Open Access Research article

Comparative genomics of the type VI secretion systems of Pantoea and Erwinia species reveals the presence of putative effector islands that may be translocated by the VgrG and Hcp proteins

Pieter De Maayer1*, Stephanus N Venter1, Tim Kamber2, Brion Duffy2, Teresa A Coutinho1 and Theo HM Smits2

Author Affiliations

1 Forestry and Agricultural Biotechnology Institute, University of Pretoria, South Africa

2 Agroscope Changins-Wädenswil ACW, Division of Plant Protection, Wädenswil, Switzerland

For all author emails, please log on.

BMC Genomics 2011, 12:576  doi:10.1186/1471-2164-12-576

Published: 24 November 2011

Additional files

Additional file 1:

Table S1 Non-conserved proteins encoded in the T6SS hcp and vgrG islands in Pantoea and Erwinia species. Table showing the Blast analysis of the proteins encoded in the Pantoea and Erwinia hcp and vgrG islands against the NCBI protein database [52], Conserved Domain Database using the CD-search server [58] and the Protein Database (PDB) using the Hhpred server [60,61]. For the BlastP analysis against the NCBI protein database, the highest informative Blast result outside of the Pantoea/Erwinia group was determined. The amino acid positions showing sequence identity, percentage amino acid (aa) identity, bit scores and BLAST E-values are shown. For the Blast analysis for conserved domains [58], the protein families and conserved orthologous groups are shown, as well as the bit scores and E-values. For the Hhpred analysis of the amino acid sequences for structural homology the Hhpred scores and E-values are shown.

Format: XLS Size: 171KB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data