Construction of a resequencing-based high-density genetic map for grape using an interspecific population (Vitis amurensis × Vitis vinifera)

Shi, Guangli; Sun, Dong; Wang, Zhenxing; Li, Xiaoying; Guo, Jun; Zhang, Susu; Zhao, Ying; Ai, Jun

doi:10.1007/s13580-021-00414-2

Cited by 3 publications

(1 citation statement)

References 35 publications

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“…but not so much on fruit trees, such as hawthorn [42], pear [18], and grapes [26,43]. Our study found the highest number of SNP markers that had shorter intermarker gaps, were of high quality, and demonstrated enhanced precision in jujube.…”

Section: Prediction Of the Putative Functions Of Candidate Genesmentioning

confidence: 61%

Construction of a High-Density Genetic Linkage Map Based on Bin Markers and Mapping of QTLs Associated with Fruit Size in Jujube (Ziziphus jujuba Mill.)

et al. 2023

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Jujube (Ziziphus jujuba Mill.) is a fruit tree that is gaining increasing importance in drought-affected regions worldwide. The fruit size is an important quantitative agronomic trait that affects not only the fruit yield and attractiveness but also consumer preference. Genetic enhancement of fruit appearance is a fundamental goal of jujube breeding programs. The genetic control of jujube fruit size traits is highly quantitative, and development of high-density genetic maps can facilitate fine mapping of quantitative trait loci (QTLs) and gene identification. However, studies regarding the construction of high-density molecular linkage maps and identification of quantitative trait loci (QTLs) targeting fruit size in jujube are limited. In this study, we performed whole-genome resequencing of the jujube cultivars “JMS2” and “Xing16” and their 165 F1 progenies to identify genome-wide single-nucleotide polymorphism (SNP) markers and constructed a high-density bin map of jujube that can be used to assist in the selection of multiple traits in jujube breeding. This analysis yielded a total of 116,312 SNPs and a genetic bin map of 2398 bin markers spanning 1074.33 cM with an average adjacent interval of 0.45 cM. A quantitative genetic analysis identified 15 QTLs related to fruit size and the observed phenotypic variation associated with a single QTL ranged from 9.5 to 13.3%. Through the screening of overlapping and stable QTL regions, we identified 113 candidate genes related to fruit size. These genes were ascertained to be involved in cell division, cell wall metabolism, synthesis of phytohormones (ABA, IAA, and auxin), and encoding of enzymes and transcription factors. These candidate genomic regions will facilitate marker-assisted breeding of fruits with different sizes and shapes and lay a foundation for future breeding and manipulation of fruit size and shape in jujube.

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Section: Prediction Of the Putative Functions Of Candidate Genesmentioning

confidence: 61%

Construction of a High-Density Genetic Linkage Map Based on Bin Markers and Mapping of QTLs Associated with Fruit Size in Jujube (Ziziphus jujuba Mill.)

et al. 2023

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Mining of differentially expressed genes from Korean wild grapes responding to grapevine leaf rust pathogen (Phakopsora euvitis) infection

Le Myint,

Ramalingam,

Ahn

et al. 2024

Hortic. Environ. Biotechnol.

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Construction of Genetic Linkage Map in Grape ‘Tano Red’ (Vitis labrusca×V. vinifera)×‘Ruby Seedless’ (V. vinifera) F₁ Population Using SNP Markers

Joung

Hur

et al. 2022

Korean J. Breed. Sci.

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Grape (Vitis vinifera L.) is a perennial fruit tree with high heterozygosity, consisting of 38 chromosomes (2n=38), and it takes a long time for grape seedlings to grow into fruit-bearing trees. Therefore, it is difficult to study grape genetics and breeding strategies. However, it has recently become possible to discover many SNPs through whole genome resequencing or genotyping-by-sequencing (GBS) analysis. In this study, we aimed to develop high-resolution melting (HRM) markers from the detected SNPs and construct a genetic linkage map using HRM markers. In a previous study, 2,553 SNPs were identified using GBS analysis. In this study, 1,336 SNPs were used to design primer sets for HRM analysis. The developed HRM markers were used for construction of a genetic linkage map in an F 1 segregating population consisting of 192 individuals from a cross between 'Tano Red' (V. labrusca × V. vinifera) and 'Ruby Seedless' (V. vinifera). A total of 805 polymorphic HRM markers were developed, of which 363 were mapped onto the genetic linkage map of grape, with a total length of 1,453.5 cM consisting of 19 chromosomes. This SNP-based genetic linkage map and HRM markers can be used for QTL identification and marker development for important fruit traits of grape.

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Construction of a resequencing-based high-density genetic map for grape using an interspecific population (Vitis amurensis × Vitis vinifera)

Cited by 3 publications

References 35 publications

Construction of a High-Density Genetic Linkage Map Based on Bin Markers and Mapping of QTLs Associated with Fruit Size in Jujube (Ziziphus jujuba Mill.)

Construction of a High-Density Genetic Linkage Map Based on Bin Markers and Mapping of QTLs Associated with Fruit Size in Jujube (Ziziphus jujuba Mill.)

Mining of differentially expressed genes from Korean wild grapes responding to grapevine leaf rust pathogen (Phakopsora euvitis) infection

Construction of Genetic Linkage Map in Grape ‘Tano Red’ (Vitis labrusca×V. vinifera)×‘Ruby Seedless’ (V. vinifera) F₁ Population Using SNP Markers

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Construction of a resequencing-based high-density genetic map for grape using an interspecific population (Vitis amurensis × Vitis vinifera)

Cited by 3 publications

References 35 publications

Construction of a High-Density Genetic Linkage Map Based on Bin Markers and Mapping of QTLs Associated with Fruit Size in Jujube (Ziziphus jujuba Mill.)

Construction of a High-Density Genetic Linkage Map Based on Bin Markers and Mapping of QTLs Associated with Fruit Size in Jujube (Ziziphus jujuba Mill.)

Mining of differentially expressed genes from Korean wild grapes responding to grapevine leaf rust pathogen (Phakopsora euvitis) infection

Construction of Genetic Linkage Map in Grape ‘Tano Red’ (Vitis labrusca×V. vinifera)×‘Ruby Seedless’ (V. vinifera) F1 Population Using SNP Markers

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Construction of Genetic Linkage Map in Grape ‘Tano Red’ (Vitis labrusca×V. vinifera)×‘Ruby Seedless’ (V. vinifera) F₁ Population Using SNP Markers