Structure and function analysis of novel meta-cleavage enzyme for the creation of the enzyme to degrade recalcitrant and environment-polluting compounds
Project/Area Number |
17380056
|
Research Category |
Grant-in-Aid for Scientific Research (B)
|
Allocation Type | Single-year Grants |
Section | 一般 |
Research Field |
Applied microbiology
|
Research Institution | Shibaura Institute of Technology |
Principal Investigator |
OMORI Toshio Shibaura Institute of Technology, Engineering graduate course, Professor (20011984)
|
Co-Investigator(Kenkyū-buntansha) |
羽部 浩 (独立法人)産業技術総合研究所, 研究員 (20313075)
|
Project Period (FY) |
2005 – 2007
|
Project Status |
Completed (Fiscal Year 2007)
|
Budget Amount *help |
¥11,060,000 (Direct Cost: ¥10,400,000、Indirect Cost: ¥660,000)
Fiscal Year 2007: ¥2,860,000 (Direct Cost: ¥2,200,000、Indirect Cost: ¥660,000)
Fiscal Year 2006: ¥2,100,000 (Direct Cost: ¥2,100,000)
Fiscal Year 2005: ¥6,100,000 (Direct Cost: ¥6,100,000)
|
Keywords | marine bacteria / meta-cleavage / carbazole / dibenzofuran / recalcitrant compound / x-ray crystallograph / X線結晶構造 / 2サブユニット / Pseudomonas resinovorance CA10 / Rodoccus sp. DFA3 / 海洋 |
Research Abstract |
Currently, research on the biodegradation of recalcitrant chemicals is mainly concentrated on microorganisms isolated from soils and activated sludge. Studies on marine bacterial genes and enzymes involved in biodegradation of xenobiotics such as carbazole and dioxins are very rare. However, accidents caused by damage to tankers, or the inflow of recalcitrant molecules from rivers, have created pollution in seas that requires environmental remediation. The concentration of bacteria in the sea is very low, and it is very difficult to culture these bacteria because quantities of trace elements present in the seawater affect the growth of marine bacteria. To overcome of these problems, it is necessary to concentrate the seawater to enable bacterial screening. By manipulating the composition of the isolation medium, we succeeded in isolating organisms from seawater that can degrade carbazole and dibenzofuran. We isolated new bacterial carbazole degraders, classified as Lysobacter sp. strain
… More
s OC6 and OC7, which show very low homology to reported bacteria and probably belong to a new order. To obtain genes from these marine bacteria that may be involved in the degradation of carbazole, genes from soil bacterial enzymes participating in the degradation of carbazole were used as a probe for Southern hybridization, but no hybridization was achieved. Using the shotgun cloning method, we successfully obtained the genes from marine bacteria that are involved in the degradation of recalcitrant compounds. The meta-cleavage enzyme involved in the degradation of carbazole and dibenzofuran consists of two subunits, but the three-dimensional (3D) structure of the enzyme is not yet established. However, this information is required to elucidate the 3D structure of the enzymes in order to construct new enzymes that have new substrate specificities and high activity. The meta-cleavage enzyme from Pseudomonas resinovorans CA10, which has two subunits, was purified and crystallized, and the 3D structure was established by the SIRS method. Elucidation of the 3D meta-cleavage enzyme structure of marine bacterial strains is now in progress. These results will be used to construct enzymes with new substrate specificities and activities by comparing the enzymes of terrestrial and marine bacteria. Less
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Report
(4 results)
Research Products
(61 results)
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[Journal Article] Transcriptional regulation of the sulfate-starvation-induced gene sfnA by a o^<54>-dependent activator of Pseudomonas putida2007
Author(s)
Habe, H., Kouzuma, A., Endoh, T., Omori, T., Yamane, H. and Nojiri, H.
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Microbiology 153
Pages: 3091-3098
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[Journal Article] The ptsP gene encoding the PTS family protein EL^<Ntr> is essential for dimethyl sulfone utilization by Pseudomonas putida2007
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Kouzuma, A., Endoh, T., T., Omori, Nojiri, H., Yamane, H. and Habe, H.
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Journal Title
Microbiol Lett 275
Pages: 175-181
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[Journal Article] Transcriptional regulation of the sulfate-starvation-induced gene sfnA by a am-dependent activator of Pseudomonas putida2007
Author(s)
Habe, H., Kouzuma, A., Endoh, T., Omori, T., Yamane, H., Nojiri, H
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Journal Title
Microbiology 153
Pages: 3091-3098
Description
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[Journal Article] The ptsP gene encoding the PTS family protein EL^<Ntr> is essential for dimethyl sulfone utilization by Pseudomonas putida2007
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Kouzuma, A., Endoh, T., T., Omori, Nojiri, H., Yamane, H., Habe, H
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Journal Title
FEMS Microbiol Lett 275
Pages: 175-181
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[Journal Article] Detection of a bacterial group within the phylum Chloroflexi and reductive-dehalogenase-homologous genes in pentachlorobenzene-dechlorinating estuarine sediment from the Arakawa River,Japan2006
Author(s)
Santoh, K., Kouzuma, A., Ishizaki, R., Iwata, K., Shimura, M., Hayakawa, T., Hoaki, T., Nojiri, H., Omori, T., Yamane, H. and Habe, H.
