Summary of Research Project Results under JSPS FY2004
"Research for the Future Program"

1. Research Institution   University of Miyazaki
2. Research Area Life Sciences
3. Research Field Genome Research
4. Term of Project FY 2000 - FY 2004
5. Project Number 00L01411
6. Title of Project Virulent/Valuable Genomes Systems in Microorganisims

7. Project Leader

Name Institution, Department Title of Position
Tetsuya, Hayashi Frontier Science Research Center, University of Miyazaki Professor

8. Core Members

Names Institution, Department Title of Position
Toru, Shimizu Kanazawa University, Graduate School of Medical Science Professor
Tadayoshi, Shiba Kitazato University, School ofs Science Professor
Tetsuya, Iida Osaka University, Research Institute for Microbial Diseases Associate Professor

9. Summary of Research Results

Main aims of this project were to determine complete genome sequences of various pathogenic bacteria and to construct a genome database of virulent but applicative genome systems. This should contribute in developing new ways to fight against infectious diseases. During the 5 year period of the project, the complete genome sequences of the following eight bacteria have been determined and published: Chlamydophila pneumoniae, enterohaemorrhagic Escherichia coli (EHEC) O157, methicillin-resistant Staphylococcus aureus (MRSA), Clostridium perfringens, Vibrio parahaemolyticus, group A Streptococcus (GAS), Bacteroides fragilis, and Nocardia farcinica. Genome sequencing and sequence analyses have been completed for the following eight bacteria, and manuscripts for publication have already been submitted to journals or are in preparation: Chlamydophila felis, emetic type Bacillus cereus, Finegoldia magna, Orientia tsutsugamushi, Serratia marcescence, Staphylococcus hyicus, S. saprophyticus, and Aeromonas veronii. In addition, draft sequences have been obtained for the following seven bacteria, and gap filling processes are under way: EHEC O26, EHEC O111, EHEC O103, Porphyromonas gingivalis, C. chauvoei, C. septicum, and Burkholderia multivorans. Aside from this, many plasmids and bacteriophages encoding important virulence factors have also been sequenced.
For each sequenced pathogen, various types of post-sequencing studies have been conducted to obtain more details on their virulent genome systems and to seek for effective application. We have put a particular focus on the construction of microarray, particularly on that of nine bacteria: C. pneumoniae, EHEC O157, C. perfringens, V. parahaemolyiticus, GAS, S. aureus, N. farcinica Bacillus cereus, and S. marcescence, and a tiling array for C. perfringens. Another important achievement was the development of the Whole Genome PCR Scanning method. It was originally developed for comparative analyses of O157 strains, but was successfully applied to comparative genomics of other bacteria. All these results obtained in this project have provided valuable genomic databases for future studies towards establishment of new effective anti-infection strategies.

10. Key Words

( 1 ) Microorganisms ( 2 ) Pathogenic bacteria ( 3 ) Genome analysis
( 4 ) Virulence genes ( 5 ) Valuable genes ( 6 ) Infectious diseases
( 7 ) Microarray ( 8 ) Informatics ( 9 ) Evolution