Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs

Autores
Deperi, Sofía Irene; Tagliotti, Martín Enrique; Bedogni, Maria Cecilia; Manrique-Carpintero, Norma; Coombs, Joseph; Zhang, Ruofang; Douches, David; Huarte, Marcelo Atilio
Año de publicación
2018
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
The reported narrow genetic base of cultivated potato (Solanum tuberosum) can be expanded by the introgression of many related species with large genetic diversity. The analysis of the genetic structure of a potato population is important to broaden the genetic base of breeding programs by the identification of different genetic pools. A panel composed by 231 diverse genotypes was characterized using single nucleotide polymorphism (SNP) markers of the Illumina Infinium Potato SNP Array V2 to identify population structure and assess genetic diversity using discriminant analysis of principal components (DAPC) and pedigree analysis. Results revealed the presence of five clusters within the populations dif ferentiated principally by ploidy, taxonomy, origin and breeding program. The information obtained in this work could be readily used as a guide for parental introduction in new breed ing programs that want to maximize variability by combination of contrasting variability sources such as those presented here.
EEA Balcarce
Fil: Deperi, Sofía Irene. Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET); Argentina
Fil: Tagliotti, Martín Enrique. Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET); Argentina
Fil: Bedogni, Maria Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina
Fil: Manrique-Carpintero, Norma. Michigan State University; Estados Unidos
Fil: Coombs, Joseph. Michigan State University; Estados Unidos
Fil: Zhang, Ruofang. Inner Mongolia University; China
Fil: Douches, David. Michigan State University; Estados Unidos
Fil: Huarte, Marcelo Atilio. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina
Fuente
PLoS ONE 13 (3) : e0194398. (March 2018)
Materia
Solanum tuberosum
Papa
Estructura Genética
Tetraploidia
Polimorfismo de Nucleótido Único
Estructura de la Población
Potatoes
Genetic Structures
Tetraploidy
Single Nucleotide Polymorphisms
Population Structure
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:20.500.12123/21653
Acceder
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spelling Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPsDeperi, Sofía IreneTagliotti, Martín EnriqueBedogni, Maria CeciliaManrique-Carpintero, NormaCoombs, JosephZhang, RuofangDouches, DavidHuarte, Marcelo AtilioSolanum tuberosumPapaEstructura GenéticaTetraploidiaPolimorfismo de Nucleótido ÚnicoEstructura de la PoblaciónPotatoesGenetic StructuresTetraploidySingle Nucleotide PolymorphismsPopulation StructureThe reported narrow genetic base of cultivated potato (Solanum tuberosum) can be expanded by the introgression of many related species with large genetic diversity. The analysis of the genetic structure of a potato population is important to broaden the genetic base of breeding programs by the identification of different genetic pools. A panel composed by 231 diverse genotypes was characterized using single nucleotide polymorphism (SNP) markers of the Illumina Infinium Potato SNP Array V2 to identify population structure and assess genetic diversity using discriminant analysis of principal components (DAPC) and pedigree analysis. Results revealed the presence of five clusters within the populations dif ferentiated principally by ploidy, taxonomy, origin and breeding program. The information obtained in this work could be readily used as a guide for parental introduction in new breed ing programs that want to maximize variability by combination of contrasting variability sources such as those presented here.EEA BalcarceFil: Deperi, Sofía Irene. Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET); ArgentinaFil: Tagliotti, Martín Enrique. Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET); ArgentinaFil: Bedogni, Maria Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; ArgentinaFil: Manrique-Carpintero, Norma. Michigan State University; Estados UnidosFil: Coombs, Joseph. Michigan State University; Estados UnidosFil: Zhang, Ruofang. Inner Mongolia University; ChinaFil: Douches, David. Michigan State University; Estados UnidosFil: Huarte, Marcelo Atilio. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; ArgentinaPlos ONE2025-03-13T14:01:21Z2025-03-13T14:01:21Z2018-03-16info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttp://hdl.handle.net/20.500.12123/216531932-6203PLoS ONE 13 (3) : e0194398. (March 2018)reponame:INTA Digital (INTA)instname:Instituto Nacional de Tecnología Agropecuariaenginfo: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)2025-10-23T11:19:26Zoai:localhost:20.500.12123/21653instacron:INTAInstitucionalhttp://repositorio.inta.gob.ar/Organismo científico-tecnológicoNo correspondehttp://repositorio.inta.gob.ar/oai/requesttripaldi.nicolas@inta.gob.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:l2025-10-23 11:19:27.064INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse
dc.title.none.fl_str_mv Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
title Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
spellingShingle Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
Deperi, Sofía Irene
Solanum tuberosum
Papa
Estructura Genética
Tetraploidia
Polimorfismo de Nucleótido Único
Estructura de la Población
Potatoes
Genetic Structures
Tetraploidy
Single Nucleotide Polymorphisms
Population Structure
title_short Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
title_full Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
title_fullStr Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
title_full_unstemmed Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
title_sort Discriminant analysis of principal components and pedigree assessment of genetic diversity and population structure in a tetraploid potato panel using SNPs
dc.creator.none.fl_str_mv Deperi, Sofía Irene
Tagliotti, Martín Enrique
Bedogni, Maria Cecilia
Manrique-Carpintero, Norma
Coombs, Joseph
Zhang, Ruofang
Douches, David
Huarte, Marcelo Atilio
author Deperi, Sofía Irene
author_facet Deperi, Sofía Irene
Tagliotti, Martín Enrique
Bedogni, Maria Cecilia
Manrique-Carpintero, Norma
Coombs, Joseph
Zhang, Ruofang
Douches, David
Huarte, Marcelo Atilio
author_role author
author2 Tagliotti, Martín Enrique
Bedogni, Maria Cecilia
Manrique-Carpintero, Norma
Coombs, Joseph
Zhang, Ruofang
Douches, David
Huarte, Marcelo Atilio
author2_role author
author
author
author
author
author
author
dc.subject.none.fl_str_mv Solanum tuberosum
Papa
Estructura Genética
Tetraploidia
Polimorfismo de Nucleótido Único
Estructura de la Población
Potatoes
Genetic Structures
Tetraploidy
Single Nucleotide Polymorphisms
Population Structure
topic Solanum tuberosum
Papa
Estructura Genética
Tetraploidia
Polimorfismo de Nucleótido Único
Estructura de la Población
Potatoes
Genetic Structures
Tetraploidy
Single Nucleotide Polymorphisms
Population Structure
dc.description.none.fl_txt_mv The reported narrow genetic base of cultivated potato (Solanum tuberosum) can be expanded by the introgression of many related species with large genetic diversity. The analysis of the genetic structure of a potato population is important to broaden the genetic base of breeding programs by the identification of different genetic pools. A panel composed by 231 diverse genotypes was characterized using single nucleotide polymorphism (SNP) markers of the Illumina Infinium Potato SNP Array V2 to identify population structure and assess genetic diversity using discriminant analysis of principal components (DAPC) and pedigree analysis. Results revealed the presence of five clusters within the populations dif ferentiated principally by ploidy, taxonomy, origin and breeding program. The information obtained in this work could be readily used as a guide for parental introduction in new breed ing programs that want to maximize variability by combination of contrasting variability sources such as those presented here.
EEA Balcarce
Fil: Deperi, Sofía Irene. Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET); Argentina
Fil: Tagliotti, Martín Enrique. Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET); Argentina
Fil: Bedogni, Maria Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina
Fil: Manrique-Carpintero, Norma. Michigan State University; Estados Unidos
Fil: Coombs, Joseph. Michigan State University; Estados Unidos
Fil: Zhang, Ruofang. Inner Mongolia University; China
Fil: Douches, David. Michigan State University; Estados Unidos
Fil: Huarte, Marcelo Atilio. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina
description The reported narrow genetic base of cultivated potato (Solanum tuberosum) can be expanded by the introgression of many related species with large genetic diversity. The analysis of the genetic structure of a potato population is important to broaden the genetic base of breeding programs by the identification of different genetic pools. A panel composed by 231 diverse genotypes was characterized using single nucleotide polymorphism (SNP) markers of the Illumina Infinium Potato SNP Array V2 to identify population structure and assess genetic diversity using discriminant analysis of principal components (DAPC) and pedigree analysis. Results revealed the presence of five clusters within the populations dif ferentiated principally by ploidy, taxonomy, origin and breeding program. The information obtained in this work could be readily used as a guide for parental introduction in new breed ing programs that want to maximize variability by combination of contrasting variability sources such as those presented here.
publishDate 2018
dc.date.none.fl_str_mv 2018-03-16
2025-03-13T14:01:21Z
2025-03-13T14:01:21Z
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/20.500.12123/21653
1932-6203
url http://hdl.handle.net/20.500.12123/21653
identifier_str_mv 1932-6203
dc.language.none.fl_str_mv eng
language eng
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 Plos ONE
publisher.none.fl_str_mv Plos ONE
dc.source.none.fl_str_mv PLoS ONE 13 (3) : e0194398. (March 2018)
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 12.982451

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