TADB 2.0: an updated database of bacterial type II toxin-antitoxin loci

被引：192

作者：

Xie, Yingzhou ^{[1
]}

Wei, Yiqing ^{[1
]}

Shen, Yue ^{[1
]}

Li, Xiaobin ^{[1
]}

Zhou, Hao ^{[1
]}

Tai, Cui ^{[1
]}

Deng, Zixin ^{[1
]}

Ou, Hong-Yu ^{[1
]}

机构：

[1] Shanghai Jiao Tong Univ, Sch Life Sci & Biotechnol, Joint Int Lab Metab & Dev Sci, State Key Lab Microbial Metab, Shanghai 200030, Peoples R China

来源：

NUCLEIC ACIDS RESEARCH | 2018年 / 46卷 / D1期

基金：

中国国家自然科学基金;

关键词：

SYSTEMS; ACETYLATION; PERSISTENCE; DIVERSITY; RNA;

D O I：

10.1093/nar/gkx1033

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

TADB2.0 (http://bioinfo-mml.sjtu.edu.cn/TADB2/) is an updated database that provides comprehensive information about bacterial type II toxin-antitoxin (TA) loci. Compared with the previous version, the database refined and the new data schema is employed. With the aid of text mining and manual curation, it recorded 6193 type II TA loci in 870 replicons of bacteria and archaea, including 105 experimentally validated TA loci. In addition, the newly developed tool TAfinder combines the homolog searches and the operon structure detection, allowing the prediction for type II TA pairs in bacterial genome sequences. It also helps to investigate the genomic context of predicted TA loci for putative virulence factors, antimicrobial resistance determinants and mobile genetic elements via alignments to the specific public databases. Additionally, the module TAfinder-Compare allows comparing the presence of the given TA loci across the close relative genomes. With the recent updates, TADB2.0 might provide better support for understanding the important roles of type II TA systems in the prokaryotic life activities.

引用

页码：D749 / D753

页数：5

共 28 条

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