TADB 2.0: an updated database of bacterial type II toxin–antitoxin loci
作者： Yingzhou Xie , Yiqing Wei , Yue Shen , Xiaobin Li , Hao Zhou
DOI: 10.1093/NAR/GKX1033
关键词:
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, refined and new data schema employed. With aid of text mining manual curation, it recorded 6193 TA loci in 870 replicons bacteria archaea, including 105 experimentally validated In addition, newly developed tool TAfinder combines homolog searches operon structure detection, allowing prediction for pairs genome sequences. It also helps to investigate genomic context predicted putative virulence factors, antimicrobial resistance determinants mobile genetic elements via alignments specific public databases. Additionally, module TAfinder-Compare allows comparing presence given across close relative genomes. recent updates, might provide better support understanding important roles systems prokaryotic life activities.
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Peng Li, Cui Tai, Zixin Deng, Jianhua Gan, Marco R. Oggioni, Hong-Yu Ou, Identification and characterization of chromosomal relBE toxin-antitoxin locus in Streptomyces cattleya DSM46488. Scientific Reports. ,vol. 6, pp. 32047- 32047 ,(2016) , 10.1038/SREP32047
Alexander Harms, Etienne Maisonneuve, Kenn Gerdes, Mechanisms of bacterial persistence during stress and antibiotic exposure. Science. ,vol. 354, ,(2016) , 10.1126/SCIENCE.AAF4268
Jun Li, Cui Tai, Zixin Deng, Weihong Zhong, Yongqun He, Hong-Yu Ou, VRprofile: gene-cluster-detection-based profiling of virulence and antibiotic resistance traits encoded within genome sequences of pathogenic bacteria. Briefings in Bioinformatics. ,vol. 19, pp. 566- 574 ,(2017) , 10.1093/BIB/BBW141
Paula Bustamante, Jonathan R. Iredell, Carriage of type II toxin-antitoxin systems by the growing group of IncX plasmids Plasmid. ,vol. 91, pp. 19- 27 ,(2017) , 10.1016/J.PLASMID.2017.02.006
Alexander MJ Hall, Bridget Gollan, Sophie Helaine, Toxin–antitoxin systems: reversible toxicity Current Opinion in Microbiology. ,vol. 36, pp. 102- 110 ,(2017) , 10.1016/J.MIB.2017.02.003
Dukas Jurėnas, Sneha Chatterjee, Albert Konijnenberg, Frank Sobott, Louis Droogmans, Abel Garcia-Pino, Laurence Van Melderen, AtaT blocks translation initiation by N-acetylation of the initiator tRNAfMet Nature Chemical Biology. ,vol. 13, pp. 640- 646 ,(2017) , 10.1038/NCHEMBIO.2346
Qiu E. Yang, Timothy R. Walsh, Toxin-antitoxin systems and their role in disseminating and maintaining antimicrobial resistance. Fems Microbiology Reviews. ,vol. 41, pp. 343- 353 ,(2017) , 10.1093/FEMSRE/FUX006
Robert D. Finn, Jody Clements, William Arndt, Benjamin L. Miller, Travis J. Wheeler, Fabian Schreiber, Alex Bateman, Sean R. Eddy, HMMER web server: 2015 update Nucleic Acids Research. ,vol. 43, ,(2015) , 10.1093/NAR/GKV397
Peter C. Fineran, Tim R. Blower, Ian J. Foulds, David P. Humphreys, Kathryn S. Lilley, George P. C. Salmond, The phage abortive infection system, ToxIN, functions as a protein-RNA toxin-antitoxin pair. Proceedings of the National Academy of Sciences of the United States of America. ,vol. 106, pp. 894- 899 ,(2009) , 10.1073/PNAS.0808832106
Raphaël Leplae, Damien Geeraerts, Régis Hallez, Julien Guglielmini, Pierre Drèze, Laurence Van Melderen, Diversity of bacterial type II toxin–antitoxin systems: a comprehensive search and functional analysis of novel families Nucleic Acids Research. ,vol. 39, pp. 5513- 5525 ,(2011) , 10.1093/NAR/GKR131