Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis
IntroductionA combination of factors including migration, climate change and the encroachment of growing cities are associated with the extinction of species and a reduction in biodiversity. In Mexico maize landraces are an important source of germplasm that could be invaluable for future breeding p...
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Frontiers Media S.A.
2023-06-01
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| Series: | Frontiers in Ecology and Evolution |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fevo.2023.1139377/full |
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| author | Octavio Martínez Adriana Ceniceros Ojeda Corina Hayano-Kanashiro M. Humberto Reyes Valdés José Luis Pons Hernández June Simpson |
| author_facet | Octavio Martínez Adriana Ceniceros Ojeda Corina Hayano-Kanashiro M. Humberto Reyes Valdés José Luis Pons Hernández June Simpson |
| author_sort | Octavio Martínez |
| collection | DOAJ |
| description | IntroductionA combination of factors including migration, climate change and the encroachment of growing cities are associated with the extinction of species and a reduction in biodiversity. In Mexico maize landraces are an important source of germplasm that could be invaluable for future breeding programs in response a changing environment. Efforts to develop conservation strategies are hampered by the costs of housing and maintaining large germplasm collections. Effective criteria are therefore needed to identify rare genotypes that are in danger of being lost and to define minimal cost-effective core collections.MethodsA large-scale genotyping analysis of Mexican maize landraces was carried out using 14 SSR markers spread across the 10 maize chromosomes. DNA was extracted from 30 individual plants of each accession and 3 bulks containing 220ng of DNA from each of 10 individual plants were prepared. Amplification reactions were carried out individually on each bulk sample and SSRs were detected using an automatic sequencer. Binary scores were used to produce phylogenies and a rareness index Ri was developed to identify a minimal collection of accessions.ResultsA total of 40,140 individual plants from accessions obtained in 14 different Mexican states and covering 47 maize races were analyzed. Accessions from Northern and Central-Southern states could be distinguished based on genotype and accessions from Michoacán state were found to be distinct to all other accessions. A minimal collection of 56 accessions that covered all identified alleles and included rare allele combinations was determined.DiscussionThe strategy employed successfully distinguished accessions from different regions of Mexico and identified rare germplasm and offers a cost effective method to determine minimal germplasm collections for conservation in situ or ex situ. The strategy could easily be adapted for use in other native crop species such as common bean, chili pepper and tomato among others. |
| first_indexed | 2024-03-13T03:53:14Z |
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| language | English |
| last_indexed | 2024-03-13T03:53:14Z |
| publishDate | 2023-06-01 |
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| series | Frontiers in Ecology and Evolution |
| spelling | doaj.art-c990780901b34521adc20e97a00c57082023-06-22T09:41:42ZengFrontiers Media S.A.Frontiers in Ecology and Evolution2296-701X2023-06-011110.3389/fevo.2023.11393771139377Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysisOctavio Martínez0Adriana Ceniceros Ojeda1Corina Hayano-Kanashiro2M. Humberto Reyes Valdés3José Luis Pons Hernández4June Simpson5Unidad de Genómica Avanzada (UGA/LANGEBIO), CINVESTAV Irapuato, Irapuato, Guanajuato, MexicoDepartment of Genetic Engineering, CINVESTAV, Unidad Irapuato, Irapuato, Guanajuato, MexicoDICTUS, Universidad de Sonora, Hermosillo, Sonora, MexicoUniversidad Autónoma Agraria Antonio Narro. Calzada Antonio Narro, Saltillo, Coahuila, MexicoINIFAP Campo Experimental del Bajío, Celaya, Guanajuato, MexicoDepartment of Genetic Engineering, CINVESTAV, Unidad Irapuato, Irapuato, Guanajuato, MexicoIntroductionA combination of factors including migration, climate change and the encroachment of growing cities are associated with the extinction of species and a reduction in biodiversity. In Mexico maize landraces are an important source of germplasm that could be invaluable for future breeding programs in response a changing environment. Efforts to develop conservation strategies are hampered by the costs of housing and maintaining large germplasm collections. Effective criteria are therefore needed to identify rare genotypes that are in danger of being lost and to define minimal cost-effective core collections.MethodsA large-scale genotyping analysis of Mexican maize landraces was carried out using 14 SSR markers spread across the 10 maize chromosomes. DNA was extracted from 30 individual plants of each accession and 3 bulks containing 220ng of DNA from each of 10 individual plants were prepared. Amplification reactions were carried out individually on each bulk sample and SSRs were detected using an automatic sequencer. Binary scores were used to produce phylogenies and a rareness index Ri was developed to identify a minimal collection of accessions.ResultsA total of 40,140 individual plants from accessions obtained in 14 different Mexican states and covering 47 maize races were analyzed. Accessions from Northern and Central-Southern states could be distinguished based on genotype and accessions from Michoacán state were found to be distinct to all other accessions. A minimal collection of 56 accessions that covered all identified alleles and included rare allele combinations was determined.DiscussionThe strategy employed successfully distinguished accessions from different regions of Mexico and identified rare germplasm and offers a cost effective method to determine minimal germplasm collections for conservation in situ or ex situ. The strategy could easily be adapted for use in other native crop species such as common bean, chili pepper and tomato among others.https://www.frontiersin.org/articles/10.3389/fevo.2023.1139377/fullmaize landracesconservationrareness indexphylogenycore collection |
| spellingShingle | Octavio Martínez Adriana Ceniceros Ojeda Corina Hayano-Kanashiro M. Humberto Reyes Valdés José Luis Pons Hernández June Simpson Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis Frontiers in Ecology and Evolution maize landraces conservation rareness index phylogeny core collection |
| title | Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis |
| title_full | Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis |
| title_fullStr | Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis |
| title_full_unstemmed | Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis |
| title_short | Criteria for prioritizing selection of Mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis |
| title_sort | criteria for prioritizing selection of mexican maize landrace accessions for conservation in situ or ex situ based on phylogenetic analysis |
| topic | maize landraces conservation rareness index phylogeny core collection |
| url | https://www.frontiersin.org/articles/10.3389/fevo.2023.1139377/full |
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