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An Analytical Tool-box for Comprehensive Biochemical, Structural and Transcriptome Evaluation of Oral Biofilms Mediated by Mutans Streptococci
Published on: January 26, 2011
A searchable database for proteomes of oral microorganisms
Y Nakano1, Y Shibata, M Kawada
1Department of Preventive Dentistry, Kyushu University Faculty of Dental Science, Fukuoka, Japan. yosh@dent.kyushu-u.ac.jp
Oral Microbiology and Immunology
|October 22, 2005
Summary
A new online proteome database for oral bacteria was created using two-dimensional electrophoresis (2DE) and MALDI-TOF analysis. This resource aids in identifying bacterial proteins and understanding their responses to environmental changes, like pH shifts in Streptococcus mutans.
Area of Science:
- Proteomics
- Bioinformatics
- Oral Microbiology
Background:
- Two-dimensional electrophoresis (2DE) is a powerful technique for separating complex protein mixtures.
- Oral bacteria such as Streptococcus mutans, Actinobacillus actinomycetemcomitans, and Porphyromonas gingivalis are significant in oral health and disease.
- Existing proteomic databases may lack comprehensive data for specific oral pathogens.
Purpose of the Study:
- To construct and provide free web-based access to a proteome database for key oral bacteria.
- To identify and catalog proteins from Streptococcus mutans, Actinobacillus actinomycetemcomitans, and Porphyromonas gingivalis using 2DE and mass spectrometry.
- To demonstrate the utility of the database for analyzing bacterial responses to environmental stimuli.
Main Methods:
- Proteins from three oral bacteria were separated using 2DE.
- Protein spots were analyzed and identified using matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) mass spectrometry.
- A relational database (MySQL) was established on an Apache web server to store and query proteomic data, including spot coordinates and protein information.
Main Results:
- Over 330 proteins from Porphyromonas gingivalis, 160 from Actinobacillus actinomycetemcomitans, and 158 from Streptococcus mutans were identified.
- The database integrates protein data with links to external genomic resources like ORALGEN, NCBI, and TIGR.
- Analysis of Streptococcus mutans' response to pH changes using the database successfully identified 21 differentially expressed proteins, validating the system's functionality.
Conclusions:
- A novel, accessible online proteome database for oral bacteria has been successfully developed.
- The database serves as a valuable resource for researchers studying oral microbiology and bacterial proteomics.
- The system effectively aids in identifying protein expression changes in response to environmental factors, confirming its practical application.
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