche pour l’agriculture, l’alimentation et l’environnement (INRAE); Francia
Fil: Soliani, Carolina. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Soliani, Carolina. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina
Fil: Heer, Katrin. Albert-Ludwigs Universität Freiburg. Forest Genetics; Alemania
Fil: Opgenoorth, Lars. Philipps-Universität Marburg. Plant Ecology and Geobotany; Alemania
Fil: Opgenoorth, Lars. Swiss Federal Research Institute WSL; Suiza
Fuente: Plants, People, Planet : 1-19. (First published: 12 March 2024)
Materia: Nothofagus pumilio
Climate Change
Genomics
Genotype-environment Interaction
Genome Scans
Cambio Climático
Genómica
Interacción Genotipo Ambiente
Lenga
Región Patagónica
Nivel de accesibilidad: acceso abierto
Condiciones de uso: http://creativecommons.org/licenses/by-nc-sa/4.0/
Repositorio
Institución: Instituto Nacional de Tecnología Agropecuaria
OAI Identificador: oai:localhost:20.500.12123/17023

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spelling	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing worldSekely, JillMarchelli, PaulaArana, María VeronicaDauphin, BenjaminMattera, Maria GabrielaPastorino, Mario JuanScotti, IvanSoliani, CarolinaHeer, KatrinOpgenoorth, LarsNothofagus pumilioClimate ChangeGenomicsGenotype-environment InteractionGenome ScansCambio ClimáticoGenómicaInteracción Genotipo AmbienteLengaRegión PatagónicaNothofagus pumilio is a foundation tree species that inhabits a 2000-km-long range in the southern Andes, a region with two perpendicular environmental gradients: temperature and photoperiod (North–South), and precipitation (West–East). We investigated local adaptation patterns by searching for relationships between environmental clines and signatures of adaptation in candidate genes related to stress response, growth, and phenology. Using a paired site sampling design within a landscape genome analysis, we analyzed 493 adult N. pumilio trees in 20 sampling sites across the species' latitudinal range. We screened 47,336 single nucleotide polymorphism (SNP) loci in 1632 contigs (i.e., coding regions along the genome). Population structure and genetic diversity analyses preceded four genome scan analyses using genetic and environmental data. Population structure and genetic diversity are mainly oriented along the latitude axis. Genome scans identified 445 outlier SNPs, which are loci showing signatures of selection. Temperature and photoperiod variables were associated with notably more outliers than precipitation. However, the most frequent biological functions among genes were water deprivation response and cold response, suggesting that stress response is comprised of complex and polygenic traits that are affected by many environmental variables. Our findings suggest that N. pumilio shows signatures of local adaptation to extant climate conditions, including temperature, photoperiod, and precipitation. However, climate change is likely to alter existing relationships among environmental conditions to which this species is currently adapted. These changes may have unpredictable consequences for the species' future survival, adaptation potential, and the people who depend upon these forests.EEA BarilocheFil: Sekely, Jill. Philipps-Universität Marburg. Plant Ecology and Geobotany; AlemaniaFil: Sekely, Jill. Albert-Ludwigs Universität Freiburg. Forest Genetics; AlemaniaFil: Marchelli, Paula. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Marchelli, Paula. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Arana, María Veronica. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Arana, María Veronica. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Dauphin, Benjamin. Swiss Federal Research Institute WSL; SuizaFil: Mattera, Maria Gabriela. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Mattera, Maria Gabriela. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Pastorino, Mario Juan. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Pastorino, Mario Juan. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Scotti, Ivan. URFM. Institut national de recherche pour l’agriculture, l’alimentation et l’environnement (INRAE); FranciaFil: Soliani, Carolina. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Soliani, Carolina. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; ArgentinaFil: Heer, Katrin. Albert-Ludwigs Universität Freiburg. Forest Genetics; AlemaniaFil: Opgenoorth, Lars. Philipps-Universität Marburg. Plant Ecology and Geobotany; AlemaniaFil: Opgenoorth, Lars. Swiss Federal Research Institute WSL; SuizaWiley2024-03-13T13:35:27Z2024-03-13T13:35:27Z2024-03info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/17023https://nph.onlinelibrary.wiley.com/doi/10.1002/ppp3.105042572-2611https://doi.org/10.1002/ppp3.10504Plants, People, Planet : 1-19. (First published: 12 March 2024)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by-nc-sa/4.0/Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)2025-09-29T13:46:24Zoai:localhost:20.500.12123/17023instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-09-29 13:46:24.724INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world
