Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon
The Amazonian shrub Myrciaria dubia (camu-camu) produces vitamin C-rich fruits of growing commercial interest. However, sustainable utilization requires assessment and protection of the genetic diversity of the available germplasm. This study aimed to develop and apply microsatellite markers to asse...
| Autores principales: | , , , , , , , , , , , |
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| Formato: | Artículo |
| Lenguaje: | Inglés |
| Publicado: |
MDPI
2024
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| Materias: | |
| Acceso en línea: | http://hdl.handle.net/20.500.12955/2630 https://doi.org/10.3390/f15111873 |
| _version_ | 1855490555761393664 |
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| author | Castro, Juan C. Vasquez Guizado, Stalin Juan Vigil Santillan, Bianca Estefani Ascue, Francisco Rojas Villa, Naysha Paredes, Jae D. Cobos, Marianela Castro, Carlos G. Motta, Daniel E. Adrianzén, Pedro M. Imán Correa, Sixto Alfredo Maddox, J. Dylan |
| author_browse | Adrianzén, Pedro M. Ascue, Francisco Castro, Carlos G. Castro, Juan C. Cobos, Marianela Imán Correa, Sixto Alfredo Maddox, J. Dylan Motta, Daniel E. Paredes, Jae D. Rojas Villa, Naysha Vasquez Guizado, Stalin Juan Vigil Santillan, Bianca Estefani |
| author_facet | Castro, Juan C. Vasquez Guizado, Stalin Juan Vigil Santillan, Bianca Estefani Ascue, Francisco Rojas Villa, Naysha Paredes, Jae D. Cobos, Marianela Castro, Carlos G. Motta, Daniel E. Adrianzén, Pedro M. Imán Correa, Sixto Alfredo Maddox, J. Dylan |
| author_sort | Castro, Juan C. |
| collection | Repositorio INIA |
| description | The Amazonian shrub Myrciaria dubia (camu-camu) produces vitamin C-rich fruits of growing commercial interest. However, sustainable utilization requires assessment and protection of the genetic diversity of the available germplasm. This study aimed to develop and apply microsatellite markers to assess genetic diversity and construct a core collection of M. dubia germplasm from the Peruvian Amazon. Sixteen polymorphic microsatellite loci were developed using an enrichment approach. The evaluation of 336 genotypes from 43 accessions of the germplasm bank, originating from eight river basins, was conducted using these newly developed markers. Genetic diversity parameters, including observed and expected heterozygosity, were calculated. Analysis of molecular variance (AMOVA) was performed to assess the distribution of genetic variation within and among accessions and river basins. Bayesian clustering analysis was employed to infer population structure. A core collection was constructed to maximize allelic richness. High genetic diversity was observed, with heterozygosity values ranging from 0.468 to 0.644 (observed) and 0.684 to 0.817 (expected) at the river basin level. AMOVA indicated significant genetic variation within (73–86%) compared to among (14–27%) accessions and river basins. Bayesian clustering detected ten genetic clusters, with several degrees of admixture among river basins, except for the genetically homogeneous Putumayo River basin. A core collection comprising 84 plant genotypes (25% of the full collection) was established, representing 90.82% of the overall allelic diversity. These results have important implications for M. dubia conservation strategies and breeding programs, in demonstrating a need for genetic connectivity between populations but preserving unique genetic resources in isolated basins. These results validate the expected levels of diversity and population subdivision in a crop and stress the need to secure genetically diverse germplasms, underscoring the importance of thorough genetic characterization for ex situ germplasm management. |
| format | Artículo |
| id | INIA2630 |
| institution | Institucional Nacional de Innovación Agraria |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | MDPI |
| publisherStr | MDPI |
| record_format | dspace |
