A 48 SNP set for grapevine cultivar identification

Autores
Cabezas, José A.; Ibañez, Javier; Lijavetzky, Diego Claudio; Velez, Dolores; Bravo, Gema; Rodriguez, Virginia; Carreño, Iván; Jermakow, Angélica M.; Carreño, Juan; Ruiz Garcia, Leonor; Thomas, Mark R.; Martínez Zapater, José M.
Año de publicación
2011
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
them the future markers of choice for any type of genetic identification. Results We analyzed over 300 SNPs in the genome of grapevine using a resequencing strategy in a selection of 11 genotypes. Among the identified polymorphisms, we selected 48 SNPs spread across all grapevine chromosomes with allele frequencies balanced enough as to provide sufficient information content for genetic identification in grapevine and with good genotyping success rate. Marker stability was tested in repeated analyses of a 4 selected group of cultivars obtained all over the world to demonstrate their usefulness in genetic identification. Conclusions We have selected a set of 48 stable SNP markers with a high discrimination power and a uniform genome distribution (2–3 markers/chromosome) that is proposed as a standard set for grapevine (Vitis vinifera L.) genotyping. Any previous problems derived from microsatellite allele confusion between labs or the need to run reference cultivars to identify allele sizes disappear with this type of marker. Furthermore, being bi-allelic, allele and genotype naming are extremely simplified and data obtained with different equipment and by different laboratories is always fully comparable.
Fil: Cabezas, José A.. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria; España
Fil: Ibañez, Javier. Universidad de La Rioja-Gobierno de La Rioja. Instituto de Ciencias de la Vid y del Vino ; España
Fil: Lijavetzky, Diego Claudio. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Mendoza. Instituto de Biología Agrícola de Mendoza. Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias. Instituto de Biología Agrícola de Mendoza; Argentina
Fil: Velez, Dolores. Instituto Madrileño de Investigación y Desarrollo Rural, Agrario y Alimentario; España
Fil: Bravo, Gema. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España
Fil: Rodriguez, Virginia. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España
Fil: Carreño, Iván. La Alberca. Estación Sericícola; España
Fil: Jermakow, Angélica M.. CSIRO Plant Industry; Australia
Fil: Carreño, Juan. La Alberca. Estación Sericícola; España
Fil: Ruiz Garcia, Leonor. La Alberca. Estación Sericícola; España
Fil: Thomas, Mark R.. CSIRO Plant Industry; Australia
Fil: Martínez Zapater, José M.. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Universidad de La Rioja-Gobierno de La Rioja. Instituto de Ciencias de la Vid y del Vino ; España
Materia
Vitis vinifera
SNP
Genotyping
Veracode
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/41906
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/41906
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling A 48 SNP set for grapevine cultivar identificationCabezas, José A.Ibañez, JavierLijavetzky, Diego ClaudioVelez, DoloresBravo, GemaRodriguez, VirginiaCarreño, IvánJermakow, Angélica M.Carreño, JuanRuiz Garcia, LeonorThomas, Mark R.Martínez Zapater, José M.Vitis viniferaSNPGenotypingVeracodehttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1them the future markers of choice for any type of genetic identification. Results We analyzed over 300 SNPs in the genome of grapevine using a resequencing strategy in a selection of 11 genotypes. Among the identified polymorphisms, we selected 48 SNPs spread across all grapevine chromosomes with allele frequencies balanced enough as to provide sufficient information content for genetic identification in grapevine and with good genotyping success rate. Marker stability was tested in repeated analyses of a 4 