Open Access Highly Accessed Research article

Identification of essential genes of the periodontal pathogen Porphyromonas gingivalis

Brian A Klein12, Elizabeth L Tenorio2, David W Lazinski13, Andrew Camilli13, Margaret J Duncan4 and Linden T Hu12*

Author Affiliations

1 Department of Molecular Biology and Microbiology, Tufts University Sackler School of Biomedical Sciences, Boston, MA, 02111, USA

2 Division of Geographic Medicine and Infectious Disease, Tufts Medical Center, Boston, MA, 02111, USA

3 Howard Hughes Medical Institute and Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, MA, 02111, USA

4 Department of Molecular Genetics, The Forsyth Institute, Cambridge, MA, 02142, USA

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BMC Genomics 2012, 13:578  doi:10.1186/1471-2164-13-578

Published: 31 October 2012

Additional files

Additional file 1:

Table S1.P. gingivalis strain ATCC 33277 essential gene list; functional characterization and bioinformatic analyses. Green highlight denotes being found in the DEG as essential in other genomes, blue highlight denotes Bacteroides thetaiotaomicron (Goodman et al. Cell Host & Microbe 2009) but NOT DEG essential gene match and orange highlight denotes being part of P. gingivalis core genome (Brunner et al. BMC Microbiology 2010). (XLS 133 kb)

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Additional file 2:

Table S2. Shared genes between P. gingivalis strain ATCC 33277 and B. thetaiotaomicron that are only essential in B. thetaiotaomicron. (XLSX 11 kb)

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Additional file 3:

Table S3. Details of P. gingivalis strain ATCC 33277 essential genes shared only with B. thetaiotaomicron. (XLS 24 kb)

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Additional file 4:

Table S4.P. gingivalis core genome in relation to gene essentiality. The 1476 genes that comprise the P. gingivalis core genome are listed in order of their TIGR gene identification number (Brunner et al. BMC Microbiology 2010). Genes with their TIGR functional characterizations highlighted in green are P. gingivalis essential gene homologues in strain W83, while those highlighted in blue are non-essential P. gingivalis core genes that have BLAST matches within the DEG. BLAST matches were determined as having protein-protein similarity of e-values 1x10-8 or less. Black lettering within brackets describing “only in” denote what species in the DEG a core gene had similarity to if there was only one. Red lettering within brackets denotes BROP annotation to genes when differing from TIGR annotations. (DOC 858 kb)

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Additional file 5:

Table S5.P. gingivalis strain ATCC 33277 genes without insertions that are excluded from consideration as essential genes based on total TA site number. (XLS 24 kb)

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Additional file 6:

Table S6.Primer sequences for vector-part PCR, nested semi-random PCR sequencing and Illumina sequencing

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