Comprehensive genome-wide identification and transferability of chromosome-specific highly variable microsatellite markers from citrus species

Author:

Singh Jagveer,Sharma Ankush,Sharma Vishal,Gaikwad Popat Nanaso,Sidhu Gurupkar Singh,Kaur Gurwinder,Kaur Nimarpreet,Jindal Taveena,Chhuneja Parveen,Rattanpal H. S.

Abstract

AbstractCitrus species among the most important and widely consumed fruit in the world due to Vitamin C, essential oil glands, and flavonoids. Highly variable simple sequence repeats (SSR) markers are one of the most informative and versatile molecular markers used in perennial tree genetic research. SSR survey of Citrus sinensis and Citrus maxima were identified perfect SSRs spanning nine chromosomes. Furthermore, we categorized all SSR motifs into three major classes based on their tract lengths. We designed and validated a class I SSRs in the C. sinensis and C. maxima genome through electronic polymerase chain reaction (ePCR) and found 83.89% in C. sinensis and 78.52% in C. maxima SSRs producing a single amplicon. Then, we selected extremely variable SSRs (> 40 nt) from the ePCR-verified class I SSRs and in silico validated across seven draft genomes of citrus, which provided us a subset of 84.74% in C. sinensis and 77.53% in C. maxima highly polymorphic SSRs. Out of these, 129 primers were validated on 24 citrus genotypes through wet-lab experiment. We found 127 (98.45%) polymorphic HvSSRs on 24 genotypes. The utility of the developed HvSSRs was demonstrated by analysing genetic diversity of 181 citrus genotypes using 17 HvSSRs spanning nine citrus chromosomes and were divided into 11 main groups through 17 HvSSRs. These chromosome-specific SSRs will serve as a powerful genomic tool used for future QTL mapping, molecular breeding, investigation of population genetic diversity, comparative mapping, and evolutionary studies among citrus and other relative genera/species.

Publisher

Springer Science and Business Media LLC

Subject

Multidisciplinary

Reference93 articles.

1. Tanaka, T. Citologia: Semi-Centennial Commemoration Papers on Citrus studies, Citologia Supporting Foundation, Osaka, 114 (1961).

2. Swingle, W. T. & Reece, P. C. The botany of citrus and its wild relatives (Ed. Reuther, W., Webber, H. J. & Batchelor, L. D.) The citrus industry. Berkeley. 190–430 (1967).

3. Mabberley, D. J. Citrus (Rutaceae): a review of recent advances in etymology, systematics and medical applications. Blumea 49, 481–498 (2004).

4. Zhang, Z. & Mabberley, D. J. CITRUS Linnaeus. Fl. China 11, 90–96 (2008).

5. FAOSTAT. Faostat statistical database. Food and Agriculture Organization of the United Nations. Preprint at http://www.fao.org/faostat/en/#home (2020).

Cited by 2 articles. 订阅此论文施引文献 订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献

同舟云学术

1.学者识别学者识别

2.学术分析学术分析

3.人才评估人才评估

"同舟云学术"是以全球学者为主线,采集、加工和组织学术论文而形成的新型学术文献查询和分析系统,可以对全球学者进行文献检索和人才价值评估。用户可以通过关注某些学科领域的顶尖人物而持续追踪该领域的学科进展和研究前沿。经过近期的数据扩容,当前同舟云学术共收录了国内外主流学术期刊6万余种,收集的期刊论文及会议论文总量共计约1.5亿篇,并以每天添加12000余篇中外论文的速度递增。我们也可以为用户提供个性化、定制化的学者数据。欢迎来电咨询!咨询电话:010-8811{复制后删除}0370

www.globalauthorid.com

TOP

Copyright © 2019-2024 北京同舟云网络信息技术有限公司
京公网安备11010802033243号  京ICP备18003416号-3