selected group of cultivars obtained all over the world to demonstrate their usefulness in genetic identification. Conclusions We have selected a set of 48 stable SNP markers with a high discrimination power and a uniform genome distribution (2–3 markers/chromosome) that is proposed as a standard set for grapevine (Vitis vinifera L.) genotyping. Any previous problems derived from microsatellite allele confusion between labs or the need to run reference cultivars to identify allele sizes disappear with this type of marker. Furthermore, being bi-allelic, allele and genotype naming are extremely simplified and data obtained with different equipment and by different laboratories is always fully comparable.Fil: Cabezas, José A.. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria; EspañaFil: Ibañez, Javier. Universidad de La Rioja-Gobierno de La Rioja. Instituto de Ciencias de la Vid y del Vino ; EspañaFil: Lijavetzky, Diego Claudio. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Mendoza. Instituto de Biología Agrícola de Mendoza. Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias. Instituto de Biología Agrícola de Mendoza; ArgentinaFil: Velez, Dolores. Instituto Madrileño de Investigación y Desarrollo Rural, Agrario y Alimentario; EspañaFil: Bravo, Gema. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; EspañaFil: Rodriguez, Virginia. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; EspañaFil: Carreño, Iván. La Alberca. Estación Sericícola; EspañaFil: Jermakow, Angélica M.. CSIRO Plant Industry; AustraliaFil: Carreño, Juan. La Alberca. Estación Sericícola; EspañaFil: Ruiz Garcia, Leonor. La Alberca. Estación Sericícola; EspañaFil: Thomas, Mark R.. CSIRO Plant Industry; AustraliaFil: Martínez Zapater, José M.. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Universidad de La Rioja-Gobierno de La Rioja. Instituto de Ciencias de la Vid y del Vino ; EspañaBioMed Central2011-07info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/41906Cabezas, José A.; Ibañez, Javier; Lijavetzky, Diego Claudio; Velez, Dolores; Bravo, Gema; et al.; A 48 SNP set for grapevine cultivar identification; BioMed Central; BMC Plant Biology; 11; 153; 7-2011; 1-101471-2229CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://bmcplantbiol.biomedcentral.com/articles/10.1186/1471-2229-11-153info:eu-repo/semantics/altIdentifier/doi/10.1186/1471-2229-11-153info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-03T09:57:48Zoai:ri.conicet.gov.ar:11336/41906instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-09-03 09:57:48.974CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv A 48 SNP set for grapevine cultivar identification
title A 48 SNP set for grapevine cultivar identification
spellingShingle A 48 SNP set for grapevine cultivar identification
Cabezas, José A.
Vitis vinifera
SNP
Genotyping
Veracode
title_short A 48 SNP set for grapevine cultivar identification
title_full A 48 SNP set for grapevine cultivar identification
title_fullStr A 48 SNP set for grapevine cultivar identification
title_full_unstemmed A 48 SNP set for grapevine cultivar identification
title_sort A 48 SNP set for grapevine cultivar identification
dc.creator.none.fl_str_mv Cabezas, José A.
Ibañez, Javier
Lijavetzky, Diego Claudio
Velez, Dolores
Bravo, Gema
Rodriguez, Virginia
Carreño, Iván
Jermakow, Angélica M.
Carreño, Juan
Ruiz Garcia, Leonor
Thomas, Mark R.
Martínez Zapater, José M.
author Cabezas, José A.
author_facet Cabezas, José A.
Ibañez, Javier
Lijavetzky, Diego Claudio
Velez, Dolores
Bravo, Gema
Rodriguez, Virginia
Carreño, Iván
Jermakow, Angélica M.
Carreño, Juan
Ruiz Garcia, Leonor
Thomas, Mark R.
Martínez Zapater, José M.
author_role author
author2 Ibañez, Javier
Lijavetzky, Diego Claudio
Velez, Dolores
Bravo, Gema
Rodriguez, Virginia
Carreño, Iván
Jermakow, Angélica M.
Carreño, Juan
Ruiz Garcia, Leonor
Thomas, Mark R.