| spelling | INIA26302025-03-09T15:26:31Z Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon Castro, Juan C. Vasquez Guizado, Stalin Juan Vigil Santillan, Bianca Estefani Ascue, Francisco Rojas Villa, Naysha Paredes, Jae D. Cobos, Marianela Castro, Carlos G. Motta, Daniel E. Adrianzén, Pedro M. Imán Correa, Sixto Alfredo Maddox, J. Dylan Amazonian crop Ex situ conservation Core collection Molecular markers Plant genetic resources Simple sequence repeats https://purl.org/pe-repo/ocde/ford#4.01.02 Genetic diversity (as resource) The Amazonian shrub Myrciaria dubia (camu-camu) produces vitamin C-rich fruits of growing commercial interest. However, sustainable utilization requires assessment and protection of the genetic diversity of the available germplasm. This study aimed to develop and apply microsatellite markers to assess genetic diversity and construct a core collection of M. dubia germplasm from the Peruvian Amazon. Sixteen polymorphic microsatellite loci were developed using an enrichment approach. The evaluation of 336 genotypes from 43 accessions of the germplasm bank, originating from eight river basins, was conducted using these newly developed markers. Genetic diversity parameters, including observed and expected heterozygosity, were calculated. Analysis of molecular variance (AMOVA) was performed to assess the distribution of genetic variation within and among accessions and river basins. Bayesian clustering analysis was employed to infer population structure. A core collection was constructed to maximize allelic richness. High genetic diversity was observed, with heterozygosity values ranging from 0.468 to 0.644 (observed) and 0.684 to 0.817 (expected) at the river basin level. AMOVA indicated significant genetic variation within (73–86%) compared to among (14–27%) accessions and river basins. Bayesian clustering detected ten genetic clusters, with several degrees of admixture among river basins, except for the genetically homogeneous Putumayo River basin. A core collection comprising 84 plant genotypes (25% of the full collection) was established, representing 90.82% of the overall allelic diversity. These results have important implications for M. dubia conservation strategies and breeding programs, in demonstrating a need for genetic connectivity between populations but preserving unique genetic resources in isolated basins. These results validate the expected levels of diversity and population subdivision in a crop and stress the need to secure genetically diverse germplasms, underscoring the importance of thorough genetic characterization for ex situ germplasm management. 2024-12-27T05:37:12Z 2024-12-27T05:37:12Z 2024-10-25 info:eu-repo/semantics/article Castro, J. C.; Vasquez-Guizado, S. J.; Vigil, B. E.; Ascue, F.; Rojas-Villa, N.; Paredes, J. D.; Cobos, M.; Castro, C. G.; Motta, D. E.; Adrianzén, P. M.; Imán, S. A.; & Maddox, J. D. (2024). Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon. Forests, 15(11), 1873. doi: 10.3390/f15111873 1999-4907 http://hdl.handle.net/20.500.12955/2630 https://doi.org/10.3390/f15111873 eng urn:issn:1999-4907 Forests info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/ application/pdf application/pdf MDPI CH Instituto Nacional de Innovación Agraria Repositorio Institucional - INIA |
| spellingShingle | Amazonian crop Ex situ conservation Core collection Molecular markers Plant genetic resources Simple sequence repeats https://purl.org/pe-repo/ocde/ford#4.01.02 Genetic diversity (as resource) Castro, Juan C. Vasquez Guizado, Stalin Juan Vigil Santillan, Bianca Estefani Ascue, Francisco Rojas Villa, Naysha Paredes, Jae D. Cobos, Marianela Castro, Carlos G. Motta, Daniel E. Adrianzén, Pedro M. Imán Correa, Sixto Alfredo Maddox, J. Dylan Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon |
| title | Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon |
| title_full | Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon |
| title_fullStr | Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon |
| title_full_unstemmed | Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon |
| title_short | Development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of Myrciaria dubia (Kunth) Mcvaugh germplasm from the peruvian Amazon |
| title_sort | development and application of microsatellite markers for genetic diversity assessment and construction of a core collection of myrciaria dubia kunth mcvaugh germplasm from the peruvian amazon |
| topic | Amazonian crop Ex situ conservation Core collection Molecular markers Plant genetic resources Simple sequence repeats https://purl.org/pe-repo/ocde/ford#4.01.02 Genetic diversity (as resource) |
| url | http://hdl.handle.net/20.500.12955/2630 https://doi.org/10.3390/f15111873 |
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