Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation
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...
| Autores principales: | , , , , , , , , |
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| Formato: | Artículo |
| Lenguaje: | Inglés |
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BioRxiv
2024
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| Acceso en línea: | 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 |
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| author | 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_browse | Defacio, Raquel Alicia Dominguez, Pia Guadalupe Fass, Monica Irinia Filippi, Carla Valeria Gutierrez, Ángela Verónica Lia, Veronica Viviana Paniego, Norma Beatriz Puebla, Andrea Vera, Pablo |
| 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_sort | Dominguez, Pia Guadalupe |
| collection | INTA Digital |
| 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. |
| format | Artículo |
| id | INTA17415 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | BioRxiv |
| publisherStr | BioRxiv |
| record_format | dspace |
| spelling | INTA174152024-04-16T10:52:22Z Genome-wide diversity in lowland and highland maize landraces from southern South America: population genetics insights to assist conservation 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 Maíz Genética Variación Genética Mejora Genética Cambio Climático Maize Genetics Genetic Variation Genetic Gain Climate Change 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 2024-04-16T10:37:41Z 2024-04-16T10:37:41Z 2024-02 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/acceptedVersion 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 eng 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) application/pdf BioRxiv BioRxiv (February 2024) |
| spellingShingle | Maíz Genética Variación Genética Mejora Genética Cambio Climático Maize Genetics Genetic Variation Genetic Gain Climate Change 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 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 |
| 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_short | 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 |
| topic | Maíz Genética Variación Genética Mejora Genética Cambio Climático Maize Genetics Genetic Variation Genetic Gain Climate Change |
| 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 |
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