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  • Research Engineer
  • Retired scientist
  • Technician
  • Undergraduate Student
  • Veterinary
  • Visiting Scientist
  • Deputy Director of Center
  • Deputy Director of Department
  • Deputy Director of National Reference Center
  • Director of Center
  • Director of Department
  • Director of Institute
  • Director of National Reference Center
  • Group Leader
  • Head of Facility
  • Head of Structure
  • Honorary President of the Departement
  • Labex Coordinator
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Starting Date
08
Oct 2015
Status
Ongoing
Members
5
Structures
3

About

Protein secretion systems are key virulence factors of all major bacterial pathogens with an LPS-containing outer membrane: Shigella, Escherichia coli, Yersinia pestis, Salmonella, Pseudomonas aeruginosa, Helicobacter pylori, Vibrio cholerae, etc. Protein secretion systems are also involved in complex antagonistic ecological interactions between bacteria, as recently exemplified by the ability of bacteria to use type 6 and type 5 secretion systems to respond to aggressive behaviour by other bacteria.

We designed models and protein profiles to detect an unprecedented number and diversity (∼10000) of bacterial protein secretion systems and evolutionarily related appendages in partial and complete genomic data. The tools developped in the study are freely available for systematic searches in large datasets (standalone version) and or in a webserver.

To use the webserver version go to http://mobyle.pasteur.fr/cgi-bin/portal.py#forms::txsscan.

To download the protein profiles and the MacSyFinder models click here: FileS1_TXSScan.tar.

The models and profiles are to be used in conjunction with MacSyFinder and MacSyView. The documentation on these programs can be found at http://macsyfinder.readthedocs.org/.

Reference: Abby SS, Cury J, Guglielmini J, Néron B, Touchon M, Rocha EPC. Identification of protein secretion systems in bacterial genomes. Scientific Reports, 6:srep23080.

Contact: Sophie Abby (sophie.abbyATunivie.ac.at)

Fundings