correlation network analysis applied to complex biofilm communities相关网络分析应用于复杂的生物膜的社区.pdf

Correlation Network Analysis Applied to Complex Biofilm Communities 1 1,2 1,2 1,2 Ana E. Duran-Pinedo , Bruce Paster , Ricardo Teles , Jorge Frias-Lopez * 1 Forsyth Institute, Cambridge, Massachusetts, United States of America, 2 Harvard School of Dental Medicine, Boston, Massachusetts, United States of America Abstract The complexity of the human microbiome makes it difficult to reveal organizational principles of the community and even more challenging to generate testable hypotheses. It has been suggested that in the gut microbiome species such as Bacteroides thetaiotaomicron are keystone in maintaining the stability and functional adaptability of the microbial community. In this study, we investigate the interspecies associations in a complex microbial biofilm applying systems biology principles. Using correlation network analysis we identified bacterial modules that represent important microbial associations within the oral community. We used dental plaque as a model community because of its high diversity and the well known species-species interactions that are common in the oral biofilm. We analyzed samples from healthy individuals as well as from patients with periodontitis, a polymicrobial disease. Using results obtained by checkerboard hybridization on cultivable bacteria we identified modules that correlated well with microbial complexes previously described. Furthermore, we extended our analysis using the Human Oral Microbe Identification Microarray (HOMIM), which includes a large number of bacterial species, among them uncultivated organisms present in the mouth. Two distinct microbial communities appeared in healthy individuals while there