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On genetic diversity in caraway: Genotyping of a large germplasm collection

Caraway (Carum carvi) is a widespread and frequently used spice and medicinal plant with a long history of cultivation. However, due to ongoing climatic changes, the cultivation is becoming increasingly risky. To secure caraway cultivation in future, timely breeding efforts to develop adapted materi...

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Autores principales: von Maydell, Daniel, Lehnert, Heike, Berner, Thomas, Klocke, Evelyn, Junghanns, Wolfram, Keilwagen, Jens, Marthe, Frank
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7771672/
https://www.ncbi.nlm.nih.gov/pubmed/33373410
http://dx.doi.org/10.1371/journal.pone.0244666
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author von Maydell, Daniel
Lehnert, Heike
Berner, Thomas
Klocke, Evelyn
Junghanns, Wolfram
Keilwagen, Jens
Marthe, Frank
author_facet von Maydell, Daniel
Lehnert, Heike
Berner, Thomas
Klocke, Evelyn
Junghanns, Wolfram
Keilwagen, Jens
Marthe, Frank
author_sort von Maydell, Daniel
collection PubMed
description Caraway (Carum carvi) is a widespread and frequently used spice and medicinal plant with a long history of cultivation. However, due to ongoing climatic changes, the cultivation is becoming increasingly risky. To secure caraway cultivation in future, timely breeding efforts to develop adapted material are necessary. Analysis of genetic diversity can accompany this process, for instance, by revealing untapped gene pools. Here, we analyzed 137 accessions using genotyping by sequencing (GBS). Hence, we can report a broad overview of population structure and genetic diversity of caraway. Population structure was determined using a principal coordinate analysis, a Bayesian clustering analysis, phylogenetic trees and a neighbor network based on 13,155 SNPs. Genotypic data indicate a clear separation of accessions into two subpopulations, which correlates with the flowering type (annual vs. biennial). Four winter-annual accessions were closer related to biennial accessions. In an analysis of molecular variance, genetic variation between the two subpopulations was 7.84%. In addition, we estimated the genome size for 35 accessions by flow cytometry. An average genome size of 4.282 pg/2C (± 0.0096 S.E.) was estimated. Therefore, we suggest a significantly smaller genome size than stated in literature.
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spelling pubmed-77716722021-01-08 On genetic diversity in caraway: Genotyping of a large germplasm collection von Maydell, Daniel Lehnert, Heike Berner, Thomas Klocke, Evelyn Junghanns, Wolfram Keilwagen, Jens Marthe, Frank PLoS One Research Article Caraway (Carum carvi) is a widespread and frequently used spice and medicinal plant with a long history of cultivation. However, due to ongoing climatic changes, the cultivation is becoming increasingly risky. To secure caraway cultivation in future, timely breeding efforts to develop adapted material are necessary. Analysis of genetic diversity can accompany this process, for instance, by revealing untapped gene pools. Here, we analyzed 137 accessions using genotyping by sequencing (GBS). Hence, we can report a broad overview of population structure and genetic diversity of caraway. Population structure was determined using a principal coordinate analysis, a Bayesian clustering analysis, phylogenetic trees and a neighbor network based on 13,155 SNPs. Genotypic data indicate a clear separation of accessions into two subpopulations, which correlates with the flowering type (annual vs. biennial). Four winter-annual accessions were closer related to biennial accessions. In an analysis of molecular variance, genetic variation between the two subpopulations was 7.84%. In addition, we estimated the genome size for 35 accessions by flow cytometry. An average genome size of 4.282 pg/2C (± 0.0096 S.E.) was estimated. Therefore, we suggest a significantly smaller genome size than stated in literature. Public Library of Science 2020-12-29 /pmc/articles/PMC7771672/ /pubmed/33373410 http://dx.doi.org/10.1371/journal.pone.0244666 Text en © 2020 von Maydell et al http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
von Maydell, Daniel
Lehnert, Heike
Berner, Thomas
Klocke, Evelyn
Junghanns, Wolfram
Keilwagen, Jens
Marthe, Frank
On genetic diversity in caraway: Genotyping of a large germplasm collection
title On genetic diversity in caraway: Genotyping of a large germplasm collection
title_full On genetic diversity in caraway: Genotyping of a large germplasm collection
title_fullStr On genetic diversity in caraway: Genotyping of a large germplasm collection
title_full_unstemmed On genetic diversity in caraway: Genotyping of a large germplasm collection
title_short On genetic diversity in caraway: Genotyping of a large germplasm collection
title_sort on genetic diversity in caraway: genotyping of a large germplasm collection
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7771672/
https://www.ncbi.nlm.nih.gov/pubmed/33373410
http://dx.doi.org/10.1371/journal.pone.0244666
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