CRISPR regulation of intraspecies diversification by limiting IS transposition and intercellular recombination.
CRISPR regulation of intraspecies diversification by limiting IS transposition and intercellular recombination.
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通过限制，CRISPR调节种内的多样化是换位和细胞间重组。
DOI：
10.1093/gbe/evt075
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发表时间：
2013
影响因子：
3.3
通讯作者：
Nakagawa I
中科院分区：
文献类型：
--
作者：
Watanabe T;Nozawa T;Aikawa C;Amano A;Maruyama F;Nakagawa I
可移动遗传元件(MGES)和基因重排被认为是细菌多样化的主要驱动力。以前对牙龈卟啉单胞菌的比较基因组分析暗示了这种重要的关系。牙周炎是一种与牙周炎相关的病原体。作为MGES的对应系统，细菌中成簇的规则间隔短回文重复序列(CRISPR)可能有助于基因分型。我们发现，CRISPR分型可以替代传统方法来描述60个高度多样化的牙龈假单胞菌分离株之间的系统发育关系。对基因重组和多位点序列分型的研究表明，这种事件在不同的分离物之间具有重要意义。MGES似乎战略性地位于复杂基因组重排的断裂点间隙。在这些MGE中，最常见的是插入序列(ISS)。CRISPR分析鉴定了2,150个间隔区，聚为1,187个独特的间隔区。大多数间隔区与已知序列没有显著的核苷酸相似性(97.6%：1,158/1,187)。令人惊讶的是，与包括ISS在内的牙龈假单胞菌基因组区域具有高度核苷酸相似性的CRISPR间隔区占主导地位。在以前的研究中，这种间隔区占所有独特间隔区的比例最高(1.6%：19/1,187)，这表明这些CRISPR具有新的功能。这些结果表明，牙龈假单胞菌是一种由频繁的插入序列(IS)转座引起的高度种内多样性的细菌，而外源DNA的导入(主要是来自牙龈假单胞菌的其他细胞)和IS转座都受到CRISPR干扰的限制。提示牙龈假单胞菌CRISPRs可能是了解CRISPRs在细菌多样性发展中作用的重要来源。
Mobile genetic elements (MGEs) and genetic rearrangement are considered as major driving forces of bacterial diversification. Previous comparative genome analysis of Porphyromonas gingivalis, a pathogen related to periodontitis, implied such an important relationship. As a counterpart system to MGEs, clustered regularly interspaced short palindromic repeats (CRISPRs) in bacteria may be useful for genetic typing. We found that CRISPR typing could be a reasonable alternative to conventional methods for characterizing phylogenetic relationships among 60 highly diverse P. gingivalis isolates. Examination of genetic recombination along with multilocus sequence typing suggests the importance of such events between different isolates. MGEs appear to be strategically located at the breakpoint gaps of complicated genome rearrangements. Of these MGEs, insertion sequences (ISs) were found most frequently. CRISPR analysis identified 2,150 spacers that were clustered into 1,187 unique ones. Most of these spacers exhibited no significant nucleotide similarity to known sequences (97.6%: 1,158/1,187). Surprisingly, CRISPR spacers exhibiting high nucleotide similarity to regions of P. gingivalis genomes including ISs were predominant. The proportion of such spacers to all the unique spacers (1.6%: 19/1,187) was the highest among previous studies, suggesting novel functions for these CRISPRs. These results indicate that P. gingivalis is a bacterium with high intraspecies diversity caused by frequent insertion sequence (IS) transposition, whereas both the introduction of foreign DNA, primarily from other P. gingivalis cells, and IS transposition are limited by CRISPR interference. It is suggested that P. gingivalis CRISPRs could be an important source for understanding the role of CRISPRs in the development of bacterial diversity.
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影响因子：
3.7
作者：
Fabre L;Zhang J;Guigon G;Le Hello S;Guibert V;Accou-Demartin M;de Romans S;Lim C;Roux C;Passet V;Diancourt L;Guibourdenche M;Issenhuth-Jeanjean S;Achtman M;Brisse S;Sola C;Weill FX
通讯作者：
Weill FX
影响因子：
14.9
作者：
Grissa, Ibtissem;Vergnaud, Gilles;Pourcel, Christine
通讯作者：
Pourcel, Christine
影响因子：
5.5
作者：
Brodt A;Lurie-Weinberger MN;Gophna U
通讯作者：
Gophna U
影响因子：
64.8
作者：
Arumugam, Manimozhiyan;Raes, Jeroen;Pelletier, Eric;Le Paslier, Denis;Yamada, Takuji;Mende, Daniel R.;Fernandes, Gabriel R.;Tap, Julien;Bruls, Thomas;Batto, Jean-Michel;Bertalan, Marcelo;Borruel, Natalia;Casellas, Francesc;Fernandez, Leyden;Gautier, Laurent;Hansen, Torben;Hattori, Masahira;Hayashi, Tetsuya;Kleerebezem, Michiel;Kurokawa, Ken;Leclerc, Marion;Levenez, Florence;Manichanh, Chaysavanh;Nielsen, H. Bjorn;Nielsen, Trine;Pons, Nicolas;Poulain, Julie;Qin, Junjie;Sicheritz-Ponten, Thomas;Tims, Sebastian;Torrents, David;Ugarte, Edgardo;Zoetendal, Erwin G.;Wang, Jun;Guarner, Francisco;Pedersen, Oluf;de Vos, Willem M.;Brunak, Soren;Dore, Joel;Weissenbach, Jean;Ehrlich, S. Dusko;Bork, Peer
通讯作者：
Bork, Peer
影响因子：
3.2
作者：
Feil, EJ;Li, BC;Spratt, BG
通讯作者：
Spratt, BG