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Journal Title
Microbes Environ 21
Pages: 154-162
NAID
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[Journal Article] Differentiation of carbazole catabolic operons by replacement of the regulated promoter viatransposition of an insertion sequence2006
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Miyakoshi, M., Urata, M., Habe, H., Omori, T., Yamane, H. and Nojiri, H.
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Journal Title
Journal of Biological Chemistry 281
Pages: 8450-8457
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[Journal Article] Characterization of the replication,maintenance,and transfer features of the Inc P-7 plasmid pCAR1,which carries genes involved in carbazole and dioxin degradation2006
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Shintani, M., Yano, H., Habe, H., Omori, T., Yamane, H., Tsuda, M. and Nojiri, H.
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Journal Title
Appl.Environ.Microbiol. 72
Pages: 3206-3216
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[Journal Article] Plasmid pCAR3 contains multiple gene sets involved in the conversion of carbazole to anthranilate2006
Author(s)
Urata, M., Uthimura, H., Noguchi, H., Sakaguchi, T., Eto, K., Habe, H., Omori, T., Yamane, H. and Nojiri, H.
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Journal Title
Appl.Environ.Microbiol. 72
Pages: 3198-3205
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[Journal Article] Differentiation of carbazole catabolic operons by replacement of the regulated promoter via transposition of an insertion sequence2006
Author(s)
Miyakoshi, M., Urata, M., Habe, H., Omori, T., Yamane, H., Nojiri, H
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Journal Title
Journal of Biological Chemistry 281
Pages: 8450-8457
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[Journal Article] Improving the catalytic efficiency of meta-cleavage product hydrolase(CumD) from Pseudomonas fluorescens IPOI2006
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So-Young, J., Fushinobu, S. Nojiri, H., Omori, T., Shoun, H., Wakagi, T
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Journal Title
Biochimica et Biophysica Acta 1764
Pages: 1159-1166
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[Journal Article] Detection of a bacterial group within the phylum Chloroflexi and reductive-dehalogenase-homologous genes in pentachlorobenzene-dechlorinating estuarine sediment from the Arakawa River, Japan2006
Author(s)
Santoh, K., Kouzuma, A., Ishizaki, R., Iwata, K., Shimura, M., Hayakawa, T., Hoaki, T., Nojiri, H., Omori, T., Yamane, H., Habe, H
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Journal Title
Microbes Environ 21
Pages: 154-162
NAID
Description
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[Journal Article] Characterization of the replication, maintenance, and transfer features of the Inc P-7 plasmid pCAR1, which carries genes involved in carbazole and dioxin2006
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Shintani, M., Yano, H., Habe, H., Omori, T., Yamane, H., Tsuda, M., Nojiri, H
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Journal Title
Appl. Environ. Microbiol 72
Pages: 3206-3216
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[Journal Article] Plasmid pCAR3 contains multiple gene sets involved in the conversion of carbazole to anthranilate degradation2006
Author(s)
Urata, M., Uthimura, H., Noguchi, H., Sakaguchi, T. Eto, K., Habe, H., Omori, T., Yamane, H., Nojiri, H
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Journal Title
Appl. Environ. Microbiol 72
Pages: 3198-3205
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[Journal Article] Detection of a bacterial group within the phylum Chloroflexi and reductive-dehalogenase-homologous genes in pentachlorobenzene-dechlorinating estuarine sediment from the Arakawa River, Japan.2006
Author(s)
Santoh, K., Kouzuma, A., Ishizaki, R., Iwata, K., Shimura, M., Hayakawa, T., Hoaki, T., Nojiri, H., Omori, T., Yamane, H., Habe, H.
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Journal Title
Microbes Environ 21,
Pages: 154-162
NAID
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[Journal Article] Improving the catalytic efficiency of meta-cleavage product hydrolase(CumD) from Pseudomonas fluorescens IP01.2006
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So-Yooung, J., Fushinobu, S., Nojiri, H., Omori, T., Shoun, H., Wakagi T.
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Journal Title
Biochimica et Biophysica Act 1764
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[Journal Article] Differentiation of carbazole catabolic operons by replacement of the regulated promoter via transposition of an insertion sequence.2006
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Miyakoshi, M., Urata, M., Habe, H., Omori, T., Yamane, H., Nojiri, H.
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[Journal Article] Characterization of the replication, maintenance, and transfer features of the Inc P-7 plasmid pCAR1, which carries genes involved in carbazole and dioxin degradation.2006
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[Journal Article] Plasmid pCAR3 contains multiple gene sets involved in the conversion of carbazole to anthranilate.2006
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[Journal Article] Characterization of [3Fe-4S] ferredoxin DbfA3, which functions in the angular dioxygenase system of Terrabacter sp. strain DBF63.2005
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[Presentation] Expression, purification, and characterization of a meta-cleavage enzyme from a marine bacterium, strain CAR-SF2008
Author(s)
Iwata, K., Nagashima, H., Zulkharnain, A., b., Fuse, H., Omni, T
Organizer
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Place of Presentation
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[Presentation] Comparison of the characteristics of meta-cleavage enzymes consisting of two subunits that are involved in the degradation of recalcitrant chemicals2006
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[Book] バイオフィルムの基礎と制御2007
Author(s)
大森 俊雄, 他
Total Pages
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Publisher
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