芒果多样性分析的新的超变量SSR

IF 1 4区 生物学 Q3 PLANT SCIENCES Indian Journal of Genetics and Plant Breeding Pub Date : 2021-03-25 DOI:10.31742/ijgpb.81.1.13
M. Srivastav, S. Singh, J. Prakash, Rakesh Singh, N. Sharma, Sridhar Ramchandra, Rajni Devi, Ankit Gupta, A. K. Mahto, P. Jayaswal, Sangeeta Singh, N. Singh
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引用次数: 3

摘要

芒果的全基因组序列通过获得全基因组遗传标记,为基因组学辅助作物改良提供了前所未有的机会。在本研究中,从芒果的基因组序列中预测了简单序列重复序列。根据SSR长度(?50bp)对芒果的高度可变SSR进行了分类。在一组24种不同芒果基因型上验证了129个MSSR的子集,其标记验证率和多态性分别为88.96%和85.27%。本组芒果基因型共鉴定出110个多态性标记。多态信息含量(PIC)在0.10到0.78之间,MSSR133的值最高。平均PIC值为0.40,但33个MSSR标记显示PIC值?0.5,表明这些标记可以有效地测量芒果的遗传多样性,并可用于芒果数量性状位点(QTL)的定位。MSSRs数据进一步用于不同农业生态条件下芒果基因型的多样性分析,包括机会苗、地方品种、外来和本土种质以及杂交种。使用UPGMA对24种芒果基因型进行聚类分析,结果表明,这些MSSR在多样性分析中具有信息性,并根据其来源、亲本和胚胎类型来区分芒果基因型。一组新的110个超可变SSR标记已添加到芒果库中,描述了其在识别密切相关的芒果种质及其在芒果改良计划中的应用方面的有用性。
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New hyper-variable SSRs for diversity analysis in mango (Mangifera indica L.)
Whole genome sequence in mango offers unprecedented opportunities for genomics assisted crop improvement via enabling access to genome-wide genetic markers. In the present study, simple sequence repeats (SSRs) were predicted from genome sequence of mango. Based on the SSR length (? 50 bp), highly-variable mango SSRs (MSSRs) were sorted. A sub-set of 129 MSSRs was validated on a set of 24 diverse mango genotypes yielding marker validation and polymorphism of 88.96 and 85.27 per cent, respectively. One hundred and ten polymorphic markers were identified for the present set of mango genotypes. Polymorphic information content (PIC) ranged from 0.10 to 0.78 and the highest value was observed with MSSR133. The mean PIC value was 0.40 but 33 MSSR markers showed PIC values ? 0.5, suggesting that these markers can efficiently measure genetic diversity and serve for mapping of quantitative trait loci (QTLs) in mango. MSSRs data was further used for diversity analysis of mango genotypes belonging to different agro-ecological conditions including chance seedlings, landraces, exotic and indigenous germplasm and hybrids. Cluster analysis using UPGMA of 24 mango genotypes revealed that these MSSRs were informative in diversity analysis and distinguished mango genotypes based on their origin, parentage and embryo types. A novel set of 110 hyper-variable SSR markers have been added to the mango repository depicting usefulness in discriminating closely related mango germplasm and their use in mango improvement programme.
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来源期刊
CiteScore
1.80
自引率
10.00%
发文量
0
审稿时长
6-12 weeks
期刊介绍: Advance the cause of genetics and plant breeding and to encourage and promote study and research in these disciplines in the service of agriculture; to disseminate the knowledge of genetics and plant breeding; provide facilities for association and conference among students of genetics and plant breeding and for encouragement of close relationship between them and those in the related sciences; advocate policies in the interest of the nation in the field of genetics and plant breeding, and facilitate international cooperation in the field of genetics and plant breeding.
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