Repetitive sequence characterization and development of SSR and CMS-gene-specific markers in the Brassica mitochondrial genomes
Repetitive sequence characterization and development of SSR and CMS-gene-specific markers in the Brassica mitochondrial genomes
复制标题
芸苔属线粒体基因组中 SSR 和 CMS 基因特异性标记的重复序列表征和开发
DOI：
10.1007/s11032-015-0413-3
复制
发表时间：
2015-11
影响因子：
3.1
通讯作者：
付东辉
中科院分区：
文献类型：
--
作者：
付东辉
在芸苔属中，对线粒体基因组中的重复序列知之甚少，并且很少有线粒体分子标记可用。在这项研究中，重复序列的线粒体基因组中的6个芸苔属物种（Brassica rapa subsp. campestris，B. oleracea，B. B. nigra，B. napus（pol and nap），B. juncea和B. carinata）进行了分析。简单重复序列（SSR），转座子，串联重复序列和反向重复序列的分布和特点进行了评估。共检测到148个SSR标记，SSR标记密度从1个/15.4 kbp到1个/11.1 kbp。最常鉴定的SSR是monoclantide重复序列。同时还检测到许多转座子、串联重复序列和反向重复序列，其中B中的重复序列最多。所有物种中最好的。根据6个芸苔属植物线粒体基因组序列设计了31个多态性SSR引物，对92份芸苔属材料进行了扩增，共扩增出48条带。在这48条中，13条清晰且可重复的条带（来自12对引物）可用于区分不同物种的线粒体。利用B中的CMS相关基因设计了12个多态性CMS基因特异引物。napus的线粒体基因组序列，5条引物可用于区分不同物种的线粒体，为鉴定不同类型的芸苔属植物线粒体提供了可供选择的标记。这些结果表明，这些SSR标记和CMS基因特异标记可以广泛应用于芸苔属植物线粒体基因组的分析。CMS基因相关标记的进一步研究可能有助于CMS细胞质的鉴定和利用，为未来的育种方法。
In the Brassica genus, relatively little is known about repetitive sequences in the mitochondrial genomes, and few mitochondrial molecular markers are available. In this study, repetitive sequences in the mitochondrial genomes of six Brassica species (Brassica rapa subsp. campestris, B. oleracea, B. nigra, B. napus (pol and nap), B. juncea and B. carinata) were analyzed. The distribution and characteristics of simple sequence repeats (SSRs), transposons, tandem repeat sequences, and inverted repeat sequences were assessed. A total of 148 SSRs were detected, with a density ranging from one SSR per 15.4 kbp to one SSR per 11.1 kbp per Brassica species. The most commonly identified SSRs were mononucleotide repeats. Many transposons, tandem repeats, and inverted repeats were also detected, with the most repeats in B. oleracea of all the species. Forty-eight bands amplified from 31 polymorphic SSR primers designed from the six Brassica mitochondrial genome sequences were screened across 92 Brassica accessions. Of these 48, 13 clear and reproducible bands (from 12 rimer pairs) could be used to distinguish between mitochondria from different species. Twelve polymorphic CMS (cytoplasmic male sterility)-gene-specific primers were developed from CMS-associated genes in the B. napus mitochondrial genome, and five primers could be used to distinguish mitochondria from different species, providing alternative markers for the identification of different Brassica mitochondrial types. Our results suggest that these SSR markers and CMS-gene-specific markers can be widely applied to characterize Brassica mitochondrial genomes. Further investigation of CMS-gene-associated markers may facilitate identification and utilization of CMS cytoplasm for future breeding approaches.
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影响因子：
6.9
作者：
Jing B;Heng S;Tong D;Wan Z;Fu T;Tu J;Ma C;Yi B;Wen J;Shen J
通讯作者：
Shen J
DOI：
10.1093/dnares/dst040
发表时间：
2014-02
期刊：
DNA research : an international journal for rapid publication of reports on genes and genomes
影响因子：
--
作者：
Shi J;Huang S;Zhan J;Yu J;Wang X;Hua W;Liu S;Liu G;Wang H
通讯作者：
Wang H
DOI：
--
发表时间：
1935
期刊：
--
影响因子：
--
作者：
Nu
通讯作者：
Nu
影响因子：
3.1
作者：
Sugiyama, Y;Watase, Y;Sugiura, M
通讯作者：
Sugiura, M
影响因子：
3.1
作者：
QingBiao Wang;Yang-yong Zhang;Z. Fang;Yumei Liu;Limei Yang;M. Zhuang
通讯作者：
QingBiao Wang;Yang-yong Zhang;Z. Fang;Yumei Liu;Limei Yang;M. Zhuang