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Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries
BACKGROUND: QTLs controlling individual sugars and acids (fructose, glucose, malic acid and tartaric acid) in grape berries have not yet been identified. The present study aimed to construct a high-density, high-quality genetic map of a winemaking grape cross with a complex parentage (V. vinifera ×...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4329212/ https://www.ncbi.nlm.nih.gov/pubmed/25644551 http://dx.doi.org/10.1186/s12870-015-0428-2 |
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author | Chen, Jie Wang, Nian Fang, Lin-Chuan Liang, Zhen-Chang Li, Shao-Hua Wu, Ben-Hong |
author_facet | Chen, Jie Wang, Nian Fang, Lin-Chuan Liang, Zhen-Chang Li, Shao-Hua Wu, Ben-Hong |
author_sort | Chen, Jie |
collection | PubMed |
description | BACKGROUND: QTLs controlling individual sugars and acids (fructose, glucose, malic acid and tartaric acid) in grape berries have not yet been identified. The present study aimed to construct a high-density, high-quality genetic map of a winemaking grape cross with a complex parentage (V. vinifera × V. amurensis) × ((V. labrusca × V. riparia) × V. vinifera), using next-generation restriction site-associated DNA sequencing, and then to identify loci related to phenotypic variability over three years. RESULTS: In total, 1 826 SNP-based markers were developed. Of these, 621 markers were assembled into 19 linkage groups (LGs) for the maternal map, 696 for the paternal map, and 1 254 for the integrated map. Markers showed good linear agreement on most chromosomes between our genetic maps and the previously published V. vinifera reference sequence. However marker order was different in some chromosome regions, indicating both conservation and variation within the genome. Despite the identification of a range of QTLs controlling the traits of interest, these QTLs explained a relatively small percentage of the observed phenotypic variance. Although they exhibited a large degree of instability from year to year, QTLs were identified for all traits but tartaric acid and titratable acidity in the three years of the study; however only the QTLs for malic acid and β ratio (tartaric acid-to-malic acid ratio) were stable in two years. QTLs related to sugars were located within ten LGs (01, 02, 03, 04, 07, 09, 11, 14, 17, 18), and those related to acids within three LGs (06, 13, 18). Overlapping QTLs in LG14 were observed for fructose, glucose and total sugar. Malic acid, total acid and β ratio each had several QTLs in LG18, and malic acid also had a QTL in LG06. A set of 10 genes underlying these QTLs may be involved in determining the malic acid content of berries. CONCLUSION: The genetic map constructed in this study is potentially a high-density, high-quality map, which could be used for QTL detection, genome comparison, and sequence assembly. It may also serve to broaden our understanding of the grape genome. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12870-015-0428-2) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-4329212 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-43292122015-02-16 Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries Chen, Jie Wang, Nian Fang, Lin-Chuan Liang, Zhen-Chang Li, Shao-Hua Wu, Ben-Hong BMC Plant Biol Research Article BACKGROUND: QTLs controlling individual sugars and acids (fructose, glucose, malic acid and tartaric acid) in grape berries have not yet been identified. The present study aimed to construct a high-density, high-quality genetic map of a winemaking grape cross with a complex parentage (V. vinifera × V. amurensis) × ((V. labrusca × V. riparia) × V. vinifera), using next-generation restriction site-associated DNA sequencing, and then to identify loci related to phenotypic variability over three years. RESULTS: In total, 1 826 SNP-based markers were developed. Of these, 621 markers were assembled into 19 linkage groups (LGs) for the maternal map, 696 for the paternal map, and 1 254 for the integrated map. Markers showed good linear agreement on most chromosomes between our genetic maps and the previously published V. vinifera reference sequence. However marker order was different in some chromosome regions, indicating both conservation and variation within the genome. Despite the identification of a range of QTLs controlling the traits of interest, these QTLs explained a relatively small percentage of the observed phenotypic variance. Although they exhibited a large degree of instability from year to year, QTLs were identified for all traits but tartaric acid and titratable acidity in the three years of the study; however only the QTLs for malic acid and β ratio (tartaric acid-to-malic acid ratio) were stable in two years. QTLs related to sugars were located within ten LGs (01, 02, 03, 04, 07, 09, 11, 14, 17, 18), and those related to acids within three LGs (06, 13, 18). Overlapping QTLs in LG14 were observed for fructose, glucose and total sugar. Malic acid, total acid and β ratio each had several QTLs in LG18, and malic acid also had a QTL in LG06. A set of 10 genes underlying these QTLs may be involved in determining the malic acid content of berries. CONCLUSION: The genetic map constructed in this study is potentially a high-density, high-quality map, which could be used for QTL detection, genome comparison, and sequence assembly. It may also serve to broaden our understanding of the grape genome. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s12870-015-0428-2) contains supplementary material, which is available to authorized users. BioMed Central 2015-02-03 /pmc/articles/PMC4329212/ /pubmed/25644551 http://dx.doi.org/10.1186/s12870-015-0428-2 Text en © Chen et al.; licensee BioMed Central. 2015 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 work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Article Chen, Jie Wang, Nian Fang, Lin-Chuan Liang, Zhen-Chang Li, Shao-Hua Wu, Ben-Hong Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries |
title | Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries |
title_full | Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries |
title_fullStr | Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries |
title_full_unstemmed | Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries |
title_short | Construction of a high-density genetic map and QTLs mapping for sugars and acids in grape berries |
title_sort | construction of a high-density genetic map and qtls mapping for sugars and acids in grape berries |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4329212/ https://www.ncbi.nlm.nih.gov/pubmed/25644551 http://dx.doi.org/10.1186/s12870-015-0428-2 |
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