Identification of Sex Determination Locus and Development of Marker Combination in <i>Vitis</i> Based on Genotyping by Target Sequencing

Q4 Agricultural and Biological Sciences Fruit Growing Research Pub Date : 2023-01-01 DOI:10.48130/frures-2023-0031

Bohan Yang, Wei Wu, Junli Lv, Jiangyu Li, Yanfen Xu, Ling Yin, Jiang Lu, Peining Fu

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Abstract

The grapevine is an important and economically valuable fruit crop, with flower sex being a key genetic trait that directly affects grapevine yield and quality. Despite its significance, there is a lack of studies on sex-linked molecular markers that can assist in grapevine breeding. In this study, we developed a grapevine single nucleotide polymorphism (SNP) marker array using a combination of genotyping by target sequencing (GBTS) and capture-in-solution technology, and applied it to marker-assisted selection (MAS) of grapevine gender. The SNP array could detect a total of 20,597 core SNPs and 97,453 multiple SNPs (mSNPs), covering over 99% of the grapevine genome on each chromosome. A total of 131 progenies from a cross between Vitis vinifera 'Cabernet Sauvignon' and Vitis pseudoreticulata 'Huadong1058' that exhibited segregated sex phenotypes were sequenced using this array. Through locus mapping and a genome-wide association study (GWAS), a locus on chromosome 2 (54.74-58.80 cM) that explained 98.6% of the phenotypic variation was identified. To the further utilize this locus, a sex prediction marker combination consisting of two SNPs was developed, which accurately predicted the sex of 34 natural grapevine varieties/accessions. This study demonstrates the application of GBTS in grapevine breeding and provides a reliable MAS marker set for early-stage sex selectio

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植物性别决定位点的鉴定及标记组合的开发基于靶测序的基因分型

葡萄是一种重要的经济水果作物，花性是直接影响葡萄产量和品质的关键遗传性状。尽管它具有重要意义，但缺乏能够帮助葡萄藤育种的性别连锁分子标记的研究。本研究利用目标测序基因分型(GBTS)和溶液捕获技术(capture-in-solution)相结合的方法，构建了葡萄单核苷酸多态性(SNP)标记阵列，并将其应用于葡萄性别的标记辅助选择(MAS)。该SNP阵列共检测到20,597个核心SNP和97,453个多SNP (msnp)，覆盖了每条染色体上99%以上的葡萄藤基因组。利用该阵列对葡萄品种赤霞珠(Cabernet Sauvignon)与假网状葡萄品种花冬1058 (Huadong1058)杂交的131个表现出分离性表型的后代进行了测序。通过基因座定位和全基因组关联研究(GWAS)，鉴定出2号染色体上的一个基因座(54.74-58.80 cM)，该基因座解释了98.6%的表型变异。为了进一步利用这一位点，开发了一个由两个snp组成的性别预测标记组合，该组合可准确预测34个天然葡萄品种/材料的性别。本研究展示了GBTS在葡萄育种中的应用，为葡萄早期性别选择提供了可靠的MAS标记集

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来源期刊

Fruit Growing Research Agricultural and Biological Sciences-Agronomy and Crop Science

CiteScore

0.10

自引率

0.00%

发文量

审稿时长

8 weeks

期刊介绍： FRUIT GROWING RESEARCH is an international journal, which has been issued under the care of the Research Institute for Fruit Growing Pitesti, Romania. Fruit growing research is an annual journal aimed at disseminating significant research and original papers on genetic resources, breeding of deciduous fruit trees species; fruit sustainable technologies – environment protection; propagation, virology and tissue culture, postharvest, that can be of interest to a wide audience of plant scientists in all areas of fruit growing. An international Editorial Board advises the journal.