Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation

Autores
Dominguez, Pia Guadalupe; Gutierrez, Ángela Verónica; Fass, Monica Irinia; Filippi, Carla Valeria; Vera, Pablo; Puebla, Andrea; Defacio, Raquel Alicia; Paniego, Norma Beatriz; Lia, Veronica Viviana
Año de publicación
2024
Idioma
inglés
Tipo de recurso
artículo
Estado
versión aceptada
Descripción
Maize (Zea mays ssp. mays L.) landraces are traditional American crops with high genetic variability that conform a source of original alleles for conventional maize breeding. Northern Argentina, one the southernmost regions of traditional maize cultivation in the Americas, harbours around 57 races traditionally grown in two regions with contrasting environmental conditions, namely the Andean mountains in the Northwest and the tropical grasslands and Atlantic Forest in the Northeast. These races encounter diverse threats to their genetic diversity and persistence in their regions of origin, with climate change standing out as one of the major challenges. In this work, we use genome-wide SNPs derived from ddRADseq to study the genetic diversity of individuals representing the five groups previously described for this area. This allowed us to distinguish two clearly differentiated gene pools, the Highland Northwestern maize (HNWA) and the Floury Northeastern maize (FNEA). Subsequently, we employed Essential Biodiversity Variables at the genetic level, as proposed by the Group on Earth Observations Biodiversity Observation Network (GEO BON), to evaluate the conservation status of these two groups. This assessment encompassed genetic diversity (Pi), inbreeding coefficient (F), and effective population size (Ne). FNEA showed low Ne values and high F values, while HNWA showed low Ne values and low Pi values, indicating that further genetic erosion is imminent for these landraces. Outlier detection methods allowed identification of putative adaptive genomic regions, consistent with previously reported flowering-time loci and chromosomal regions displaying introgression from the teosinte Zea mays ssp. mexicana. Finally, species distribution models were obtained for two future climate scenarios, showing a notable reduction in the potential planting area of HNWA and a shift in the cultivation areas of FNEA. Taken together, these results suggest that maize landraces from Northern Argentina may not be able to cope with climate change. Therefore, active conservation policies are advisable.
EEA Pergamino
Fil: Dominguez, Pia Guadalupe. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Dominguez, Pia Guadalupe. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Gutiérrez, Ángela V. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Gutiérrez, Ángela V. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Fass, Mónica Irina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Fass, Mónica Irina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Filippi, Carla Valeria. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Filippi, Carla Valeria. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Filippi, Carla Valeria. Universidad de la República. Facultad de Agronomía. Laboratorio de Bioquímica, Departamento de Biología Vegetal; Uruguay
Fil: Vera, Pablo. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Vera, Pablo. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Puebla, Andrea. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Puebla, Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Defacio, Raquel. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Pergamino. Recursos Genéticos; Argentina
Fil: Paniego, Norma Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Paniego, Norma Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Lia, Veronica Viviana. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Lia, Veronica Viviana. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Lia, Verónica Viviana. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina
Fuente
BioRxiv (February 2024)
Materia
Maíz
Genética
Variación Genética
Mejora Genética
Cambio Climático
Maize
Genetics
Genetic Variation
Genetic Gain
Climate Change
Nivel de accesibilidad
acceso abierto
Condiciones de uso
http://creativecommons.org/licenses/by-nc-sa/4.0/
Repositorio
INTA Digital (INTA)
Institución
Instituto Nacional de Tecnología Agropecuaria
OAI Identificador
oai:localhost:20.500.12123/17415
Acceder
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oai_identifier_str oai:localhost:20.500.12123/17415
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spelling Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservationDominguez, Pia GuadalupeGutierrez, Ángela VerónicaFass, Monica IriniaFilippi, Carla ValeriaVera, PabloPuebla, AndreaDefacio, Raquel AliciaPaniego, Norma BeatrizLia, Veronica VivianaMaízGenéticaVariación GenéticaMejora GenéticaCambio ClimáticoMaizeGeneticsGenetic VariationGenetic GainClimate ChangeMaize (Zea mays ssp. mays L.) landraces are traditional American crops with high genetic variability that conform a source of original alleles for conventional maize breeding. Northern Argentina, one the southernmost regions of traditional maize cultivation in the Americas, harbours around 57 races traditionally grown in two regions with contrasting environmental conditions, namely the Andean mountains in the Northwest and the tropical grasslands and Atlantic Forest in the Northeast. These races encounter diverse threats to their genetic diversity and persistence in their regions of origin, with climate change standing out as one of the major challenges. In this work, we use genome-wide SNPs derived from ddRADseq to study the genetic diversity of individuals representing the five groups previously described for this area. This allowed us to distinguish two clearly differentiated gene pools, the Highland Northwestern maize (HNWA) and the Floury Northeastern maize (FNEA). Subsequently, we employed Essential Biodiversity Variables at the genetic level, as proposed by the Group on Earth Observations Biodiversity Observation Network (GEO BON), to evaluate the conservation status of these two groups. This assessment encompassed genetic diversity (Pi), inbreeding coefficient (F), and effective population size (Ne). FNEA showed low Ne values and high F values, while HNWA showed low Ne values and low Pi values, indicating that further genetic erosion is imminent for these landraces. Outlier detection methods allowed identification of putative adaptive genomic regions, consistent with previously reported flowering-time loci and chromosomal regions displaying introgression from the teosinte Zea mays ssp. mexicana. Finally, species distribution models were obtained for two future climate scenarios, showing a notable reduction in the potential planting area of HNWA and a shift in the cultivation areas of FNEA. Taken together, these results suggest that maize landraces from Northern Argentina may not be able to cope with climate change. Therefore, active conservation policies are advisable.EEA PergaminoFil: Dominguez, Pia Guadalupe. