Progress on the Application of Mitochondrial SSR Molecular Markers in Plants

doi:10.19586/j.2095-2341.2023.0074

Current Biotechnology ›› 2023, Vol. 13 ›› Issue (6): 821-826.DOI: 10.19586/j.2095-2341.2023.0074

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Progress on the Application of Mitochondrial SSR Molecular Markers in Plants

Lanlan ZHANG¹(), Caihua LI¹, Yuzhu FANG¹, Yan SONG¹, Wanlin KANG¹, Zhiyu LI¹, Xiao ZHANG¹(), Rui ZHANG²()

^1.School of Life Science and Technology，Changchun University of Science and Technology，Changchun 130022，China
^2.Biotechnology Research Institute，Chinese Academy of Agricultural Sciences，Beijing 100081，China

Received:2023-05-29 Accepted:2023-10-16 Online:2023-11-25 Published:2023-12-12
Contact: Xiao ZHANG,Rui ZHANG

线粒体SSR分子标记在植物中的应用进展

张兰兰¹(), 李才华¹, 方雨竹¹, 宋岩¹, 康婉琳¹, 李志宇¹, 张晓¹(), 张锐²()

^1.长春理工大学生命科学技术学院，长春 130022
^2.中国农业科学院生物技术研究所，北京 100081

通讯作者: 张晓,张锐
作者简介:张兰兰 E-mail: 2978701985@qq.com
基金资助:
国家自然科学基金项目(31200944)

Abstract

Abstract:

Mitochondrial simple sequence repeat （mtSSR） is a new molecular marker technology developed in recent years. It not only has the advantages of high polymorphism， wide distribution and codominance of SSR markers， but also has the advantages of maternal inheritance and rapid structural evolution of plant mitochondrial genome. It has important applications in population genetic structure， gene flow evolution， species evolution， cytoplasmic genetic characteristics， population classification and other aspects. Based on existing research results both domestically and internationally，the article reviewed the research progress of mtSSR molecular markers on plant population classification and cytoplasm identification， and summarized the plant mtSSR databases，which aimed to provid reference for using mtSSR technology in plant research.

Key words: plant, mitochondrial SSR, molecular marker

摘要：

线粒体简单重复序列(mitochondrion simple sequence repeat，mtSSR)是近年发展起来的一种新型的分子标记技术，兼具SSR标记多态性高、分布广泛、共显性和植物线粒体基因组母系遗传、结构进化速率快等优点，在群体遗传结构、基因流动进化、物种演化、胞质遗传特性、种群分类等方面具有重要应用。根据国内外已有的研究成果，综述了mtSSR植物群落分析、胞质类型鉴定等方面的研究进展，并对植物mtSSR数据库进行了总结，以期为利用mtSSR技术进行植物研究提供参考。

关键词: 植物, 线粒体SSR, 分子标记

CLC Number:

Q943

Lanlan ZHANG, Caihua LI, Yuzhu FANG, Yan SONG, Wanlin KANG, Zhiyu LI, Xiao ZHANG, Rui ZHANG. Progress on the Application of Mitochondrial SSR Molecular Markers in Plants[J]. Current Biotechnology, 2023, 13(6): 821-826.

张兰兰, 李才华, 方雨竹, 宋岩, 康婉琳, 李志宇, 张晓, 张锐. 线粒体SSR分子标记在植物中的应用进展[J]. 生物技术进展, 2023, 13(6): 821-826.