Martínez Zapater, José M.
author2_role author
author
author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Vitis vinifera
SNP
Genotyping
Veracode
topic Vitis vinifera
SNP
Genotyping
Veracode
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv them the future markers of choice for any type of genetic identification. Results We analyzed over 300 SNPs in the genome of grapevine using a resequencing strategy in a selection of 11 genotypes. Among the identified polymorphisms, we selected 48 SNPs spread across all grapevine chromosomes with allele frequencies balanced enough as to provide sufficient information content for genetic identification in grapevine and with good genotyping success rate. Marker stability was tested in repeated analyses of a 4 selected group of cultivars obtained all over the world to demonstrate their usefulness in genetic identification. Conclusions We have selected a set of 48 stable SNP markers with a high discrimination power and a uniform genome distribution (2–3 markers/chromosome) that is proposed as a standard set for grapevine (Vitis vinifera L.) genotyping. Any previous problems derived from microsatellite allele confusion between labs or the need to run reference cultivars to identify allele sizes disappear with this type of marker. Furthermore, being bi-allelic, allele and genotype naming are extremely simplified and data obtained with different equipment and by different laboratories is always fully comparable.
Fil: Cabezas, José A.. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria; España
Fil: Ibañez, Javier. Universidad de La Rioja-Gobierno de La Rioja. Instituto de Ciencias de la Vid y del Vino ; España
Fil: Lijavetzky, Diego Claudio. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Mendoza. Instituto de Biología Agrícola de Mendoza. Universidad Nacional de Cuyo. Facultad de Ciencias Agrarias. Instituto de Biología Agrícola de Mendoza; Argentina
Fil: Velez, Dolores. Instituto Madrileño de Investigación y Desarrollo Rural, Agrario y Alimentario; España
Fil: Bravo, Gema. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España
Fil: Rodriguez, Virginia. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España
Fil: Carreño, Iván. La Alberca. Estación Sericícola; España
Fil: Jermakow, Angélica M.. CSIRO Plant Industry; Australia
Fil: Carreño, Juan. La Alberca. Estación Sericícola; España
Fil: Ruiz Garcia, Leonor. La Alberca. Estación Sericícola; España
Fil: Thomas, Mark R.. CSIRO Plant Industry; Australia
Fil: Martínez Zapater, José M.. Centro Nacional de Biotecnología. Departamento de Genética Molecular de Plantas,; España. Universidad de La Rioja-Gobierno de La Rioja. Instituto de Ciencias de la Vid y del Vino ; España
description them the future markers of choice for any type of genetic identification. Results We analyzed over 300 SNPs in the genome of grapevine using a resequencing strategy in a selection of 11 genotypes. Among the identified polymorphisms, we selected 48 SNPs spread across all grapevine chromosomes with allele frequencies balanced enough as to provide sufficient information content for genetic identification in grapevine and with good genotyping success rate. Marker stability was tested in repeated analyses of a 4 selected group of cultivars obtained all over the world to demonstrate their usefulness in genetic identification. Conclusions We have selected a set of 48 stable SNP markers with a high discrimination power and a uniform genome distribution (2–3 markers/chromosome) that is proposed as a standard set for grapevine (Vitis vinifera L.) genotyping. Any previous problems derived from microsatellite allele confusion between labs or the need to run reference cultivars to identify allele sizes disappear with this type of marker. Furthermore, being bi-allelic, allele and genotype naming are extremely simplified and data obtained with different equipment and by different laboratories is always fully comparable.
publishDate 2011
dc.date.none.fl_str_mv 2011-07
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/11336/41906
Cabezas, José A.; Ibañez, Javier; Lijavetzky, Diego Claudio; Velez, Dolores; Bravo, Gema; et al.; A 48 SNP set for grapevine cultivar identification; BioMed Central; BMC Plant Biology; 11; 153; 7-2011; 1-10
1471-2229
CONICET Digital
CONICET
url http://hdl.handle.net/11336/41906
identifier_str_mv Cabezas, José A.; Ibañez, Javier; Lijavetzky, Diego Claudio; Velez, Dolores; Bravo, Gema; et al.; A 48 SNP set for grapevine cultivar identification; BioMed Central; BMC Plant Biology; 11; 153; 7-2011; 1-10
1471-2229
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/https://bmcplantbiol.biomedcentral.com/articles/10.1186/1471-2229-11-153
info:eu-repo/semantics/altIdentifier/doi/10.1186/1471-2229-11-153
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
application/pdf
dc.publisher.none.fl_str_mv BioMed Central
publisher.none.fl_str_mv BioMed Central
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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