Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng

Autores
Soldati, Maria Cristina; Gavier Pizarro, Gregorio Ignacio; Morales, Matias; Pomponio, Maria Florencia; Zelener, Noga
Año de publicación
2024
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
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
Fuente
Forest Systems 33 (1) : eSC01. (2024)
Materia
Microsatellites
Genetic Markers
Microsatélites
Marcadores Genéticos
Genomic Markers
Functional Markers
Markers Validation
Marcadores Genómicos
Marcadores Funcionales
Validación de Marcadores
Ñandubay
Espinal
Neltuma affinis
Nivel de accesibilidad
acceso abierto
Condiciones de uso
http://creativecommons.org/licenses/by-nc-sa/4.0/
Repositorio
INTA Digital (INTA)
Institución
Instituto Nacional de Tecnología Agropecuaria
OAI Identificador
oai:localhost:20.500.12123/17238
Acceder
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oai_identifier_str oai:localhost:20.500.12123/17238
network_acronym_str INTADig
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network_name_str INTA Digital (INTA)
spelling Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis sprengSoldati, Maria CristinaGavier Pizarro, Gregorio IgnacioMorales, MatiasPomponio, Maria FlorenciaZelener, NogaMicrosatellitesGenetic MarkersMicrosatélitesMarcadores GenéticosGenomic MarkersFunctional MarkersMarkers ValidationMarcadores GenómicosMarcadores FuncionalesValidación de MarcadoresÑandubayEspinalNeltuma affinisAim 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 BiológicosFil: Soldati, María Cristina. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; ArgentinaFil: Gavier Pizarro, Gregorio Ignacio. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Fisiología y Recursos Genéticos Vegetales; ArgentinaFil: 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; ArgentinaFil: Pomponio, Maria Florencia. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Recursos Biológicos; ArgentinaFil: Zelener, Noga. Instituto Nacional de Tecnología Agropecuaria (INTA). Centro de Investigación de Recursos Naturales; ArgentinaInstituto Nacional de Investigación y Tecnología Agraria y Alimentaria (España)2024-03-27T12:41:05Z2024-03-27T12:41:05Z2024-03-18info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/17238https://fs.revistas.csic.es/index.php/fs/article/view/205872171-9845https://doi.org/10.5424/fs/2024331-20587Forest Systems 33 (1) : eSC01. (2024)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo:eu-repograntAgreement/INTA/2019-PD-E2-I038-002, Evaluación, monitoreo y manejo de la biodiversidad en sistemas agropecuarios y forestalesinfo:eu-repograntAgreement/INTA/2019-PE-E6-I114-001, Caracterización de la diversidad genética de plantas, animales y microorganismos mediante herramientas de genómica aplicadainfo:eu-repo/semantics/openAccesshttp://creativecommons.org/licenses/by-nc-sa/4.0/Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)2025-09-29T13:46:26Zoai:localhost:20.500.12123/17238instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-09-29 13:46:26.608INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv 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
spellingShingle Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng
Soldati, Maria Cristina
Microsatellites
Genetic Markers
Microsatélites
Marcadores Genéticos
Genomic Markers
Functional Markers
Markers Validation
Marcadores Genómicos
Marcadores Funcionales
Validación de Marcadores
Ñandubay
Espinal
Neltuma affinis
title_short 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_sort Crop species transferability of G-SSR and EST-SSR markers to Neltuma affinis spreng
dc.creator.none.fl_str_mv Soldati, Maria Cristina
Gavier Pizarro, Gregorio Ignacio
Morales, Matias
Pomponio, Maria Florencia
Zelener, Noga
author Soldati, Maria Cristina
author_facet Soldati, Maria Cristina
Gavier Pizarro, Gregorio Ignacio
Morales, Matias
Pomponio, Maria Florencia
Zelener, Noga
author_role author
author2 Gavier Pizarro, Gregorio Ignacio
Morales, Matias
Pomponio, Maria Florencia
Zelener, Noga
author2_role author
author
author
author
dc.subject.none.fl_str_mv Microsatellites
Genetic Markers
Microsatélites
Marcadores Genéticos
Genomic Markers
Functional Markers
Markers Validation
Marcadores Genómicos
Marcadores Funcionales
Validación de Marcadores
Ñandubay
Espinal
Neltuma affinis
topic Microsatellites
Genetic Markers
Microsatélites
Marcadores Genéticos
Genomic Markers
Functional Markers
Markers Validation
Marcadores Genómicos
Marcadores Funcionales
Validación de Marcadores
Ñandubay
Espinal
Neltuma affinis
dc.description.none.fl_txt_mv 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
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.
publishDate 2024
dc.date.none.fl_str_mv 2024-03-27T12:41:05Z
2024-03-27T12:41:05Z
2024-03-18
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv 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
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
identifier_str_mv 2171-9845
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv 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
dc.rights.none.fl_str_mv 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)
eu_rights_str_mv openAccess
rights_invalid_str_mv http://creativecommons.org/licenses/by-nc-sa/4.0/
Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)
dc.format.none.fl_str_mv application/pdf
dc.publisher.none.fl_str_mv Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (España)
publisher.none.fl_str_mv Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (España)
dc.source.none.fl_str_mv Forest Systems 33 (1) : eSC01. (2024)
reponame:INTA Digital (INTA)
instname:Instituto Nacional de Tecnología Agropecuaria
reponame_str INTA Digital (INTA)
collection INTA Digital (INTA)
instname_str Instituto Nacional de Tecnología Agropecuaria
repository.name.fl_str_mv INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuaria
repository.mail.fl_str_mv tripaldi.nicolas@inta.gob.ar
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score 12.559606

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