Genome-wide mining of simple sequence repeats and development of polymorphic SSR markers in Aquilaria malaccensis

IF 1 4区 生物学 Q3 PLANT SCIENCES Indian Journal of Genetics and Plant Breeding Pub Date : 2022-04-25 DOI:10.31742/ijgpb.82.2.15
S. Bordoloi, N. .. Ravi, M. Modi, R. Jayaraj
{"title":"Genome-wide mining of simple sequence repeats and development of polymorphic SSR markers in Aquilaria malaccensis","authors":"S. Bordoloi, N. .. Ravi, M. Modi, R. Jayaraj","doi":"10.31742/ijgpb.82.2.15","DOIUrl":null,"url":null,"abstract":"Aquilaria malaccensis is one of the economically important tree species distributed in North-east India which produces oleoresinous heartwood known as Agarwood - the most expensive wood in the world. There are limited genomic resources in this species. Therefore, the publicly available whole-genome sequence of Aquilaria agallocha, which is a synonym of A. malaccensis, was utilized for genome-wide mining of Simple Sequence Repeats (SSR) and to develop polymorphic SSR markers. In total 2,53,155 SSRs were identified from the draft genome. Primers were designed for di-nucleotide and tri-nucleotide repeats and screening of 90 such primers have resulted in the identification of 10 polymorphic markers. The present report is the first one for exhaustive identification of SSRs from the draft genome of the species. The SSR markers identified in the present study may be efficient in genomic analyses and useful in the genetic assessment and conservation of A. malaccensis.","PeriodicalId":13321,"journal":{"name":"Indian Journal of Genetics and Plant Breeding","volume":" ","pages":""},"PeriodicalIF":1.0000,"publicationDate":"2022-04-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Indian Journal of Genetics and Plant Breeding","FirstCategoryId":"99","ListUrlMain":"https://doi.org/10.31742/ijgpb.82.2.15","RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"PLANT SCIENCES","Score":null,"Total":0}
引用次数: 0

Abstract

Aquilaria malaccensis is one of the economically important tree species distributed in North-east India which produces oleoresinous heartwood known as Agarwood - the most expensive wood in the world. There are limited genomic resources in this species. Therefore, the publicly available whole-genome sequence of Aquilaria agallocha, which is a synonym of A. malaccensis, was utilized for genome-wide mining of Simple Sequence Repeats (SSR) and to develop polymorphic SSR markers. In total 2,53,155 SSRs were identified from the draft genome. Primers were designed for di-nucleotide and tri-nucleotide repeats and screening of 90 such primers have resulted in the identification of 10 polymorphic markers. The present report is the first one for exhaustive identification of SSRs from the draft genome of the species. The SSR markers identified in the present study may be efficient in genomic analyses and useful in the genetic assessment and conservation of A. malaccensis.
查看原文
分享 分享
微信好友 朋友圈 QQ好友 复制链接
本刊更多论文
斑蝥简单序列重复序列的全基因组挖掘及多态性SSR标记的建立
沉香是一种重要的经济树种,分布在印度东北部,生产世界上最昂贵的木材——沉香木。这个物种的基因组资源有限。因此,利用已公开的malaccensis同义植物沉香(Aquilaria agallocha)全基因组序列,进行SSR (Simple sequence Repeats)的全基因组挖掘和多态性标记开发。从草图基因组中共鉴定出253,155个ssr。设计了双核苷酸和三核苷酸重复引物,筛选了90个引物,鉴定出10个多态性标记。本报告是第一个从该物种基因组草案中详尽鉴定SSRs的报告。本研究所鉴定的SSR标记可用于马六甲的基因组分析和遗传评价与保护。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
求助全文
约1分钟内获得全文 去求助
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.
期刊最新文献
Assessment of agro-morphological traits and yield-based tolerance indices in sesame (Sesamum indicum L.) genotypes under drought stress Genetic characterization and comparative assessment of response of biparental and multi-parental populations to northern corn leaf blight in maize (Zea mays L.) Identification of efficient learning classifiers for discrimination of coding and non-coding RNAs in plant species Molecular marker assisted confirmation of hybrids in coconut (Cocos nucifera L.) Influence of G x E interaction on heterobeltiosis, combining ability and stability of multiple cross derivatives of cotton (Gossypium hirsutum L.) amenable for HDPS
×
引用
GB/T 7714-2015
复制
MLA
复制
APA
复制
导出至
BibTeX EndNote RefMan NoteFirst NoteExpress
×
×
提示
您的信息不完整,为了账户安全,请先补充。
现在去补充
×
提示
您因"违规操作"
具体请查看互助需知
我知道了
×
提示
现在去查看 取消
×
提示
确定
0
微信
客服QQ
Book学术公众号 扫码关注我们
反馈
×
意见反馈
请填写您的意见或建议
请填写您的手机或邮箱
已复制链接
已复制链接
快去分享给好友吧!
我知道了
×
扫码分享
扫码分享
Book学术官方微信
Book学术文献互助
Book学术文献互助群
群 号:481959085
Book学术
文献互助 智能选刊 最新文献 互助须知 联系我们:info@booksci.cn
Book学术提供免费学术资源搜索服务,方便国内外学者检索中英文文献。致力于提供最便捷和优质的服务体验。
Copyright © 2023 Book学术 All rights reserved.
ghs 京公网安备 11010802042870号 京ICP备2023020795号-1