SecReT4: a web-based bacterial type IV secretion system resource

• Published in: Nucleic acids research 2013-01, Vol.41 (Database issue), p.D660-D665
• Main Authors: Bi, Dexi, Liu, Linmeng, Tai, Cui, Deng, Zixin, Rajakumar, Kumar, Ou, Hong-Yu
• Format: Article
• Language: English
• Subjects: Agrobacterium tumefaciens - genetics; Bacteria - classification; Bacteria - genetics; Bacterial Proteins - chemistry; Bacterial Proteins - genetics; Bacterial Secretion Systems - genetics; Databases, Genetic; Genes, Bacterial; Genome, Bacterial; Internet; Software
• ISSN: 0305-1048; 1362-4962
• DOI: 10.1093/nar/gks1248

SecReT4 (http://db-mml.sjtu.edu.cn/SecReT4/) is an integrated database providing comprehensive information of type IV secretion systems (T4SSs) in bacteria. T4SSs are versatile assemblages that promote genetic exchange and/or effector translocation with consequent impacts on pathogenesis and genome plasticity. T4SSs have been implicated in conjugation, DNA uptake and release and effector translocation. The effectors injected into eukaryotic target cells can lead to alteration of host cellular processes during infection. SecReT4 offers a unique, highly organized, readily exploreable archive of known and putative T4SSs and cognate effectors in bacteria. It currently contains details of 10 752 core components mapping to 808 T4SSs and 1884 T4SS effectors found in representatives of 289 bacterial species, as well as a collection of more than 900 directly related references. A broad range of similarity search, sequence alignment, phylogenetic, primer design and other functional analysis tools are readily accessible via SecReT4. We propose that SecReT4 will facilitate efficient investigation of large numbers of these systems, recognition of diverse patterns of sequence-, gene- and/or functional conservation and an improved understanding of the biological roles and significance of these versatile molecular machines. SecReT4 will be regularly updated to ensure its ongoing maximum utility to the research community.