Comparative analysis of H-NS binding profiles of three E.coli strains suggests H-NS binding contributes to sequence diversification of E.coli genome

对三种大肠杆菌菌株的 H-NS 结合谱的比较分析表明，H-NS 结合有助于大肠杆菌基因组的序列多样化

• 批准号: 23310131
• 负责人: KUROKAWA Ken
• 金额: $ 6.32万
• 依托单位: Tokyo Institute of Technology
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Scientific Research (B)
• 财政年份: 2011
• 资助国家: 日本
• 起止时间: 2011-04-01 至 2014-03-31
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-23310131/
• 关键词: 微生物ゲノム; ゲノム構造多様性; 核様体

The nucleoid protein, H-NS, binds hundreds of regions on the E. coli genome and consequently silences the expression of many genes. Interestingly, many of the genes silenced by H-NS are horizontally acquired, some that are integrated into host transcriptional regulatory networks contribute to stress response, virulence and pathogenicity of the host E. coli strains. Here, we report a comparative evaluation of H-NS binding profiles, determined using the ChAP-seq method, to conserved common segments in the genome sequences of three E.coli strains, K-12, SE11, and SE15. We observed that the H-NS binding profiles are highly conserved in common segments among the strains, and sequence diversity within these regions in the different strains does not affect H-NS interactions. Rather, sequence-diverse regions of the common segments in the E. coli genome tend to bind H-NS, and the encoded genes in these regions seem to play important roles in growth during intestinal environment.

类核蛋白H-NS结合E.大肠杆菌基因组，从而沉默许多基因的表达。有趣的是，许多被H-NS沉默的基因是水平获得的，一些整合到宿主转录调控网络中的基因有助于宿主的胁迫反应、毒力和致病性。大肠杆菌菌株。在这里，我们报告了H-NS结合谱的比较评估，使用ChAP-seq方法确定，以三种大肠杆菌菌株K-12，SE 11和SE 15的基因组序列中保守的共同片段。我们观察到H-NS结合谱在菌株之间的共同片段中高度保守，并且不同菌株中这些区域内的序列多样性不影响H-NS相互作用。相反，E.大肠杆菌基因组倾向于结合H-NS，这些区域的编码基因在肠道环境中的生长中起重要作用。

项目成果

Updating the Vibrio clades defined by multilocus sequence phylogeny: proposal of eight new clades, and the description of Vibrio tritonius sp. nov.

• DOI: 10.3389/fmicb.2013.00414
• 发表时间: 2013
• 期刊: Frontiers in microbiology
• 影响因子: 5.2
• 作者: Sawabe T;Ogura Y;Matsumura Y;Feng G;Amin AR;Mino S;Nakagawa S;Sawabe T;Kumar R;Fukui Y;Satomi M;Matsushima R;Thompson FL;Gomez-Gil B;Christen R;Maruyama F;Kurokawa K;Hayashi T
• 通讯作者: Hayashi T

Analysis of the complete plastid genome of the unicellular red alga Porphyridium purpureum

• DOI: 10.1007/s10265-014-0627-1
• 发表时间: 2014-03
• 期刊: Journal of Plant Research
• 影响因子: 2.8
• 作者: Naoyuki Tajima;Shusei Sato;F. Maruyama;K. Kurokawa;H. Ohta;S. Tabata;Kohsuke Sekine;Takashi Moriyama;N. Sato

Complete Genome Sequence of the Periodontogenic Bacterium Porphyromonas gingivalis TDC60

牙周病细菌牙龈卟啉单胞菌 TDC60 的完整基因组序列

• 发表时间: 2011
• 期刊: J. Bacteriol
• 作者: F. Maruyama;T. Watanabe;T. Nozawa;A. Aoki;S. Okano;Y. Shibata;K. Oshima;K. Kurokawa;M. Hattori;I. Nakagawa;Y. Abiko
• 通讯作者: Y. Abiko

Complete Genome Sequence of a Propionibacterium acnes Isolate from a Sarcoidosis Patient.

• DOI: 10.1128/genomea.00016-12
• 发表时间: 2013-01
• 期刊: Genome announcements
• 作者: Minegishi K;Aikawa C;Furukawa A;Watanabe T;Nakano T;Ogura Y;Ohtsubo Y;Kurokawa K;Hayashi T;Maruyama F;Nakagawa I;Eishi Y
• 通讯作者: Eishi Y

生態系の理解に向けたゲノム情報の解析と活用

分析和利用基因组信息来了解生态系统

• 发表时间: 2011
• 作者: 泉井桂;蘆田弘樹;橋詰恵丞;有川慶大;濱口祐子;横正健剛;横田明穂;秋田求;黒川顕
• 通讯作者: 黒川顕