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Environmental Metagenome Research Team

Environmental Metagenome Research Team

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2005

[Original paper]

  1. Gab-Joo, Chee and Hideto Takami (2005) Housekeeping gene interrupted by a prokaryotic group II intron. Gene 363, 211-220

  2. Takuro Nunoura, Hisako Hirayama, Hideto Takami, Hanako Oida, Shinro Nishi, Shigeru Shimamura, Yohey Suzuki, Fumio Inagaki, Ken Takai, Kenneth H., Nealson, and Koki Horikoshi (2005) Genetic and functional properties of uncultivated thermophilic crenarchaeotes from a subsurface gold mine as revealed by analysis of genome fragments. Environ. Microbiol. 7, 1967-1984

  3. Yuichi Nogi, Hideto Takami, and Koki Horikoshi (2005) Characterization of alkaliphilic Bacillus strains used in industry: Proposal of five new species. Int. J. System. Evol. Microbiol. 55, 2309-2315

  4. Hui-Min Zhang, Zhijun Li, Mikiko Tsudome, Susumu Ito, Hideto Takami, and Koki Horikoshi (2005) An alkali-inducible flotillin-like protein from Bacillus halodurans C-125. Protein J. 24, 125-131

2004

[Original paper]

  1. Hideto Takami, Yoshihiro Takaki, Gab-Joo Chee, Shinro Nishi, Shigeru Shimamura, Hiroko Suzuki, Satomi Matsui, and Ikuo Uchiyama (2004) Thermoadaptation trait revealed by the genome sequence of thermophilic Geobacillus kaustophilus. Nucleic Acids Res. 32, 6292-6303

  2. M. Chahine, S. Pilote, V. Pouliot, H. Takami and C. Sato (2004) Role of arginine residues on the S4 segment of Bacillus halodurans Na+ channel in voltage-sensing. J. Memb. Biol. 201, 9-24

  3. Hideto Takami, Shinro Nishi, Jie Lu, Shigeru Shimamura, and Yoshihiro Takaki (2004) Genomic characterization of thermophilic Geobacillus species isolated from the deepest sea mud of the Mariana Trench. Extremophiles 8, 351-356

  4. Yoshihiro Takaki, Akiko Matsuki, Gab-Joo, Chee, and Hideto Takami (2004) Identification and distribution of new insertion sequences in the genome of extremely halotolerant and alkaliphilic Oceanobacillus iheyensis HTE831. DNA Res. 11, 233-245

  5. Hideto Takami, Akiko Matsuki, and Yoshihiro Takaki (2004) Wide-range distribution of insertion sequences identified in B. halodurans among bacilli and a new transposon disseminated in alkaliphilic and thermophilic bacilli. DNA Res. 11, 153-162

  6. Kiyotaka Fujita, Hideto Takami, Kenji Yamamoto, and Kaoru Takegawa (2004) Characterization of endo-beta-N- acetylglucosamidase from alkaliphilic Bacillus halodurans C-125. Biosci. Biotech. Biochem. 68 (5), 1059-1066

  7. Zhihao Zhuang, Feng Song, Hideto Takami, Debra Dunaway-Mariano (2004) The BH1999 protein of Bacillus halodurans C-125 is gentisyl-Coenzyme A esterase. J. Bacteriol. 186, 393-399

2003

[Book chapter]
  1. Hideto Takami (2003) Whole genome analysis of alkaliphilic Bacillus species isolated from various environments. In: Recent Advances in Marine Biotechnology vol. 10, Molecular Genetics of Marine Organisms (R. Nagabhushman and M. Fingerman eds.), Science publisher of Enfield, New Hampshire (U.S.A.) and Plymouth (UK). pp. 157-196

2002

[Original paper]
  1. Hideto Takami, Yoshihiro Takaki, and Ikuo Uchiyama (2002) Genome sequence of Oceanobacillus iheyensis isolated from the Iheya Ridge and its unexpected adaptive capabilities to extreme environments. Nucleic Acids Res. 30, 3927-3935
[Book chapter]
  1. Hideto Takami (2002) Extremophilies: Enzymes from deep-sea microorganisms. In: Encyclopedia of Life Support Systems (UNESCO), EOLSS Publishers
  2. Hideto Takami (2002) Genome analysis of alkaliphilic Bacillus species. In: Recent Research Developments in Molecular Microbiology (S. G. Pandalai ed.), Research Singnpost, India, pp. 148-173

2001

[Original paper]

  1. Takahiko Nagahama, Makiko Hamamoto, Takashi Nakase, Hideto Takami and Koki Horikoshi (2001) Distribution and identification of red yeasts in deep-sea environments around the northwest Pacific Ocean. Antonie van Leewenhoek 80, 101-110

  2. Jie Lu, Yuichi Nogi and Hideto Takami (2001) Oceanobacillus gen. nov. iheyensis sp. nov., a deep-sea extremely halotolerant and alkaliphilic species isolated from 1,050 m depth of Iheya Ridge. FEMS Microbiol. Lett. 205, 291-297

