志贺氏菌CRISPR位点的比较基因组学及与质粒数量的相关性分析
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浙江省科技计划项目(2017C32036); 食品科学与工程浙江省重中之重一级学科项目(2017SICR118)


Comparative Genomics Analysis of Relationship between CRISPR Loci and Plasmid in Shigella
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    摘要:

    成簇规律间隔的短回文重复序列(CRISPR)在多数细菌和古生菌中广泛存在,该遗传结构可以有效防御外源DNA(如质粒、噬菌体等)的侵袭,从而降低外源基因的水平转移。本文的研究对象为志贺氏菌属中的鲍氏志贺氏菌、痢疾志贺氏菌、宋内氏志贺氏菌以及福氏志贺氏菌等40株菌。研究不同志贺氏菌种中CRISPR位点的结构差异,其与可移动质粒之间的关联。采用生物信息学的方法比较间隔序列与插入序列的同源性,判断CRISPR位点与RNA二级结构稳定性的关系。结果:40株志贺氏菌中均含CRISPR结构,共有241个CRISPR位点和6个确定位点。本研究发现cas3基因和重复序列均不可作为这4类细菌的分类依据。结论:CRISPR位点的数量和间隔区数量之间在统计学上无关。耐药基因、间隔序列整合子等移动遗传原件具有一定的同源性,表明志贺氏菌在进化过程中不断受到外源基因的侵袭。

    Abstract:

    Clustered regularly interspaced short palindromic repeats(CRISPR) are the genetic structures existing in most bacteria and archaea. They can effectively prevent the invasion of exogenous DNA (plasmids, phages, etc.), and then prevent the horizontal transfer of foreign genes. Object: Shigella boydii, Shigella dysenteriae, Shigella flexneri and Shigella flexneri which are common in Shigella spp. 40 strains were studied to explore the structural differences of CRISPR loci and the relationship between CRIPSR and the plasmid in different species. Method: The bioinformatics methods were used to compare the homology of spacers and insert sequences and the relationship between the CRISPR locus and RNA secondary structure stability. Result: The results showed that there were CRISPR structures in all 40 Shigella strains, including 241 CRISPR loci and 6 loci. Repeat sequence and cas3 gene can not be used as a classification basis for these four types of bacteria. Conclusion: Although we found there was no statistical relationship between the number of CRISPR loci and the number of spacers, the original genetic motifs of spacer sequence integron and drug resistance gene had some homology, indicating that Shigella in the evolutionary process in the constant invasion by exogenous genes.

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曲道峰;陆诗铫;陈跃文;黄东萍;龚俏玲;易松强;韩剑众;.志贺氏菌CRISPR位点的比较基因组学及与质粒数量的相关性分析[J].中国食品学报,2020,20(5):242-250

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  • 在线发布日期: 2020-05-28
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