Figures/Tables 1

References 40

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名称	内容	特征
ChloroMitoSSRDB	检测细胞器基因组中完美型和不完美型SSR数据库	提供1 982个mtSSR
ChloroMitoSSRDB 2.00	提供4 454个细胞器基因组的访问，显示28 851个线粒体完美SSR和197 009个线粒体不完美SSR，35 250个MISA发现的完美SSR和3 211个MISA复合SSR以及相关信息，如重复序列的位置（编码和非编码）、重复大小和重复频率，基序和多态性长度，以及引物对	继ChloroMitoSSRDB 1.00升级版，提供4 454个细胞器基因组数据、完美型/不完美型SSR数据等
MitoSatPlant	包含从92个绿色植物线粒体基因组中提取的完美、不完美和复合SSR的信息	提供绿色植物mtSSR中完美型/不完美型数据信息
MSDB	提供37 680个基因组中超过40亿个微卫星的集合	用于简化、交互式分析和可视化，是迄今为止访问和分析多物种微卫星数据最全面、最具注释性和最新的数据库
pSATdb	包含28 710个mtSSR，跨越1 576个属的5 976个mtDNA序列	对后生动物和绿色植物中1 576个属的5 976个mtDNA序列进行了鉴定
VfODB	蚕豆基因组数据库，检索到3 461个标记，代表12种类型（CAPS、EST、EST-SSR、基因标记、INDEL、同工酶、ISSR、RAPD、SCAR、RGA、SNP和SSR）	综合了种质信息、表达序列标签、表达序列标签简单序列重复和线粒体简单序列重复、microRNA目标标记和蚕豆遗传图谱的综合数据库
MISA	是一种在核苷酸序列中查找微卫星的工具，除了检测完整的微卫星外，MISA还能够找到由多个简单序列基序组成的完美复合微卫星
SSRome	探索6 533种生物中的微卫星信息	除了所有线粒体和叶绿体基因组以及NCBI提供的表达序列标签外，在所有分类群中还发现了1.58亿个微卫星基序
PineElm_SSRdb	从菠萝基因组、叶绿体、线粒体和EST序列中鉴定SSR	在菠萝中共鉴定出359 511个SSR（基因组序列356 385个，叶绿体序列45个，线粒体序列249个，EST序列2 832个）

名称	内容	特征
ChloroMitoSSRDB	检测细胞器基因组中完美型和不完美型SSR数据库	提供1 982个mtSSR
ChloroMitoSSRDB 2.00	提供4 454个细胞器基因组的访问，显示28 851个线粒体完美SSR和197 009个线粒体不完美SSR，35 250个MISA发现的完美SSR和3 211个MISA复合SSR以及相关信息，如重复序列的位置（编码和非编码）、重复大小和重复频率，基序和多态性长度，以及引物对	继ChloroMitoSSRDB 1.00升级版，提供4 454个细胞器基因组数据、完美型/不完美型SSR数据等
MitoSatPlant	包含从92个绿色植物线粒体基因组中提取的完美、不完美和复合SSR的信息	提供绿色植物mtSSR中完美型/不完美型数据信息
MSDB	提供37 680个基因组中超过40亿个微卫星的集合	用于简化、交互式分析和可视化，是迄今为止访问和分析多物种微卫星数据最全面、最具注释性和最新的数据库
pSATdb	包含28 710个mtSSR，跨越1 576个属的5 976个mtDNA序列	对后生动物和绿色植物中1 576个属的5 976个mtDNA序列进行了鉴定
VfODB	蚕豆基因组数据库，检索到3 461个标记，代表12种类型（CAPS、EST、EST-SSR、基因标记、INDEL、同工酶、ISSR、RAPD、SCAR、RGA、SNP和SSR）	综合了种质信息、表达序列标签、表达序列标签简单序列重复和线粒体简单序列重复、microRNA目标标记和蚕豆遗传图谱的综合数据库
MISA	是一种在核苷酸序列中查找微卫星的工具，除了检测完整的微卫星外，MISA还能够找到由多个简单序列基序组成的完美复合微卫星
SSRome	探索6 533种生物中的微卫星信息	除了所有线粒体和叶绿体基因组以及NCBI提供的表达序列标签外，在所有分类群中还发现了1.58亿个微卫星基序
PineElm_SSRdb	从菠萝基因组、叶绿体、线粒体和EST序列中鉴定SSR	在菠萝中共鉴定出359 511个SSR（基因组序列356 385个，叶绿体序列45个，线粒体序列249个，EST序列2 832个）

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Progress on the Application of Mitochondrial SSR Molecular Markers in Plants

线粒体SSR分子标记在植物中的应用进展

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