Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments
The genetic diversity of 14 Japanese plum (Prunus salicina Lindl) landraces adapted to an ecosystem of alternating flooding and dry conditions was characterized using neutral simple sequence repeat (SSR) markers. Twelve SSRs located in six chromosomes of the Prunus persica reference genome resulted...
| Main Authors: | , , , , , , , , , , , |
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| Format: | info:ar-repo/semantics/artículo |
| Language: | Inglés |
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MDPI
2019
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| Online Access: | https://www.mdpi.com/2073-4395/9/9/487 http://hdl.handle.net/20.500.12123/6263 https://doi.org/10.3390/agronomy9090487 |
| _version_ | 1855035644431040512 |
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| author | Acuña, Cintia Vanesa Rivas, Juan Gabriel Brambilla, Silvina Maricel Cerrillo, Teresa Frusso, Enrique Garcia, Martin Nahuel Villalba, Pamela Victoria Aguirre, Natalia Cristina Sabio Y Garcia, Julia Veronica Martinez, Maria Carolina Hopp, Horacio Esteban Marcucci Poltri, Susana Noemi |
| author_browse | Acuña, Cintia Vanesa Aguirre, Natalia Cristina Brambilla, Silvina Maricel Cerrillo, Teresa Frusso, Enrique Garcia, Martin Nahuel Hopp, Horacio Esteban Marcucci Poltri, Susana Noemi Martinez, Maria Carolina Rivas, Juan Gabriel Sabio Y Garcia, Julia Veronica Villalba, Pamela Victoria |
| author_facet | Acuña, Cintia Vanesa Rivas, Juan Gabriel Brambilla, Silvina Maricel Cerrillo, Teresa Frusso, Enrique Garcia, Martin Nahuel Villalba, Pamela Victoria Aguirre, Natalia Cristina Sabio Y Garcia, Julia Veronica Martinez, Maria Carolina Hopp, Horacio Esteban Marcucci Poltri, Susana Noemi |
| author_sort | Acuña, Cintia Vanesa |
| collection | INTA Digital |
| description | The genetic diversity of 14 Japanese plum (Prunus salicina Lindl) landraces adapted to an ecosystem of alternating flooding and dry conditions was characterized using neutral simple sequence repeat (SSR) markers. Twelve SSRs located in six chromosomes of the Prunus persica reference genome resulted to be polymorphic, thus allowing identification of all the evaluated landraces. Differentiation between individuals was moderate to high (average shared allele distance (DAS) = 0.64), whereas the genetic diversity was high (average indices polymorphism information content (PIC) = 0.62, observed heterozygosity (Ho) = 0.51, unbiased expected heterozygosity (uHe) = 0.70). Clustering and genetic structure approaches grouped all individuals into two major groups that correlated with flesh color. This finding suggests that the intuitive breeding practices of growers tended to select plum trees according to specific phenotypic traits. These neutral markers were adequate for population genetic studies and cultivar identification. Furthermore, we assessed the SSR flanking genome regions (25 kb) in silico to search for candidate genes related to stress resistance or associated with other agronomic traits of interest. Interestingly, at least 26 of the 118 detected genes seem to be related to fruit quality, plant development, and stress resistance. This study suggests that the molecular characterization of specific landraces of Japanese plum that have been adapted to extreme agroecosystems is a useful approach to localize candidate genes which are potentially interesting for breeding. |
| format | info:ar-repo/semantics/artículo |
| id | INTA6263 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2019 |
| publishDateRange | 2019 |
| publishDateSort | 2019 |
| publisher | MDPI |
| publisherStr | MDPI |
| record_format | dspace |
| spelling | INTA62632025-07-28T14:58:29Z Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments Acuña, Cintia Vanesa Rivas, Juan Gabriel Brambilla, Silvina Maricel Cerrillo, Teresa Frusso, Enrique Garcia, Martin Nahuel Villalba, Pamela Victoria Aguirre, Natalia Cristina Sabio Y Garcia, Julia Veronica Martinez, Maria Carolina Hopp, Horacio Esteban Marcucci Poltri, Susana Noemi Prunus salicina Variación Genética Estrés de Sequia Genetic Variation Genetic Structures Drought Stress SSR Estructura Genética Genes Candidatos Ciruelo japonés Candidate Genes Japanese plum The genetic diversity of 14 Japanese plum (Prunus salicina Lindl) landraces adapted to an ecosystem of alternating flooding and dry conditions was characterized using neutral simple