Fig. 2

Differentially gene expression was exhibited in Nal-P-113-treated Porphyromonas gingivalis W83 as shown in KEGG pathway analysis. Differentially regulated genes can be categorized into six groups according to the TIGR genome database, including mobility and extrachromosomal element functions, energy metabolism, cell envelope, transport and binding proteins, protein synthesis and protein fate. 12 genes were selected to verify the consistency of quantitative PCR and Microarray analysis. a Supervised clustering of Nal-P-113-treated and non-treated Porphyromonas gingivalis (n = 3); (b) KEGG pathway analysis on the deferentially expressed genes in Nal-P-113-treated Porphyromonas gingivalis. c The network was constructed in the six major dys-regulated pathways. a: Differentially expressed genes related to mobile and extrachromosomal element functions. b: Differentially expressed genes related to energy metabolism. c: Differentially expressed genes related to cell envelope. d: Differentially expressed genes related to transport and binding protein. e: Differentially expressed genes related to protein synthesis. f: Differentially expressed genes related to protein fate. Nodes and edges represent differentially expressed genes and interactions among them. Up-regulated genes were represented as pink nodes, down-regulated genes were represented as green nodes. d The fold changes of gene expression levels in Porphyromonas gingivalis after Nal-P-113 treatment. Data shown here are the mean ± S.D. from three independent cultures. *, P < 0.05; **, P < 0.01. e Correlation of the expression fold change between quantitative PCR and microarray. Green, down-regulated genes, Black, unaffected genes, Red, up-regulated genes