Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)

Autores
Calderón, Pablo Luciano Sebastian; Mauri, Nuria; Muñoz, Claudio Javier; Carbonell Bejerano, Pablo; Bree, Laura; Gómez Talquenca, Sebastián; Royo, Carolina; Ibañez, Javier; Martinez Zapater, José Miguel; Lijavetzky, Diego Claudio
Año de publicación
2021
Idioma
inglés
Tipo de recurso
documento de conferencia
Estado
versión publicada
Descripción
Grapevine cultivars are clonally propagated to preserve their varietal attributes. However, genetic variations accumulate due to the occurrence of somatic mutations. This process is anthropically influenced through plant transportation, clonal propagation and selection. Malbec is a cultivar that is well-appreciated for the elaboration of red wine. It originated in Southwestern France and was introduced in Argentina during the 1850s. In order to study the clonal genetic diversity of Malbec grapevines, we generated whole-genome resequencing data for four accessions with different clonal propagation records. A stringent variant calling procedure was established to identify reliable polymorphisms among the analyzed accessions. The latter procedure retrieved 941 single nucleotide variants (SNVs). A reduced set of the detected SNVs was corroborated through Sanger sequencing and employed to custom-design a genotyping experiment. We successfully genotyped 214 Malbec accessions using 41 SNVs and identified 14 genotypes that clustered in two genetically divergent clonal lineages. These lineages were associated with the time span of clonal propagation of the analyzed accessions in Argentina and Europe. Our results show the usefulness of this approach for the study of the scarce intra-cultivar genetic diversity in grapevines. We also provide evidence on how human actions might have driven the accumulation of different somatic mutations, ultimately shaping the Malbec genetic diversity pattern.
Fil: Calderón, Pablo Luciano Sebastian. 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: Mauri, Nuria. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Muñoz, Claudio Javier. 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: Carbonell Bejerano, Pablo. Max Planck Institute for Developmental Biology; Alemania
Fil: Bree, Laura. Vivero Mercier Argentina; Argentina
Fil: Gómez Talquenca, Sebastián. Instituto Nacional de Tecnologia Agropecuaria. Centro Regional Mendoza-san Juan. Estacion Experimental Agropecuaria Mendoza. Agencia de Extension Rural Lujan de Cuyo.; Argentina
Fil: Royo, Carolina. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Ibañez, Javier. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Martinez Zapater, José Miguel. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Lijavetzky, Diego Claudio. 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
XIth International Symposium on Grapevine Physiology and Biotechnology
Stellenbosch
Sudáfrica
International Society for Horticultural Science
Materia
GENETIC DIVERSITY
MALBEC
CLONAL LINEAGES
PROPAGATION HISTORY
WHOLE GENOME RESEQUENCING
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:11336/172765
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/172765
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)Calderón, Pablo Luciano SebastianMauri, NuriaMuñoz, Claudio JavierCarbonell Bejerano, PabloBree, LauraGómez Talquenca, SebastiánRoyo, CarolinaIbañez, JavierMartinez Zapater, José MiguelLijavetzky, Diego ClaudioGENETIC DIVERSITYMALBECCLONAL LINEAGESPROPAGATION HISTORYWHOLE GENOME RESEQUENCINGhttps://purl.org/becyt/ford/1.6https://purl.org/becyt/ford/1Grapevine cultivars are clonally propagated to preserve their varietal attributes. However, genetic variations accumulate due to the occurrence of somatic mutations. This process is anthropically influenced through plant transportation, clonal propagation and selection. Malbec is a cultivar that is well-appreciated for the elaboration of red wine. It originated in Southwestern France and was introduced in Argentina during the 1850s. In order to study the clonal genetic diversity of Malbec grapevines, we generated whole-genome resequencing data for four accessions with different clonal propagation records. A stringent variant calling procedure was established to identify reliable polymorphisms among the analyzed accessions. The latter procedure retrieved 941 single nucleotide variants (SNVs). A reduced set of the detected SNVs was corroborated through Sanger sequencing and employed to custom-design a genotyping experiment. We successfully genotyped 214 Malbec accessions using 41 SNVs and identified 14 genotypes that clustered in two genetically divergent clonal lineages. These lineages were associated with the time span of clonal propagation of the analyzed accessions in Argentina and Europe. Our results show the usefulness of this approach for the study of the scarce intra-cultivar genetic diversity in grapevines. We also provide evidence on how human actions might have driven the accumulation of different somatic mutations, ultimately shaping the Malbec genetic diversity pattern.Fil: Calderón, Pablo Luciano Sebastian. 