Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultiv...
- Autores
- Tagliotti, Martín; Deperi, Sofia; Bedogni, Maria Cecilia; Zhang, Roufang; Manrique Carpintero, Norma C.; Coombs, Joseph; Douches, David; Huarte, Marcelo Atilio
- Año de publicación
- 2018
- Idioma
- inglés
- Tipo de recurso
- artículo
- Estado
- versión publicada
- Descripción
- Background: Diversity in crops is fundamental for plant breeding efforts. An accurate assessment of genetic diversity, using molecular markers, such as single nucleotide polymorphism (SNP), must be able to reveal the structure of the population under study. A characterization of population structure using easy measurable phenotypic traits could be a preliminary and low-cost approach to elucidate the genetic structure of a population. A potato population of 183 genotypes was evaluated using 4859 high-quality SNPs and 19 phenotypic traits commonly recorded in potato breeding programs. A Bayesian approach, Minimum Spanning Tree (MST) and diversity estimator, as well as multivariate analysis based on phenotypic traits, were adopted to assess the population structure. Results: Analysis based on molecular markers showed groups linked to the phylogenetic relationship among the germplasm as well as the link with the breeding program that provided the material. Diversity estimators consistently structured the population according to a priori group estimation. The phenotypic traits only discriminated main groups with contrasting characteristics, as different subspecies, ploidy level or membership in a breeding program, but were not able to discriminate within groups. A joint molecular and phenotypic characterization analysis discriminated groups based on phenotypic classification, taxonomic category, provenance source of genotypes and genetic background. Conclusions: This paper shows the significant level of diversity existing in a parental population of potato as well as the putative phylogenetic relationships among the genotypes. The use of easily measurable phenotypic traits among highly contrasting genotypes could be a reasonable approach to estimate population structure in the initial phases of a potato breeding program.
EEA Balcarce
Fil: Tagliotti, Martín. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.
Fil: Deperi, Sofía. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.
Fil: Bedogni, María Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina.
Fil: Zhang, R. Inner Mongolia University. Potato Engineering and Technology Research Centre; China
Fil: Manrique Carpintero, Norma C. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados Unidos
Fil: Coombs, Joseph. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados Unidos
Fil: Douches, David. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados Unidos
Fil: Huarte, Marcelo Atilio. INTA, Estación Experimental Agropecuaria Balcarce; Argentina. - Fuente
- BMC Genetics 19 (1) : 8 (January 2018)
- Materia
-
Papa
Solanun tuberosum
Fenotipos
Diversidad Genética
Estructura de la Población
Potatoes
Phenotypes
Genetic Divergence
Population Structure - Nivel de accesibilidad
- acceso abierto
- Condiciones de uso
- http://creativecommons.org/licenses/by-nc-sa/4.0/
- Repositorio
- Institución
- Instituto Nacional de Tecnología Agropecuaria
- OAI Identificador
- oai:localhost:20.500.12123/4849
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Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivarsTagliotti, MartínDeperi, SofiaBedogni, Maria CeciliaZhang, RoufangManrique Carpintero, Norma C.Coombs, JosephDouches, DavidHuarte, Marcelo AtilioPapaSolanun tuberosumFenotiposDiversidad GenéticaEstructura de la PoblaciónPotatoesPhenotypesGenetic DivergencePopulation StructureBackground: Diversity in crops is fundamental for plant breeding efforts. An accurate assessment of genetic diversity, using molecular markers, such as single nucleotide polymorphism (SNP), must be able to reveal the structure of the population under study. A characterization of population structure using easy measurable phenotypic traits could be a preliminary and low-cost approach to elucidate the genetic structure of a population. A potato population of 183 genotypes was evaluated using 4859 high-quality SNPs and 19 phenotypic traits commonly recorded in potato breeding programs. A Bayesian approach, Minimum Spanning Tree (MST) and diversity estimator, as well as multivariate analysis based on phenotypic traits, were adopted to assess the population structure. Results: Analysis based on molecular markers showed groups linked to the phylogenetic relationship among the germplasm as well as the link with the breeding program that provided the material. Diversity estimators