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Diversity and population structure of Nordic potato cultivars and breeding clones

BACKGROUND: The genetic diversity and population structure of breeding germplasm is central knowledge for crop improvement. To gain insight into the genetic potential of the germplasm used for potato breeding in a Nordic breeding program as well as all available accessions from the Nordic genebank (...

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Autores principales: Selga, Catja, Chrominski, Pawel, Carlson-Nilsson, Ulrika, Andersson, Mariette, Chawade, Aakash, Ortiz, Rodomiro
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9290215/
https://www.ncbi.nlm.nih.gov/pubmed/35850617
http://dx.doi.org/10.1186/s12870-022-03726-2
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author Selga, Catja
Chrominski, Pawel
Carlson-Nilsson, Ulrika
Andersson, Mariette
Chawade, Aakash
Ortiz, Rodomiro
author_facet Selga, Catja
Chrominski, Pawel
Carlson-Nilsson, Ulrika
Andersson, Mariette
Chawade, Aakash
Ortiz, Rodomiro
author_sort Selga, Catja
collection PubMed
description BACKGROUND: The genetic diversity and population structure of breeding germplasm is central knowledge for crop improvement. To gain insight into the genetic potential of the germplasm used for potato breeding in a Nordic breeding program as well as all available accessions from the Nordic genebank (NordGen), 133 potato genotypes were genotyped using the Infinium Illumina 20 K SNP array. After SNP filtering, 11 610 polymorphic SNPs were included in the analysis. In addition, data from three important breeding traits – percent dry matter and uniformity of tuber shape and eye – were scored to measure the variation potato cultivars and breeding clones. RESULTS: The genetic diversity among the genotypes was estimated using principal coordinate analysis based on the genetic distance between individuals, as well as by using the software STRUCTURE. Both methods suggest that the collected breeding material and the germplasm from the gene-bank are closely related, with a low degree of population structure between the groups. The phenotypic distribution among the genotypes revealed significant differences, especially between farmer’s cultivars and released cultivars and breeding clones. The percent heterozygosity was similar between the groups, with a mean average of 58–60%. Overall, the breeding germplasm and the accessions from the Nordic genebank seems to be closely related with similar genetic background. CONCLUSION: The genetic potential of available Nordic potato breeding germplasm is low, and for genetic hybridization purposes, genotypes from outside the Nordic region should be employed. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-022-03726-2.
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spelling pubmed-92902152022-07-19 Diversity and population structure of Nordic potato cultivars and breeding clones Selga, Catja Chrominski, Pawel Carlson-Nilsson, Ulrika Andersson, Mariette Chawade, Aakash Ortiz, Rodomiro BMC Plant Biol Research Article BACKGROUND: The genetic diversity and population structure of breeding germplasm is central knowledge for crop improvement. To gain insight into the genetic potential of the germplasm used for potato breeding in a Nordic breeding program as well as all available accessions from the Nordic genebank (NordGen), 133 potato genotypes were genotyped using the Infinium Illumina 20 K SNP array. After SNP filtering, 11 610 polymorphic SNPs were included in the analysis. In addition, data from three important breeding traits – percent dry matter and uniformity of tuber shape and eye – were scored to measure the variation potato cultivars and breeding clones. RESULTS: The genetic diversity among the genotypes was estimated using principal coordinate analysis based on the genetic distance between individuals, as well as by using the software STRUCTURE. Both methods suggest that the collected breeding material and the germplasm from the gene-bank are closely related, with a low degree of population structure between the groups. The phenotypic distribution among the genotypes revealed significant differences, especially between farmer’s cultivars and released cultivars and breeding clones. The percent heterozygosity was similar between the groups, with a mean average of 58–60%. Overall, the breeding germplasm and the accessions from the Nordic genebank seems to be closely related with similar genetic background. CONCLUSION: The genetic potential of available Nordic potato breeding germplasm is low, and for genetic hybridization purposes, genotypes from outside the Nordic region should be employed. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12870-022-03726-2. BioMed Central 2022-07-18 /pmc/articles/PMC9290215/ /pubmed/35850617 http://dx.doi.org/10.1186/s12870-022-03726-2 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research Article
Selga, Catja
Chrominski, Pawel
Carlson-Nilsson, Ulrika
Andersson, Mariette
Chawade, Aakash
Ortiz, Rodomiro
Diversity and population structure of Nordic potato cultivars and breeding clones
title Diversity and population structure of Nordic potato cultivars and breeding clones
title_full Diversity and population structure of Nordic potato cultivars and breeding clones
title_fullStr Diversity and population structure of Nordic potato cultivars and breeding clones
title_full_unstemmed Diversity and population structure of Nordic potato cultivars and breeding clones
title_short Diversity and population structure of Nordic potato cultivars and breeding clones
title_sort diversity and population structure of nordic potato cultivars and breeding clones
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9290215/
https://www.ncbi.nlm.nih.gov/pubmed/35850617
http://dx.doi.org/10.1186/s12870-022-03726-2
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