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Dominguez, Pia Guadalupe. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Gutiérrez, Ángela V. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Gutiérrez, Ángela V. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Fass, Mónica Irina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Fass, Mónica Irina. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Filippi, Carla Valeria. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Filippi, Carla Valeria. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Filippi, Carla Valeria. Universidad de la República. Facultad de Agronomía. Laboratorio de Bioquímica, Departamento de Biología Vegetal; UruguayFil: Vera, Pablo. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Vera, Pablo. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Puebla, Andrea. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Puebla, Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Defacio, Raquel. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Pergamino. Recursos Genéticos; ArgentinaFil: Paniego, Norma Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Paniego, Norma Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Lia, Veronica Viviana. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; ArgentinaFil: Lia, Veronica Viviana. Consejo Nacional de Investigaciones Científicas y Técnicas; ArgentinaFil: Lia, Verónica Viviana. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; ArgentinaBioRxiv2024-04-16T10:37:41Z2024-04-16T10:37:41Z2024-02info:eu-repo/semantics/articleinfo:eu-repo/semantics/acceptedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/17415https://www.biorxiv.org/content/10.1101/2024.02.02.578655v12692-8205https://doi.org/10.1101/2024.02.02.578655BioRxiv (February 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)2025-10-16T09:31:35Zoai:localhost:20.500.12123/17415instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-10-16 09:31:35.372INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
title Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
spellingShingle Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
Dominguez, Pia Guadalupe
Maíz
Genética
Variación Genética
Mejora Genética
Cambio Climático
Maize
Genetics
Genetic Variation
Genetic Gain
Climate Change
title_short Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
title_full Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
title_fullStr Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
title_full_unstemmed Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
title_sort Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
dc.creator.none.fl_str_mv Dominguez, Pia Guadalupe
Gutierrez, Ángela Verónica
Fass, Monica Irinia
Filippi, Carla Valeria
Vera, Pablo
Puebla, Andrea
Defacio, Raquel Alicia
Paniego, Norma Beatriz
Lia, Veronica Viviana
author Dominguez, Pia Guadalupe
author_facet Dominguez, Pia Guadalupe
Gutierrez, Ángela Verónica
Fass, Monica Irinia
Filippi, Carla Valeria
Vera, Pablo
Puebla, Andrea
Defacio, Raquel Alicia
Paniego, Norma Beatriz
Lia, Veronica Viviana
author_role author
author2 Gutierrez, Ángela Verónica
Fass, Monica Irinia
Filippi, Carla Valeria
Vera, Pablo
Puebla, Andrea
Defacio, Raquel Alicia
Paniego, Norma Beatriz
Lia, Veronica Viviana
author2_role author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Maíz
Genética
Variación Genética
Mejora Genética
Cambio Climático
Maize
Genetics
Genetic Variation
Genetic Gain
Climate Change
topic Maíz
Genética
Variación Genética
Mejora Genética
Cambio Climático
Maize
Genetics
Genetic Variation
Genetic Gain
Climate Change
dc.description.none.fl_txt_mv Maize (Zea mays ssp. mays L.) landraces are traditional American crops with high genetic variability that conform a source of original alleles for conventional maize breeding. Northern Argentina, one the southernmost regions of traditional maize cultivation in the Americas, harbours around 57 races traditionally grown in two regions with contrasting environmental conditions, namely the Andean mountains in the Northwest and the tropical grasslands and Atlantic Forest in the Northeast. These races encounter diverse threats to their genetic diversity and persistence in their regions of origin, with climate change standing out as one of the major challenges. In this work, we use genome-wide SNPs derived from ddRADseq to study the genetic diversity of individuals representing the five groups previously described for this area. This allowed us to distinguish two clearly differentiated gene pools, the Highland Northwestern maize (HNWA) and the Floury Northeastern maize (FNEA). Subsequently, we employed Essential Biodiversity Variables at the genetic level, as proposed by the Group on Earth Observations Biodiversity Observation Network (GEO BON), to evaluate the conservation status of these two groups. This assessment encompassed genetic diversity (Pi), inbreeding coefficient (F), and effective population size (Ne). FNEA showed low Ne values and high F values, while HNWA showed low Ne values and low Pi values, indicating that further genetic erosion is imminent for these landraces. Outlier detection methods allowed identification of putative adaptive genomic regions, consistent with previously reported flowering-time loci and chromosomal regions displaying introgression from the teosinte Zea mays ssp. mexicana. Finally, species distribution models were obtained for two future climate scenarios, showing a notable reduction in the potential planting area of HNWA and a shift in the cultivation areas of FNEA. Taken together, these results suggest that maize landraces from Northern Argentina may not be able to cope with climate change. Therefore, active conservation policies are advisable.
