| 黑白轮枝菌基因组中微卫星的频率和分布 |
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| 引用本文： | 李志芳,冯自力,赵丽红,师勇强,李彩红,王玲飞,刘义杰,朱荷琴.黑白轮枝菌基因组中微卫星的频率和分布[J].棉花学报,2013,25(2):135-141. |
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| 作者姓名： | 李志芳 冯自力 赵丽红 师勇强 李彩红 王玲飞 刘义杰 朱荷琴 |
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| 作者单位： | 棉花生物学国家重点实验室/中国农业科学院棉花研究所,河南安阳,455000 |
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| 基金项目： | 中央级公益性科研院所基本科研业务费专项2013 年度所长基金项目（SJB1304）；国家自然科学基金（31201466） |
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| 摘 要： | 为了明确重要植物病原真菌黑白轮枝菌基因组中的徽卫星(SSR)分布情况,利用软件SciRoKo从已测序的VaMsl02菌株基因组(32.8 Mb)中,成功搜索得到4224个SSR.结果显示,三碱基重复徽卫星的数量最多,为1481个,占SSR总数的35.1％；其次是二碱基、六碱基、四碱基和五碱基;单碱基重复的微卫星数量最少,为308个,仅占总数的7.3％.不同重复单元的徽卫星在黑白轮枝菌基因组中的分布是非随机的,具有明显的偏好性.单碱基、二碱基、四碱基和五碱基偏爱出现于非编码区,尤其是基因间区.三碱基和六碱基重复微卫星较为集中分布在外显子区,并且重复次数变化丰富,推断黑白轮枝菌编码区的SSR可能会通过调节自身的重复次数来适应新环境.
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| 关 键 词： | 黑白轮枝菌 基因组 简单重复序列 非随机分布 |
| 收稿时间： | 2012-12-04; |
Frequency and Distribution of Microsatellites in the Whole Genome of Verticillium albo-atrum |
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| LI Zhi-fang,FENG Zi-li,ZHAO Li-hong,SHI Yong-qiang,LI Cai-hong,WANG Ling-fei,LIU Yi-jie,ZHU He-qin.Frequency and Distribution of Microsatellites in the Whole Genome of Verticillium albo-atrum[J].Cotton Science,2013,25(2):135-141. |
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| Authors: | LI Zhi-fang FENG Zi-li ZHAO Li-hong SHI Yong-qiang LI Cai-hong WANG Ling-fei LIU Yi-jie ZHU He-qin |
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| Institution: | State Key Laboratory of Cotton Biology / Institute of Cotton Research of Chinese Academy of Agricultural Sciences, Anyang, Henan 455000, China |
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| Abstract: | To identify the distribution of simple sequence repeats (SSRs) in primary plant pathogen Verticillium albo-atrum genome, this study successfully scanned 4224 SSR in the 32.8 Mb genome of sequenced VaMs102 isolate. Results showed that the tri-nucleotide repeats(tri-nt) was the most abundant microsatellite type. The number of tri-nt SSRs was 1481 comprising 35.1% of the total number of SSRs, followed by di-nt, hexa-nt, tetra-nt and pentra-nt SSRs in that order. Mono-nt SSR had the smallest population, only 308, comprising 7.3% of the total number. Furthermore, the SSRs in different repeat units exhibited a differential or non-random distribution in different genomic locations. Mono-nt, di-nt, tetra-nt and penta-nt SSRs preferred to present in the noncoding regions, especially intergenic. Tri-nt and hexa-nt SSRs concentrated distributed in the exonic regions, and the number of triplet-motif repeats is variable across the V. albo-atrum genome, perhaps indicating that it may help promote adaptation to new environment through modulating the repeat times. |
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| Keywords: | genome simple sequence repeats non-random distribution |
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