Evaluation of Genetic Diversity and Phylogenetic Relationship among the Major Banana Varieties of North-Eastern India Using ISSR, IRAP, and SCoT markers

IF 16.4 1区 化学 Q1 CHEMISTRY, MULTIDISCIPLINARY
Saraswathi Marimuthu Somasundaram, Sharmila Gayatri Durairajan, Salini Arumugam Palanivelu, Soundaryan Rajendran, Durai Palani, Chandrasekar Arumugam, Mahendran Jayakumar, Uma Subbaraya
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Abstract

India is one of the secondary centers of origin for both wild and domesticated bananas, with the north-eastern region holding the greatest repository. Therefore, the present study used three different molecular marker systems viz., inter simple sequence repeats (ISSR), inter-retrotransposon amplified polymorphism (IRAP), and start codon targeted (SCoT) polymorphism to analyze the genetic diversity among 17 cultivated varieties of the north-eastern region belonging to different genomic groups. The percent polymorphism was found to be 91.79, 86.78, and 82.35 in ISSR, IRAP, and SCoT markers respectively. ISSR had the highest values for all the marker parameters. However, IRAP outperformed SCoT and ISSRs by recording the highest values for effective number of alleles (Ne), Shannon index (I), and Nei’s (1973) gene diversity (H). The dendrogram obtained using ISSR, SCoT, and combined data had two major clusters and the clustering pattern was almost similar, but it differed slightly in IRAP markers. To learn more about the population structure and allelic diversity, model-based structural analysis was carried out in addition to phylogenetic analysis and principal component analysis (PCA). The structure analysis identified three subpopulations in ISSR, four in IRAP, and five in SCoT and combined marker data. The Q-value indicates that almost all the subpopulations are composed of varieties with and without admixture, thereby suggesting that more alleles are being shared among the varieties used in this study.

Abstract Image

利用ISSR、IRAP和SCoT标记评价印度东北部主要香蕉品种的遗传多样性和系统发育关系
印度是野生和驯化香蕉的次要原产地中心之一,东北部地区拥有最大的储存库。因此,本研究采用简单重复序列间多态性(ISSR)、反转录转座子间扩增多态性(IRAP)和起始密码子靶向多态性(SCoT) 3种不同的分子标记系统,对东北地区17个栽培品种的遗传多样性进行了分析。ISSR、IRAP和SCoT标记的多态性百分比分别为91.79、86.78和82.35。所有标记参数的ISSR均最高。然而,IRAP在有效等位基因数(Ne)、Shannon指数(I)和Nei’s(1973)基因多样性(H)方面均优于SCoT和ISSRs。利用ISSR、SCoT和组合数据获得的树形图有两个主要聚类,聚类模式几乎相似,但IRAP标记的聚类模式略有不同。为了进一步了解种群结构和等位基因多样性,在系统发育分析和主成分分析(PCA)的基础上,进行了基于模型的结构分析。结构分析在ISSR中鉴定出3个亚群,在IRAP中鉴定出4个亚群,在SCoT和联合标记数据中鉴定出5个亚群。q值表明,几乎所有的亚居群都由有或没有杂合的品种组成,这表明本研究中使用的品种之间有更多的等位基因共享。
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来源期刊
Accounts of Chemical Research
Accounts of Chemical Research 化学-化学综合
CiteScore
31.40
自引率
1.10%
发文量
312
审稿时长
2 months
期刊介绍: Accounts of Chemical Research presents short, concise and critical articles offering easy-to-read overviews of basic research and applications in all areas of chemistry and biochemistry. These short reviews focus on research from the author’s own laboratory and are designed to teach the reader about a research project. In addition, Accounts of Chemical Research publishes commentaries that give an informed opinion on a current research problem. Special Issues online are devoted to a single topic of unusual activity and significance. Accounts of Chemical Research replaces the traditional article abstract with an article "Conspectus." These entries synopsize the research affording the reader a closer look at the content and significance of an article. Through this provision of a more detailed description of the article contents, the Conspectus enhances the article's discoverability by search engines and the exposure for the research.
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