EEA Pergamino
Fil: Dominguez, Pia Guadalupe. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Dominguez, Pia Guadalupe. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Gutiérrez, Ángela V. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Gutiérrez, Ángela V. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Fass, Mónica Irina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Fass, Mónica Irina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Filippi, Carla Valeria. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Filippi, Carla Valeria. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Filippi, Carla Valeria. Universidad de la República. Facultad de Agronomía. Laboratorio de Bioquímica, Departamento de Biología Vegetal; Uruguay
Fil: Vera, Pablo. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Vera, Pablo. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Puebla, Andrea. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Puebla, Andrea. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Defacio, Raquel. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Pergamino. Recursos Genéticos; Argentina
Fil: Paniego, Norma Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Paniego, Norma Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Lia, Veronica Viviana. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular; Argentina
Fil: Lia, Veronica Viviana. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
Fil: Lia, Verónica Viviana. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina
description Maize (Zea mays ssp. mays L.) landraces are traditional American crops with high genetic variability that conform a source of original alleles for conventional maize breeding. Northern Argentina, one the southernmost regions of traditional maize cultivation in the Americas, harbours around 57 races traditionally grown in two regions with contrasting environmental conditions, namely the Andean mountains in the Northwest and the tropical grasslands and Atlantic Forest in the Northeast. These races encounter diverse threats to their genetic diversity and persistence in their regions of origin, with climate change standing out as one of the major challenges. In this work, we use genome-wide SNPs derived from ddRADseq to study the genetic diversity of individuals representing the five groups previously described for this area. This allowed us to distinguish two clearly differentiated gene pools, the Highland Northwestern maize (HNWA) and the Floury Northeastern maize (FNEA). Subsequently, we employed Essential Biodiversity Variables at the genetic level, as proposed by the Group on Earth Observations Biodiversity Observation Network (GEO BON), to evaluate the conservation status of these two groups. This assessment encompassed genetic diversity (Pi), inbreeding coefficient (F), and effective population size (Ne). FNEA showed low Ne values and high F values, while HNWA showed low Ne values and low Pi values, indicating that further genetic erosion is imminent for these landraces. Outlier detection methods allowed identification of putative adaptive genomic regions, consistent with previously reported flowering-time loci and chromosomal regions displaying introgression from the teosinte Zea mays ssp. mexicana. Finally, species distribution models were obtained for two future climate scenarios, showing a notable reduction in the potential planting area of HNWA and a shift in the cultivation areas of FNEA. Taken together, these results suggest that maize landraces from Northern Argentina may not be able to cope with climate change. Therefore, active conservation policies are advisable.
publishDate 2024
dc.date.none.fl_str_mv 2024-04-16T10:37:41Z
2024-04-16T10:37:41Z
2024-02
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/acceptedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str acceptedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/20.500.12123/17415
https://www.biorxiv.org/content/10.1101/2024.02.02.578655v1
2692-8205
https://doi.org/10.1101/2024.02.02.578655
url http://hdl.handle.net/20.500.12123/17415
https://www.biorxiv.org/content/10.1101/2024.02.02.578655v1
https://doi.org/10.1101/2024.02.02.578655
identifier_str_mv 2692-8205
dc.language.none.fl_str_mv eng
language eng
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
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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 BioRxiv
publisher.none.fl_str_mv BioRxiv
dc.source.none.fl_str_mv BioRxiv (February 2024)
reponame:INTA Digital (INTA)
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repository.name.fl_str_mv INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria
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