title	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world
spellingShingle	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world Sekely, Jill Nothofagus pumilio Climate Change Genomics Genotype-environment Interaction Genome Scans Cambio Climático Genómica Interacción Genotipo Ambiente Lenga Región Patagónica
title_short	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world
title_full	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world
title_fullStr	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world
title_full_unstemmed	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world
title_sort	Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world
dc.creator.none.fl_str_mv	Sekely, Jill Marchelli, Paula Arana, María Veronica Dauphin, Benjamin Mattera, Maria Gabriela Pastorino, Mario Juan Scotti, Ivan Soliani, Carolina Heer, Katrin Opgenoorth, Lars
author	Sekely, Jill
author_facet	Sekely, Jill Marchelli, Paula Arana, María Veronica Dauphin, Benjamin Mattera, Maria Gabriela Pastorino, Mario Juan Scotti, Ivan Soliani, Carolina Heer, Katrin Opgenoorth, Lars
author_role	author
author2	Marchelli, Paula Arana, María Veronica Dauphin, Benjamin Mattera, Maria Gabriela Pastorino, Mario Juan Scotti, Ivan Soliani, Carolina Heer, Katrin Opgenoorth, Lars
author2_role	author author author author author author author author author
dc.subject.none.fl_str_mv	Nothofagus pumilio Climate Change Genomics Genotype-environment Interaction Genome Scans Cambio Climático Genómica Interacción Genotipo Ambiente Lenga Región Patagónica
topic	Nothofagus pumilio Climate Change Genomics Genotype-environment Interaction Genome Scans Cambio Climático Genómica Interacción Genotipo Ambiente Lenga Región Patagónica
dc.description.none.fl_txt_mv	Nothofagus pumilio is a foundation tree species that inhabits a 2000-km-long range in the southern Andes, a region with two perpendicular environmental gradients: temperature and photoperiod (North–South), and precipitation (West–East). We investigated local adaptation patterns by searching for relationships between environmental clines and signatures of adaptation in candidate genes related to stress response, growth, and phenology. Using a paired site sampling design within a landscape genome analysis, we analyzed 493 adult N. pumilio trees in 20 sampling sites across the species' latitudinal range. We screened 47,336 single nucleotide polymorphism (SNP) loci in 1632 contigs (i.e., coding regions along the genome). Population structure and genetic diversity analyses preceded four genome scan analyses using genetic and environmental data. Population structure and genetic diversity are mainly oriented along the latitude axis. Genome scans identified 445 outlier SNPs, which are loci showing signatures of selection. Temperature and photoperiod variables were associated with notably more outliers than precipitation. However, the most frequent biological functions among genes were water deprivation response and cold response, suggesting that stress response is comprised of complex and polygenic traits that are affected by many environmental variables. Our findings suggest that N. pumilio shows signatures of local adaptation to extant climate conditions, including temperature, photoperiod, and precipitation. However, climate change is likely to alter existing relationships among environmental conditions to which this species is currently adapted. These changes may have unpredictable consequences for the species' future survival, adaptation potential, and the people who depend upon these forests. EEA Bariloche Fil: Sekely, Jill. Philipps-Universität Marburg. Plant Ecology and Geobotany; Alemania Fil: Sekely, Jill. Albert-Ludwigs Universität Freiburg. Forest Genetics; Alemania Fil: Marchelli, Paula. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Marchelli, Paula. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Arana, María Veronica. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Arana, María Veronica. Consejo Nacional de Investigaciones Científicas y Técnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Dauphin, Benjamin. Swiss Federal Research Institute WSL; Suiza Fil: Mattera, Maria Gabriela. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Mattera, Maria Gabriela. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Pastorino, Mario Juan. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Pastorino, Mario Juan. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Scotti, Ivan. URFM. Institut national de recherche pour l’agriculture, l’alimentation et l’environnement (INRAE); Francia Fil: Soliani, Carolina. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Bariloche. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Soliani, Carolina. Consejo Nacional de Investigaciones Cientificas y Tecnicas. Instituto de Investigaciones Forestales y Agropecuarias Bariloche; Argentina Fil: Heer, Katrin. Albert-Ludwigs Universität Freiburg. Forest Genetics; Alemania Fil: Opgenoorth, Lars. Philipps-Universität Marburg. Plant Ecology and Geobotany; Alemania Fil: Opgenoorth, Lars. Swiss Federal Research Institute WSL; Suiza
description	Nothofagus pumilio is a foundation tree species that inhabits a 2000-km-long range in the southern Andes, a region with two perpendicular environmental gradients: temperature and photoperiod (North–South), and precipitation (West–East). We investigated local adaptation patterns by searching for relationships between environmental clines and signatures of adaptation in candidate genes related to stress response, growth, and phenology. Using a paired site sampling design within a landscape genome analysis, we analyzed 493 adult N. pumilio trees in 20 sampling sites across the species' latitudinal range. We screened 47,336 single nucleotide polymorphism (SNP) loci in 1632 contigs (i.e., coding regions along the genome). Population structure and genetic diversity analyses preceded four genome scan analyses using genetic and environmental data. Population structure and genetic diversity are mainly oriented along the latitude axis. Genome scans identified 445 outlier SNPs, which are loci showing signatures of selection. Temperature and photoperiod variables were associated with notably more outliers than precipitation. However, the most frequent biological functions among genes were water deprivation response and cold response, suggesting that stress response is comprised of complex and polygenic traits that are affected by many environmental variables. Our findings suggest that N. pumilio shows signatures of local adaptation to extant climate conditions, including temperature, photoperiod, and precipitation. However, climate change is likely to alter existing relationships among environmental conditions to which this species is currently adapted. These changes may have unpredictable consequences for the species' future survival, adaptation potential, and the people who depend upon these forests.
publishDate	2024
dc.date.none.fl_str_mv	2024-03-13T13:35:27Z 2024-03-13T13:35:27Z 2024-03
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/20.500.12123/17023 https://nph.onlinelibrary.wiley.com/doi/10.1002/ppp3.10504 2572-2611 https://doi.org/10.1002/ppp3.10504
url	http://hdl.handle.net/20.500.12123/17023 https://nph.onlinelibrary.wiley.com/doi/10.1002/ppp3.10504 https://doi.org/10.1002/ppp3.10504
identifier_str_mv	2572-2611
dc.language.none.fl_str_mv	eng
language	eng
dc.rights.none.fl_str_mv	info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
eu_rights_str_mv	openAccess
rights_invalid_str_mv	http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
dc.format.none.fl_str_mv	application/pdf
dc.publisher.none.fl_str_mv	Wiley
publisher.none.fl_str_mv	Wiley
dc.source.none.fl_str_mv	Plants, People, Planet : 1-19. (First published: 12 March 2024) reponame:INTA Digital (INTA) instname:Instituto Nacional de Tecnología Agropecuaria
reponame_str	INTA Digital (INTA)
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instname_str	Instituto Nacional de Tecnología Agropecuaria
repository.name.fl_str_mv	INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria
repository.mail.fl_str_mv	tripaldi.nicolas@inta.gob.ar
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Genomic responses to climate: Understanding local adaptation in the Andean tree species Nothofagus pumilio and implications for a changing world

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