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: Mauri, Nuria. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; EspañaFil: Muñoz, Claudio Javier. 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: Carbonell Bejerano, Pablo. Max Planck Institute for Developmental Biology; AlemaniaFil: Bree, Laura. Vivero Mercier Argentina; ArgentinaFil: Gómez Talquenca, Sebastián. Instituto Nacional de Tecnologia Agropecuaria. Centro Regional Mendoza-san Juan. Estacion Experimental Agropecuaria Mendoza. Agencia de Extension Rural Lujan de Cuyo.; ArgentinaFil: Royo, Carolina. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; EspañaFil: Ibañez, Javier. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; EspañaFil: Martinez Zapater, José Miguel. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; EspañaFil: Lijavetzky, Diego Claudio. 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; ArgentinaXIth International Symposium on Grapevine Physiology and BiotechnologyStellenboschSudáfricaInternational Society for Horticultural ScienceInternational Society for Horticultural Science2021info:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/conferenceObjectSimposioBookhttp://purl.org/coar/resource_type/c_5794info:ar-repo/semantics/documentoDeConferenciaapplication/pdfapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/172765Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.); XIth International Symposium on Grapevine Physiology and Biotechnology; Stellenbosch; Sudáfrica; 2021; 63-63CONICET DigitalCONICETenginfo:eu-repo/semantics/altIdentifier/url/https://openpub.fmach.it/retrieve/handle/10449/70616/118604/book%20of%20abstract%20ISGPB2021.pdfInternacionalinfo:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-09-29T10:47:03Zoai:ri.conicet.gov.ar:11336/172765instacron: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:34982025-09-29 10:47:04.214CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
title Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
spellingShingle Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
Calderón, Pablo Luciano Sebastian
GENETIC DIVERSITY
MALBEC
CLONAL LINEAGES
PROPAGATION HISTORY
WHOLE GENOME RESEQUENCING
title_short Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
title_full Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
title_fullStr Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
title_full_unstemmed Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
title_sort Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.)
dc.creator.none.fl_str_mv Calderón, Pablo Luciano Sebastian
Mauri, Nuria
Muñoz, Claudio Javier
Carbonell Bejerano, Pablo
Bree, Laura
Gómez Talquenca, Sebastián
Royo, Carolina
Ibañez, Javier
Martinez Zapater, José Miguel
Lijavetzky, Diego Claudio
author Calderón, Pablo Luciano Sebastian
author_facet Calderón, Pablo Luciano Sebastian
Mauri, Nuria
Muñoz, Claudio Javier
Carbonell Bejerano, Pablo
Bree, Laura
Gómez Talquenca, Sebastián
Royo, Carolina
Ibañez, Javier
Martinez Zapater, José Miguel
Lijavetzky, Diego Claudio
author_role author
author2 Mauri, Nuria
Muñoz, Claudio Javier
Carbonell Bejerano, Pablo
Bree, Laura
Gómez Talquenca, Sebastián
Royo, Carolina
Ibañez, Javier
Martinez Zapater, José Miguel
Lijavetzky, Diego Claudio
author2_role author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv GENETIC DIVERSITY
MALBEC
CLONAL LINEAGES
PROPAGATION HISTORY
WHOLE GENOME RESEQUENCING
topic GENETIC DIVERSITY
MALBEC
CLONAL LINEAGES
PROPAGATION HISTORY
WHOLE GENOME RESEQUENCING
purl_subject.fl_str_mv https://purl.org/becyt/ford/1.6
https://purl.org/becyt/ford/1
dc.description.none.fl_txt_mv Grapevine cultivars are clonally propagated to preserve their varietal attributes. However, genetic variations accumulate due to the occurrence of somatic mutations. This process is anthropically influenced through plant transportation, clonal propagation and selection. Malbec is a cultivar that is well-appreciated for the elaboration of red wine. It originated in Southwestern France and was introduced in Argentina during the 1850s. In order to study the clonal genetic diversity of Malbec grapevines, we generated whole-genome resequencing data for four accessions with different clonal propagation records. A stringent variant calling procedure was established to identify reliable polymorphisms among the analyzed accessions. The latter procedure retrieved 941 single nucleotide variants (SNVs). A reduced set of the detected SNVs was corroborated through Sanger sequencing and employed to custom-design a genotyping experiment. We successfully genotyped 214 Malbec accessions using 41 SNVs and identified 14 genotypes that clustered in two genetically divergent clonal lineages. These lineages were associated with the time span of clonal propagation of the analyzed accessions in Argentina and Europe. Our results show the usefulness of this approach for the study of the scarce intra-cultivar genetic diversity in grapevines. We also provide evidence on how human actions might have driven the accumulation of different somatic mutations, ultimately shaping the Malbec genetic diversity pattern.