consistently structured the population according to a priori group estimation. The phenotypic traits only discriminated main groups with contrasting characteristics, as different subspecies, ploidy level or membership in a breeding program, but were not able to discriminate within groups. A joint molecular and phenotypic characterization analysis discriminated groups based on phenotypic classification, taxonomic category, provenance source of genotypes and genetic background. Conclusions: This paper shows the significant level of diversity existing in a parental population of potato as well as the putative phylogenetic relationships among the genotypes. The use of easily measurable phenotypic traits among highly contrasting genotypes could be a reasonable approach to estimate population structure in the initial phases of a potato breeding program.EEA BalcarceFil: Tagliotti, Martín. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.Fil: Deperi, Sofía. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina.Fil: Bedogni, María Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina.Fil: Zhang, R. Inner Mongolia University. Potato Engineering and Technology Research Centre; ChinaFil: Manrique Carpintero, Norma C. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados UnidosFil: Coombs, Joseph. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados UnidosFil: Douches, David. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados UnidosFil: Huarte, Marcelo Atilio. INTA, Estación Experimental Agropecuaria Balcarce; Argentina.Springer Nature2019-04-09T11:25:04Z2019-04-09T11:25:04Z2018-01-16info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfhttps://bmcgenet.biomedcentral.com/articles/10.1186/s12863-017-0556-9http://hdl.handle.net/20.500.12123/48491471-2156https://doi.org/10.1186/s12863-017-0556-9BMC Genetics 19 (1) : 8 (January 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)2025-09-29T13:44:37Zoai:localhost:20.500.12123/4849instacron: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 13:44:38.231INTA Digital (INTA) - Instituto Nacional de Tecnología Agropecuariafalse |
dc.title.none.fl_str_mv |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars |
title |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars |
spellingShingle |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars Tagliotti, Martín Papa Solanun tuberosum Fenotipos Diversidad Genética Estructura de la Población Potatoes Phenotypes Genetic Divergence Population Structure |
title_short |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars |
title_full |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars |
title_fullStr |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars |
title_full_unstemmed |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars |
title_sort |
Use of easy measurable phenotypic traits as a complementary approach to evaluate the population structure and diversity in a high heterozygous panel of tetraploid clones and cultivars |
dc.creator.none.fl_str_mv |
Tagliotti, Martín Deperi, Sofia Bedogni, Maria Cecilia Zhang, Roufang Manrique Carpintero, Norma C. Coombs, Joseph Douches, David Huarte, Marcelo Atilio |
author |
Tagliotti, Martín |
author_facet |
Tagliotti, Martín Deperi, Sofia Bedogni, Maria Cecilia Zhang, Roufang Manrique Carpintero, Norma C. Coombs, Joseph Douches, David Huarte, Marcelo Atilio |
author_role |
author |
author2 |
Deperi, Sofia Bedogni, Maria Cecilia Zhang, Roufang Manrique Carpintero, Norma C. Coombs, Joseph Douches, David Huarte, Marcelo Atilio |
author2_role |
author author author author author author author |
dc.subject.none.fl_str_mv |
Papa Solanun tuberosum Fenotipos Diversidad Genética Estructura de la Población Potatoes Phenotypes Genetic Divergence Population Structure |
topic |
Papa Solanun tuberosum Fenotipos Diversidad Genética Estructura de la Población Potatoes Phenotypes Genetic Divergence Population Structure |
dc.description.none.fl_txt_mv |
Background: Diversity in crops is fundamental for plant breeding efforts. An accurate assessment of genetic diversity, using molecular markers, such as single nucleotide polymorphism (SNP), must be able to reveal the structure of the population under study. A characterization of population structure using easy measurable phenotypic traits could be a preliminary and low-cost approach to elucidate the genetic structure of a population. A potato population of 183 genotypes was evaluated using 4859 high-quality SNPs and 19 phenotypic traits commonly recorded in potato breeding programs. A Bayesian approach, Minimum Spanning Tree (MST) and diversity estimator, as well as multivariate analysis based on phenotypic traits, were adopted to assess the