Development of InDel Markers and Fingerprinting of Bitter Gourd (Momordica Charantia) Based on Whole Genome Re-sequencing

IF 1.7 4区农林科学 Q2 AGRONOMY

Seed Science and Technology Pub Date : 2021-08-23 DOI:10.21203/rs.3.rs-810603/v1

Liwen Su, Lian-Ju Ma, Xiaochun Huang, Wenting Wu, Hai-Hua Lv, Zhikui Cheng, J. Gou, Yong Chen, Peng Wang, Zhengguo Liu

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Abstract

Bitter gourd (Momordica charantia L.) is one of the most important vegetable crops in many Asian and African countries. Here, InDel markers developed by comparing whole genome re-sequencing data were used to analyze the genetic diversity of a bitter gourd germplasm sample from various geographical origins. To verify the reliability of the set of InDel markers identified, 220 pairs of InDel primers were designed. The primers were preliminarily detected by 8% polyacrylamide gel electrophoresis, and 25 pairs of primers with better polymorphism were screened. Using the 25 primer combinations, the 53 bitter gourd accessions were effectively distinguished and the InDel fingerprint of DNA was constructed. Concomitantly, the degree of purity of different crosses was determined based on the differences in specific bands among genotypes. The unweighted pair-group method with arithmetic means showed that the 53 bitter gourd materials may be divided into three groups, with a similarity coefficient of 0.645 as the threshold. Therefore, this study can provide many InDel markers for genotypic identification, genetic relationship analysis, and genetic map construction of bitter gourd.

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基于全基因组测序的苦瓜InDel标记及指纹图谱的建立

苦瓜（Momordica charantia L.）是亚洲和非洲许多国家最重要的蔬菜作物之一。在这里，通过比较全基因组重新测序数据开发的InDel标记被用于分析来自不同地理来源的苦瓜种质样本的遗传多样性。为了验证所鉴定的一组InDel标记的可靠性，设计了220对InDel引物。用8%聚丙烯酰胺凝胶电泳对引物进行初步检测，筛选出25对多态性较好的引物。利用25个引物组合对53份苦瓜材料进行了有效的鉴定，构建了苦瓜DNA的InDel指纹图谱。同时，根据基因型之间特定条带的差异来确定不同杂交的纯度。算术平均的未加权配对分组法表明，53种苦瓜材料可分为三组，相似系数为0.645作为阈值。因此，本研究可以为苦瓜的基因型鉴定、亲缘关系分析和遗传图谱构建提供许多InDel标记。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Seed Science and Technology 农林科学-农艺学

CiteScore

3.00

自引率

28.60%

发文量

审稿时长

>36 weeks

期刊介绍： Seed Science and Technology (SST) is an international journal featuring original papers and articles on seed quality and physiology related to seed production, harvest, processing, sampling, storage, genetic conservation, habitat regeneration, distribution and testing. A journal that meets the needs of researchers, advisers and all those involved in the improvement and technical control of seed quality. Published every April, August and December.