Fil: Calderón, Pablo Luciano Sebastian. 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: Mauri, Nuria. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Muñoz, Claudio Javier. 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: Carbonell Bejerano, Pablo. Max Planck Institute for Developmental Biology; Alemania
Fil: Bree, Laura. Vivero Mercier Argentina; Argentina
Fil: Gómez Talquenca, Sebastián. Instituto Nacional de Tecnologia Agropecuaria. Centro Regional Mendoza-san Juan. Estacion Experimental Agropecuaria Mendoza. Agencia de Extension Rural Lujan de Cuyo.; Argentina
Fil: Royo, Carolina. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Ibañez, Javier. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Martinez Zapater, José Miguel. Consejo Superior de Investigaciones Científicas de España. Instituto de Ciencias de la Vid y del Vino; España
Fil: Lijavetzky, Diego Claudio. 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
XIth International Symposium on Grapevine Physiology and Biotechnology
Stellenbosch
Sudáfrica
International Society for Horticultural Science
description Grapevine cultivars are clonally propagated to preserve their varietal attributes. However, genetic variations accumulate due to the occurrence of somatic mutations. This process is anthropically influenced through plant transportation, clonal propagation and selection. Malbec is a cultivar that is well-appreciated for the elaboration of red wine. It originated in Southwestern France and was introduced in Argentina during the 1850s. In order to study the clonal genetic diversity of Malbec grapevines, we generated whole-genome resequencing data for four accessions with different clonal propagation records. A stringent variant calling procedure was established to identify reliable polymorphisms among the analyzed accessions. The latter procedure retrieved 941 single nucleotide variants (SNVs). A reduced set of the detected SNVs was corroborated through Sanger sequencing and employed to custom-design a genotyping experiment. We successfully genotyped 214 Malbec accessions using 41 SNVs and identified 14 genotypes that clustered in two genetically divergent clonal lineages. These lineages were associated with the time span of clonal propagation of the analyzed accessions in Argentina and Europe. Our results show the usefulness of this approach for the study of the scarce intra-cultivar genetic diversity in grapevines. We also provide evidence on how human actions might have driven the accumulation of different somatic mutations, ultimately shaping the Malbec genetic diversity pattern.
publishDate 2021
dc.date.none.fl_str_mv 2021
dc.type.none.fl_str_mv info:eu-repo/semantics/publishedVersion
info:eu-repo/semantics/conferenceObject
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http://purl.org/coar/resource_type/c_5794
info:ar-repo/semantics/documentoDeConferencia
status_str publishedVersion
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dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/172765
Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.); XIth International Symposium on Grapevine Physiology and Biotechnology; Stellenbosch; Sudáfrica; 2021; 63-63
CONICET Digital
CONICET
url http://hdl.handle.net/11336/172765
identifier_str_mv Whole genome resequencing and custom genotyping unveil clonal lineages in Malbec grapevines (Vitis vinifera L.); XIth International Symposium on Grapevine Physiology and Biotechnology; Stellenbosch; Sudáfrica; 2021; 63-63
CONICET Digital
CONICET
dc.language.none.fl_str_mv eng
language eng
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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.coverage.none.fl_str_mv Internacional
dc.publisher.none.fl_str_mv International Society for Horticultural Science
publisher.none.fl_str_mv International Society for Horticultural Science
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
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instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
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repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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