population structure. Results: Analysis based on molecular markers showed groups linked to the phylogenetic relationship among the germplasm as well as the link with the breeding program that provided the material. Diversity estimators consistently structured the population according to a priori group estimation. The phenotypic traits only discriminated main groups with contrasting characteristics, as different subspecies, ploidy level or membership in a breeding program, but were not able to discriminate within groups. A joint molecular and phenotypic characterization analysis discriminated groups based on phenotypic classification, taxonomic category, provenance source of genotypes and genetic background. Conclusions: This paper shows the significant level of diversity existing in a parental population of potato as well as the putative phylogenetic relationships among the genotypes. The use of easily measurable phenotypic traits among highly contrasting genotypes could be a reasonable approach to estimate population structure in the initial phases of a potato breeding program. EEA Balcarce Fil: Tagliotti, Martín. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fil: Deperi, Sofía. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina. Fil: Bedogni, María Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Estación Experimental Agropecuaria Balcarce; Argentina. Fil: Zhang, R. Inner Mongolia University. Potato Engineering and Technology Research Centre; China Fil: Manrique Carpintero, Norma C. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados Unidos Fil: Coombs, Joseph. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados Unidos Fil: Douches, David. Michigan State University. Department of Plant, Molecular Plant Sciences Bldg; Estados Unidos Fil: Huarte, Marcelo Atilio. INTA, Estación Experimental Agropecuaria Balcarce; Argentina. |
description |
Background: Diversity in crops is fundamental for plant breeding efforts. An accurate assessment of genetic diversity, using molecular markers, such as single nucleotide polymorphism (SNP), must be able to reveal the structure of the population under study. A characterization of population structure using easy measurable phenotypic traits could be a preliminary and low-cost approach to elucidate the genetic structure of a population. A potato population of 183 genotypes was evaluated using 4859 high-quality SNPs and 19 phenotypic traits commonly recorded in potato breeding programs. A Bayesian approach, Minimum Spanning Tree (MST) and diversity estimator, as well as multivariate analysis based on phenotypic traits, were adopted to assess the population structure. Results: Analysis based on molecular markers showed groups linked to the phylogenetic relationship among the germplasm as well as the link with the breeding program that provided the material. Diversity estimators consistently structured the population according to a priori group estimation. The phenotypic traits only discriminated main groups with contrasting characteristics, as different subspecies, ploidy level or membership in a breeding program, but were not able to discriminate within groups. A joint molecular and phenotypic characterization analysis discriminated groups based on phenotypic classification, taxonomic category, provenance source of genotypes and genetic background. Conclusions: This paper shows the significant level of diversity existing in a parental population of potato as well as the putative phylogenetic relationships among the genotypes. The use of easily measurable phenotypic traits among highly contrasting genotypes could be a reasonable approach to estimate population structure in the initial phases of a potato breeding program. |
publishDate |
2018 |
dc.date.none.fl_str_mv |
2018-01-16 2019-04-09T11:25:04Z 2019-04-09T11:25:04Z |
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 |
https://bmcgenet.biomedcentral.com/articles/10.1186/s12863-017-0556-9 http://hdl.handle.net/20.500.12123/4849 1471-2156 https://doi.org/10.1186/s12863-017-0556-9 |
url |
https://bmcgenet.biomedcentral.com/articles/10.1186/s12863-017-0556-9 http://hdl.handle.net/20.500.12123/4849 https://doi.org/10.1186/s12863-017-0556-9 |
identifier_str_mv |
1471-2156 |
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 |
Springer Nature |
publisher.none.fl_str_mv |
Springer Nature |
dc.source.none.fl_str_mv |
BMC Genetics 19 (1) : 8 (January 2018) reponame:INTA Digital (INTA) instname:Instituto Nacional de Tecnología Agropecuaria |
reponame_str |
INTA Digital (INTA) |
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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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