Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng
Aim of study: To examine the transferability of G-SSR (genomic simple sequence repeats) and EST-SSR (expressed sequence tag simple sequence repeats) markers developed for several Neltuma species to N. affinis, a species with no genomic data. Area of study: West-Center of Entre Ríos province, Argent...
| Autores principales: | , , , , |
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| Formato: | Artículo |
| Lenguaje: | Inglés |
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Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (España)
2024
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| Acceso en línea: | http://hdl.handle.net/20.500.12123/17238 https://fs.revistas.csic.es/index.php/fs/article/view/20587 https://doi.org/10.5424/fs/2024331-20587 |
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| author | Soldati, Maria Cristina Gavier Pizarro, Gregorio Ignacio Morales, Matias Pomponio, Maria Florencia Zelener, Noga |
| author_browse | Gavier Pizarro, Gregorio Ignacio Morales, Matias Pomponio, Maria Florencia Soldati, Maria Cristina Zelener, Noga |
| author_facet | Soldati, Maria Cristina Gavier Pizarro, Gregorio Ignacio Morales, Matias Pomponio, Maria Florencia Zelener, Noga |
| author_sort | Soldati, Maria Cristina |
| collection | INTA Digital |
| description | Aim of study: To examine the transferability of G-SSR (genomic simple sequence repeats) and EST-SSR (expressed sequence tag simple sequence repeats) markers developed for several Neltuma species to N. affinis, a species with no genomic data.
Area of study: West-Center of Entre Ríos province, Argentina. The set of molecular markers here proposed can be used to analyze samples from the entire species’ distribution range.
Material and methods: Twenty-five genomic G-SSRs and eleven EST-SSRs from multiple species were amplified in thirty N. affinis genotypes. Polymorphism, discrimination power and possible deviations from Hardy-Weinberg equilibrium were assessed.
Main results: Seventeen highly polymorphic G-SSRs were successfully transferred to N. affinis, with a PIC (polymorphic information content) average value of 0.811 and a He (expected heterozygosity) average value of 0.694; thirteen were validated, showing very low frequencies of null alleles and no linkage disequilibrium. Additionally, seven polymorphic EST-SSRs were transferred. As expected, PIC and He average values were low. Six out of seven markers were validated, and very low frequencies of null alleles and no linkage disequilibrium were observed.
Research highlights: This work provides information on the levels of microsatellites’ cross transferability to N. affinis, and its polymorphism degree. Two sets of polymorphic SSRs (genomic and expressed) to study the genetic status of the species are proposed. |
| format | Artículo |
| id | INTA17238 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (España) |
| publisherStr | Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (España) |
| record_format | dspace |
| spelling | INTA172382024-03-27T12:56:00Z Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng Soldati, Maria Cristina Gavier Pizarro, Gregorio Ignacio Morales, Matias Pomponio, Maria Florencia Zelener, Noga Microsatellites Genetic Markers Microsatélites Marcadores Genéticos Genomic Markers Functional Markers Markers Validation Marcadores Genómicos Marcadores Funcionales Validación de Marcadores Ñandubay Espinal Neltuma affinis Aim of study: To examine the transferability of G-SSR (genomic simple sequence repeats) and EST-SSR (expressed sequence tag simple sequence repeats) markers developed for several Neltuma species to N. affinis, a species with no genomic data. Area of study: West-Center of Entre Ríos province, Argentina. The set of molecular markers here proposed can be used to analyze samples from the entire species’ distribution range. Material and methods: Twenty-five genomic G-SSRs and eleven EST-SSRs from multiple species were amplified in thirty N. affinis genotypes. Polymorphism, discrimination power and possible deviations from Hardy-Weinberg equilibrium were assessed. Main results: Seventeen highly polymorphic G-SSRs were successfully transferred to N. affinis, with a PIC (polymorphic information content) average value of 0.811 and a He (expected heterozygosity) average value of 0.694; thirteen were validated, showing very low frequencies of null alleles and no linkage disequilibrium. Additionally, seven polymorphic EST-SSRs were transferred. As expected, PIC and He average values were low. Six out of seven markers were validated, and very low frequencies of null alleles and no linkage disequilibrium were observed. Research highlights: This work provides information on the levels of microsatellites’ cross transferability to N. affinis, and its polymorphism degree. Two sets of polymorphic SSRs (genomic and expressed) to study the genetic status of the species are proposed. Instituto de Recursos Biológicos Fil: Soldati, María Cristina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina Fil: Gavier Pizarro, Gregorio Ignacio. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Fisiología y Recursos Genéticos Vegetales; Argentina Fil: Morales, Matias. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Universidad de Morón. Facultad de Agronomía y Ciencias Agroalimentarias; Argentina Fil: Pomponio, Maria Florencia. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; Argentina Fil: Zelener, Noga. Instituto Nacional de Tecnología Agropecuaria (INTA). Centro de Investigación de Recursos Naturales; Argentina 2024-03-27T12:41:05Z 2024-03-27T12:41:05Z 2024-03-18 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/17238 https://fs.revistas.csic.es/index.php/fs/article/view/20587 2171-9845 https://doi.org/10.5424/fs/2024331-20587 eng info:eu-repograntAgreement/INTA/2019-PD-E2-I038-002, Evaluación, monitoreo y manejo de la biodiversidad en sistemas agropecuarios y forestales info:eu-repograntAgreement/INTA/2019-PE-E6-I114-001, Caracterización de la diversidad genética de plantas, animales y microorganismos mediante herramientas de genómica aplicada 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 Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (España) Forest Systems 33 (1) : eSC01. (2024) |
| spellingShingle | Microsatellites Genetic Markers Microsatélites Marcadores Genéticos Genomic Markers Functional Markers Markers Validation Marcadores Genómicos Marcadores Funcionales Validación de Marcadores Ñandubay Espinal Neltuma affinis Soldati, Maria Cristina Gavier Pizarro, Gregorio Ignacio Morales, Matias Pomponio, Maria Florencia Zelener, Noga Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng |
| title | Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng |
| title_full | Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng |
| title_fullStr | Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng |
| title_full_unstemmed | Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng |
| title_short | Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng |
| title_sort | crop species transferability of g ssr and est ssr markers to neltuma affinis spreng |
| topic | Microsatellites Genetic Markers Microsatélites Marcadores Genéticos Genomic Markers Functional Markers Markers Validation Marcadores Genómicos Marcadores Funcionales Validación de Marcadores Ñandubay Espinal Neltuma affinis |
| url | http://hdl.handle.net/20.500.12123/17238 https://fs.revistas.csic.es/index.php/fs/article/view/20587 https://doi.org/10.5424/fs/2024331-20587 |
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