2006 Fiscal Year Final Research Report Summary
Total functional genomics of the hyperthermophilic archaeon, T.kodakaraensis KOD1
| Project/Area Number |
14103011
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| Research Category |
Grant-in-Aid for Scientific Research (S)
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| Allocation Type | Single-year Grants |
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| Research Field |
生物・生体工学
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| Research Institution | Kyoto University |
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Principal Investigator |
IMANAKA Tadayuki Kyoto University, Graduate School of Engineering, Professor, 工学研究科, 教授 (30029219)
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| Co-Investigator(Kenkyū-buntansha) |
KANAI Tamotsu Kyoto University, Graduate School of Engineering, Assistant Professor, 工学研究科, 助手 (10346083)
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| Project Period (FY) |
2002 – 2006
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| Keywords | hyperthermophile / archaea / Thermococcus / genome / novel metabolic pathway / comparative genomics / gene disruption / hypothetical protein |
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| Research Abstract |
The entire genome sequence of this archaeon has been determined and annotated. Gene disruption systems have been developed and improved for rapid and multiple gene disruption. A whole genome DNA microarray has also been developed for transcriptome studies. We have been able to elucidate the function of various hypothetical proteins and identify various missing genes. T.kodakaraensis can utilize a variety of organic compounds for growth, which include poly(oligo)saccharides, peptides, amino acids and pyruvate. This archaeon utilizes the modified Embden-Meyerhof pathway for glycolysis, and we have examined the enzymes involved in the conversion of glyceraldehyde 3-phosphate to 3-phosphoglycerate, and phosphoenolpyruvate to pyruvate. In terms of gluconeogenesis, we have performed a biochemical and genetic analysis on the key enzyme fructose-1,6-bisphosphatase. Enzymes involved in the production of glycogen have also been identified, as well as a novel degradation pathway for chitin. T.kodakaraensis does not harbor a complete set of genes corresponding to the pentose phosphate pathway, necessary for pentose and nucleotide synthesis in bacteria and eukaryotes. We instead found that a reverse flux of the ribulose monophosphate pathway is responsible for pentose synthesis in this organism. Through investigations on the physiological role of Type III Rubiscos, we have identified a novel pathway that may be involved in retrieving excess pentose carbon and redirecting it back to glycolysis. In terms of amino acid metabolism, we found that the five acetyl-CoA synthetase paralogs present on the genome encode acyl-CoA synthetases with distinct substrate specificities. We have also identified the regulator that is responsible for controlling glycolytic and gluconeogenic modes of growth in T.kodakaraensis.
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[Journal Article] Atomic force microscopy dissects the hierarchy of genome architectures in eukaryote, prokaryote, and chloroplast.2007
Author(s)
R.L.Ohniwa, K.Morikawa, J.Kim, T.Kobori, K.Hizume, R.Matsumi, H.Atomi, T.Imanaka, T.Ohta, C.Wada, S.H.Yoshimura, K.Takeyasu
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Journal Title
Microsc. Microanal. 13
Pages: 3-12
Description
「研究成果報告書概要(和文)」より
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[Journal Article] Atomic force microscopy dissects the hierarchy of genome architectures in eukaryote, prokaryote, and chloroplast.2007
Author(s)
R.L.Ohniwa, K.Morikawa, J.Kim, T.Kobori, K.Hizume, R.Matsumi, H.Atomi, T.Imanaka, T.Ohta, C.Wada, S.H.Yoshimura, K.Takeyasu
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Journal Title
Microsc.Microanal. 13
Pages: 3-12
Description
「研究成果報告書概要(欧文)」より
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[Journal Article] The concept of the alpha-amylase family : a rational tool for interconverting glucanohydrolases/glucanotransferases, and their specificities2006
Author(s)
T.Kuriki, H.Takata, M.Yanase, K.Ohdan, K.Fujii, Y.Terada, T.Takaha, H.Hondoh, Y.Matsuura, T.Imanaka
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Journal Title
J. Appl. Glycosci. 53
Pages: 155-161
Description
「研究成果報告書概要(和文)」より
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[Journal Article] The concept of the alpha-amylase family : a rational tool for interconverting glucanohydrolases/glucanotransferases, and their specificities".2006
Author(s)
T.Kuriki, H.Takata, M.Yanase, K.Ohdan, K.Fujii, Y.Terada, T.Takaha, H.Hondoh, Y.Matsuura, T.Imanaka
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Journal Title
J.Appl.Glycosci 53
Pages: 155-161
Description
「研究成果報告書概要(欧文)」より
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[Journal Article] Expression of acetylcholine (ACh) and ACh-synthesizing activity in Archaea.2005
Author(s)
T.Yamada, T.Fujii, T.Kanai, T.Amo, T.Imanaka, H.Nishimasu, T.Wakagi, H.Shoun, M.Kamekura, Y.Kamagata, T.Kato, K.Kawashima
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Journal Title
Life Sci. 77(16)
Pages: 1935-1944
Description
「研究成果報告書概要(和文)」より
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