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Microbiology 152 (2006), 3175-3183; DOI  10.1099/mic.0.29217-0
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Microbiology 152 (2006), 3175-3183; DOI  10.1099/mic.0.29217-0
© 2006 Society for General Microbiology

The predicted secretome of Lactobacillus plantarum WCFS1 sheds light on interactions with its environment

Jos Boekhorst1, Michiel Wels1,2, Michiel Kleerebezem2,3 and Roland J. Siezen1,2,3

1 Center for Molecular and Biomolecular Informatics, Radboud University Nijmegen Medical Centre, 6500HB Nijmegen, The Netherlands
2 Wageningen Centre for Food Sciences, Wageningen, The Netherlands
3 NIZO food research, Ede, The Netherlands

Correspondence
Jos Boekhorst
J.Boekhorst{at}cmbi.ru.nl

The predicted extracellular proteins of the bacterium Lactobacillus plantarum were analysed to gain insight into the mechanisms underlying interactions of this bacterium with its environment. Extracellular proteins play important roles in processes ranging from probiotic effects in the gastrointestinal tract to degradation of complex extracellular carbon sources such as those found in plant materials, and they have a primary role in the adaptation of a bacterium to changing environmental conditions. The functional annotation of extracellular proteins was improved using a wide variety of bioinformatics methods, including domain analysis and phylogenetic profiling. At least 12 proteins are predicted to be directly involved in adherence to host components such as collagen and mucin, and about 30 extracellular enzymes, mainly hydrolases and transglycosylases, might play a role in the degradation of substrates by L. plantarum to sustain its growth in different environmental niches. A comprehensive overview of all predicted extracellular proteins, their domains composition and their predicted function is provided through a database at http://www.cmbi.ru.nl/secretome, which could serve as a basis for targeted experimental studies into the function of extracellular proteins.

Abbreviations: GI, gastrointestinal; HMM, hidden Markov model

Supplementary figures and tables are available with the online version of this paper.




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