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A reference high-density genetic map of greater yam (Dioscorea alata L.)
KEY MESSAGE: This study generated the first high-density genetic map for D. alata based on genotyping-by-sequencing and provides new insight on sex determination in yam. ABSTRACT: Greater yam (Dioscorea alata L.) is a major staple food in tropical and subtropical areas. This study aimed to produce t...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer Berlin Heidelberg
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6531416/ https://www.ncbi.nlm.nih.gov/pubmed/30783744 http://dx.doi.org/10.1007/s00122-019-03311-6 |
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author | Cormier, Fabien Lawac, Floriane Maledon, Erick Gravillon, Marie-Claire Nudol, Elie Mournet, Pierre Vignes, Hélène Chaïr, Hâna Arnau, Gemma |
author_facet | Cormier, Fabien Lawac, Floriane Maledon, Erick Gravillon, Marie-Claire Nudol, Elie Mournet, Pierre Vignes, Hélène Chaïr, Hâna Arnau, Gemma |
author_sort | Cormier, Fabien |
collection | PubMed |
description | KEY MESSAGE: This study generated the first high-density genetic map for D. alata based on genotyping-by-sequencing and provides new insight on sex determination in yam. ABSTRACT: Greater yam (Dioscorea alata L.) is a major staple food in tropical and subtropical areas. This study aimed to produce the first reference genetic map of this dioecious species using genotyping-by-sequencing. In this high-density map combining information of two F1 outcrossed populations, 20 linkage groups were resolved as expected and 1579 polymorphic markers were ordered. The consensus map length was 2613.5 cM with an average SNP interval of 1.68 cM. An XX/XY sex determination system was identified on LG6 via the study of sex ratio, homology of parental linkage groups and the identification of a major QTL for sex determination. Homology with the sequenced D. rotundata is described, and the median physical distance between SNPs was estimated at 139.1 kb. The effects of segregation distortion and the presence of heteromorphic sex chromosomes are discussed. This D. alata linkage map associated with the available genomic resources will facilitate quantitative trait mapping, marker-assisted selection and evolutionary studies in the important yet scarcely studied yam species. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1007/s00122-019-03311-6) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-6531416 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Springer Berlin Heidelberg |
record_format | MEDLINE/PubMed |
spelling | pubmed-65314162019-06-07 A reference high-density genetic map of greater yam (Dioscorea alata L.) Cormier, Fabien Lawac, Floriane Maledon, Erick Gravillon, Marie-Claire Nudol, Elie Mournet, Pierre Vignes, Hélène Chaïr, Hâna Arnau, Gemma Theor Appl Genet Original Article KEY MESSAGE: This study generated the first high-density genetic map for D. alata based on genotyping-by-sequencing and provides new insight on sex determination in yam. ABSTRACT: Greater yam (Dioscorea alata L.) is a major staple food in tropical and subtropical areas. This study aimed to produce the first reference genetic map of this dioecious species using genotyping-by-sequencing. In this high-density map combining information of two F1 outcrossed populations, 20 linkage groups were resolved as expected and 1579 polymorphic markers were ordered. The consensus map length was 2613.5 cM with an average SNP interval of 1.68 cM. An XX/XY sex determination system was identified on LG6 via the study of sex ratio, homology of parental linkage groups and the identification of a major QTL for sex determination. Homology with the sequenced D. rotundata is described, and the median physical distance between SNPs was estimated at 139.1 kb. The effects of segregation distortion and the presence of heteromorphic sex chromosomes are discussed. This D. alata linkage map associated with the available genomic resources will facilitate quantitative trait mapping, marker-assisted selection and evolutionary studies in the important yet scarcely studied yam species. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1007/s00122-019-03311-6) contains supplementary material, which is available to authorized users. Springer Berlin Heidelberg 2019-02-20 2019 /pmc/articles/PMC6531416/ /pubmed/30783744 http://dx.doi.org/10.1007/s00122-019-03311-6 Text en © The Author(s) 2019 OpenAccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. |
spellingShingle | Original Article Cormier, Fabien Lawac, Floriane Maledon, Erick Gravillon, Marie-Claire Nudol, Elie Mournet, Pierre Vignes, Hélène Chaïr, Hâna Arnau, Gemma A reference high-density genetic map of greater yam (Dioscorea alata L.) |
title | A reference high-density genetic map of greater yam (Dioscorea alata L.) |
title_full | A reference high-density genetic map of greater yam (Dioscorea alata L.) |
title_fullStr | A reference high-density genetic map of greater yam (Dioscorea alata L.) |
title_full_unstemmed | A reference high-density genetic map of greater yam (Dioscorea alata L.) |
title_short | A reference high-density genetic map of greater yam (Dioscorea alata L.) |
title_sort | reference high-density genetic map of greater yam (dioscorea alata l.) |
topic | Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6531416/ https://www.ncbi.nlm.nih.gov/pubmed/30783744 http://dx.doi.org/10.1007/s00122-019-03311-6 |
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