Abstract
Type IV secretion system (T4SS) can mediate the passage of macromolecules across cellular membranes and is essential for virulent and genetic material exchange among bacterial species. The Type IV Secretion Project 2.0 (T4SP 2.0) database is an improved and extended version of the platform released in 2013 aimed at assisting with the detection of Type IV secretion systems (T4SS) in bacterial genomes. This advanced version provides users with web server tools for detecting the existence and variations of T4SS genes online. The new interface for the genome browser provides a user-friendly access to the most complete and accurate resource of T4SS gene information (e.g., gene number, name, type, position, sequence, related articles, and quick links to other webs). Currently, this online database includes T4SS information of 5239 bacterial strains. Conclusions. T4SS is one of the most versatile secretion systems necessary for the virulence and survival of bacteria and the secretion of protein and/or DNA substrates from a donor to a recipient cell. This database on virB/D genes of the T4SS system will help scientists worldwide to improve their knowledge on secretion systems and also identify potential pathogenic mechanisms of various microbial species.
Highlights
Secretion systems, which can mediate the passage of macromolecules across cellular membranes, are essential for virulence and genetic material exchange among bacterial species [1,2,3]
In the last version of T4SP database, 717 experimentally verified virB/D genes, 3852 putative functional virB/D genes predicted based on genomic location and homology, and 21785 homologs of virB/D genes predicted based on homology in 1183 complete bacterial genomes as well as an integrative bioinformatics software package for predicting Type IV secretion systems T4SP (T4SS) in bacterial genomes are publicly available [10]
Users can detect the existence of T4SS online and find the distribution of these T4SS genes, which will be useful for further experiments
Summary
Secretion systems, which can mediate the passage of macromolecules across cellular membranes, are essential for virulence and genetic material exchange among bacterial species [1,2,3]. T4SS in Gram-negative and Gram-positive strains have variable gene numbers and high sequence diversity [8, 10], which limit their identification. In the last version of T4SP database, 717 experimentally verified virB/D genes, 3852 putative functional virB/D genes predicted based on genomic location and homology, and 21785 homologs of virB/D genes predicted based on homology in 1183 complete bacterial genomes as well as an integrative bioinformatics software package for predicting T4SS in bacterial genomes are publicly available (http://www.secretion.org/) [10]. The Type IV Secretion Project 2.0 (T4SP 2.0) database (http://www.secretion.org/) is an improved and extended version of the platform that currently includes more T4SS related gene data of 5239 bacterial strains. The new interface for the genome browser provides a user-friendly access to the most complete and accurate resource of T4SS gene information (e.g., gene number, name, type, position, sequence, related articles, and quick links to other webs)
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