2006 Fiscal Year Final Research Report Summary
Construction of DnaJ Database for Medically important Bacteria to determine Species Definition
| Project/Area Number |
16390129
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| Research Category |
Grant-in-Aid for Scientific Research (B)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
Bacteriology (including Mycology)
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| Research Institution | Gifu University |
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Principal Investigator |
EZAKI Takayuki Gifu University, Graduate School of Medicine, Professor, 大学院医学系研究科, 教授 (90151977)
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| Co-Investigator(Kenkyū-buntansha) |
OHKUSU Kiyofumi Gifu University, Graduate School of Medicine, Associate professor, 大学院医学系研究科, 助教授 (40362173)
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| Project Period (FY) |
2004 – 2006
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| Keywords | Taxonomy / Definition of Species / DnaJ gene / Phylum / Identification / Detection / Gene variation / Diagnosis of Infectious disease |
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| Research Abstract |
Bacteria is phylogenetically classified with 16S rDNA gene sequence variation
The information is especially useful to find phylogenetic position of unidentified bacteria, however, the sequence variation among closely related species are almost identical in many cases. Bacterial species is genetically defined as, "Species is a population of strains, which shares more than 70% chromosome similarity ". However, methods to measure this chromosome DNA similarity are different from one laboratory to another and as a result, the similarity values of same species group are different among different laboratories. So Judicial commission announced to accumulate at least 5 different house keeping gene sequences, which are more variable than 16SD rDNA and useful to determine bacterial species.
We focused on DnaJ sequences and collected the sequences of medically important bacterial groups. Staphylococcus, Streptococccus, Legionella, Mycobacterium, Vibrio, Aeromonas and members of Family Enterobacteriaceae.
The sequence variation of dnaJ is bigger than 16S rDNA. M. gastri and M. kansasiishares identical 16S rDNA sequence, however, type strains and clinical strains of these species were different more than 4%. Vibrio alginolyticus and Vibrio parahaemolyticus group, Vibrio cholerae and Vibrio mimicus group also shares identical 16S rDNA sequences, however, their dnaJ sequence are 4 to 7 percent different. Generally, DnaJ variation in a genus ranged from 75% to 100%,. On the Other hand, Variation of 16S rDNA within a genus ranged from 90 to 100%.
These data supported that the dnaj sequence information is extremely useful to define species and also to design specific sequence to detect bacteria at species level.
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Research Products
(25 results)
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[Journal Article] Phylogenetic study and multiplex PCR-based detection of Burkholderia plantarii, Burkholderia glumae and Burkholderia gladioli using gryB and rpoD sequences.2006
Author(s)
Maeda Y., Shinohara H., Kiba, A., Ohnishi K., Furuya N., Kawamura Y., Ezaki t., Vandamme P., Tsushima S., Hikichi, Y
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Journal Title
Int. J. Syst. Evol Microbiol. 56
Pages: 1031-1038
Description
「研究成果報告書概要(欧文)」より
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[Journal Article] Mycobacterium kumamotoense sep. nov. recovered from clinical specimen and the first isolation report of Mycobacterium arupense in Japan. Novel slowly growing, nonchromogenic clinical isolates related to Mycobacterium terrae complex.2006
Author(s)
Masaki, T., Ohkusu, K., Hata, H., Fujiwara, N., Iihara H., Noda, M., Nhung P.H., Hayashi, M., Asano, Y., Kawamura, Y., Ezaki.T.
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Journal Title
Int. J. Syst. Evol Microbiol. 50
Pages: 889-897
Description
「研究成果報告書概要(欧文)」より
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[Journal Article] Quantitative microarray-based DNA-DNA hybridization assay for measuring genetic distances among bacterial species and its application to the identification of family Enterobacteriaceae2005
Author(s)
Makoto Amano, Kiyofumi Ohkusu, Koji Kusaba, Hironori Ikedo, Zonzo Nagasawa, Yosuke Aoki, Yoshiaki Kawamura, Shinzo Kobatake, Takumi Tanaka, Shuuji Matuura, Takayuki Ezaki
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Journal Title
Microbiol. Immunol. 49
Pages: 255-263
Description
「研究成果報告書概要(和文)」より
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