sequence repeat (SSR) markers. Twelve SSRs located in six chromosomes of the Prunus persica reference genome resulted to be polymorphic, thus allowing identification of all the evaluated landraces. Differentiation between individuals was moderate to high (average shared allele distance (DAS) = 0.64), whereas the genetic diversity was high (average indices polymorphism information content (PIC) = 0.62, observed heterozygosity (Ho) = 0.51, unbiased expected heterozygosity (uHe) = 0.70). Clustering and genetic structure approaches grouped all individuals into two major groups that correlated with flesh color. This finding suggests that the intuitive breeding practices of growers tended to select plum trees according to specific phenotypic traits. These neutral markers were adequate for population genetic studies and cultivar identification. Furthermore, we assessed the SSR flanking genome regions (25 kb) in silico to search for candidate genes related to stress resistance or associated with other agronomic traits of interest. Interestingly, at least 26 of the 118 detected genes seem to be related to fruit quality, plant development, and stress resistance. This study suggests that the molecular characterization of specific landraces of Japanese plum that have been adapted to extreme agroecosystems is a useful approach to localize candidate genes which are potentially interesting for breeding. Instituto de Biotecnología Fil: Acuña, Cintia Vanesa. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Rivas, Juan Gabriel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Brambilla, Silvina Maricel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Cerrillo, Teresa. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Delta del Paraná; Argentina Fil: Frusso, Enrique. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina Fil: Garcia, Martin Nahuel. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Villalba, Pamela Victoria. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Aguirre, Natalia Cristina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Sabio Y Garcia, Julia Verónica. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Martinez, Maria Carolina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Hopp, Horacio Esteban. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Marcucci Poltri, Susana Noemi. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina 2019-11-01T14:28:51Z 2019-11-01T14:28:51Z 2019-08 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion https://www.mdpi.com/2073-4395/9/9/487 http://hdl.handle.net/20.500.12123/6263 2073-4395 https://doi.org/10.3390/agronomy9090487 eng info:eu-repograntAgreement/INTA/PNBIO/1131044/AR./Genómica aplicada a estudios de ecología molecular y diversidad genética. 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 MDPI Agronomy 9 (9) : 487 (Agosto 2019) |
| spellingShingle | Prunus salicina Variación Genética Estrés de Sequia Genetic Variation Genetic Structures Drought Stress SSR Estructura Genética Genes Candidatos Ciruelo japonés Candidate Genes Japanese plum Acuña, Cintia Vanesa Rivas, Juan Gabriel Brambilla, Silvina Maricel Cerrillo, Teresa Frusso, Enrique Garcia, Martin Nahuel Villalba, Pamela Victoria Aguirre, Natalia Cristina Sabio Y Garcia, Julia Veronica Martinez, Maria Carolina Hopp, Horacio Esteban Marcucci Poltri, Susana Noemi Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments |
| title | Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments |
| title_full | Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments |
| title_fullStr | Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments |
| title_full_unstemmed | Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments |
| title_short | Characterization of genetic diversity in accessions of prunus salicina lindl : keeping fruit flesh color ideotype while adapting to water stressed environments |
| title_sort | characterization of genetic diversity in accessions of prunus salicina lindl keeping fruit flesh color ideotype while adapting to water stressed environments |
| topic | Prunus salicina Variación Genética Estrés de Sequia Genetic Variation Genetic Structures Drought Stress SSR Estructura Genética Genes Candidatos Ciruelo japonés Candidate Genes Japanese plum |
| url | https://www.mdpi.com/2073-4395/9/9/487 http://hdl.handle.net/20.500.12123/6263 https://doi.org/10.3390/agronomy9090487 |
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