  3. Takayuki Yamaguchi, Tetsuya Hayashi, Hideto Takami, Makoto Ohnishi, Takahiro Murata, Keisuke Nakayama, Masaru Ohara, Hitoshi Komatsuzawa, and Motoyuki Sugai (2001) Complete nucleotide sequence of a Staphylococcus aureus Exfoliative Toxin B plasmid and identification of a novel ADP-ribosyltransferase, EDIN-C. Infect. Imm. 69, 7760-7771

  4. Shaobin Hou, Claude Belisle, Summer Lum, Mikhail Piatibratov, Victor Sivozhelezov, Hideto Takami, and Maqsudul Alam (2001) A globin-coupled sxygen sensor from the facultatively alkaliphilic Bacillus halodurans C-125. Extremophiles 5, 351-4

  5. Hideto Takami, Chang-Gyun Han, Yoshihiro Takaki and Eiichi Ohtsubo (2001) Identification and distribution of new insertion sequences in the whole genome of alkaliphilic Bacillus halodurans C-125. J. Bacteriol 183, 4345-4356

  6. Tetsuya Hayashi, Kozo Makino, Makoto Ohnishi, Ken Kurokawa, Kazuo Ishii, Katsushi Yokoyama, Chang-Gyun Han, Eiichi Ohtsubo, Keisuke Nakayama, Takahiro Murata, Masashi Tanaka, Toru Tobe, Tetsuya Iida, Hideto Takami, Takeshi Honda, Chihiro Sasakawa, Naotake Ogasawara, Teruo Yasunaga, Satoru Kuhara, Tadayoshi Shiba, Masahira Hattori, Hideo Shinagawa (2001) Genome sequence and comparative analysis of enterohemorrhagic E. coli O157:H7 with E. coli K-12 (Supplement). DNA Res. 8, 47-52

  7. Tetsuya Hayashi, Kozo Makino, Makoto Ohnishi, Ken Kurokawa, Kazuo Ishii, Katsushi Yokoyama, Chang-Gyun Han, Eiichi Ohtsubo, Keisuke Nakayama, Takahiro Murata, Masashi Tanaka, Toru Tobe, Tetsuya Iida, Hideto Takami, Takeshi Honda, Chihiro Sasakawa, Naotake Ogasawara, Teruo Yasunaga, Satoru Kuhara, Tadayoshi Shiba, Masahira Hattori, Hideo Shinagawa (2001) Genome sequence and comparative analysis of enterohemorrhagic E. coli O157:H7 with E. coli K-12. DNA Res. 8, 11-22

2000

[Original paper]

  1. Katsuhisa Saeki, Mitsuyoshi Okuda, Yuji Hatada, Tohru Kobayashi, Susumu Ito, Hideto Takami, and Koki Horikoshi (2000) Novel oxidatively stable subtilisin-like serine proteases from alkaliphilic Bacillus spp.: Enzymatic properties, sequences and evolutionary relationships. Biochem Biophys. Res. Com. 279, 313-319

  2. Takayuki Yamaguchi, Tetsuya Hayashi, Hideto Takami, Kaoru Nakasone, Keisuke Nakayama, Yasuo Yamada, Hitoshi Komatsuzawa, and Motoyuki Sugai (2000) Phage-conversion of exfoliative toxin A production in Staphylococcus aureus. Mol. Microbiol. 38, 694-705

  3. Hideto Takami, Kaoru Nakasone, Yoshihiro Takaki, Go Maeno, Rumie Sasaki, Noriaki Masui, Fumie Fuji, Chie Hirama, Yuka Nakamura, Naotake Ogasawara, Satoru Kuhara, and Koki Horikoshi (2000) Complete genome sequence of alkaliphilic bacterium, Bacillus halodurans and genomic sequence comparison with Bacillus subtilis. Nucleic Acids Res. 28, 4317-4331

  4. Kaoru Nakasone, Noriaki Masui, Yoshihiro Takaki, Rumie Sasaki, Go Maeno, Tokuki Sakiyama, Chie Hirama, Fumie Fuji, and Hideto Takami (2000) Characterization and comparative study on the rrn operons of alkaliphilic Bacillus halodurans C-125. Extremophiles 4, 209-214

  5. Hideto Takami and Koki Horikoshi (2000) Genome analysis of alkaliphilic Bacullus strain from an indusrial point of view. Extremophiles 4, 99-108

  6. Tokuki Sakiyama, Hideto Takami, Naotake Ogasawara, Satoru Kuhara, Kosuke Doga, Tokio Kozuki, Akira Ohyama and Koki Horikoshi (2000) An automated system for genome analysis to support microbial whole-genome shotgun sequencing. Biosci. Biotech. Biochem. 64 (3),670-673

  7. Hiroyuki Kaneko, Hideto Takami, Akira Inoue, and Koki Horikoshi (2000) Effects of hydrostatic pressure and temperature on growth and lipid composition of the inner membrane of barotolerant Pseudomonas sp. BT1 isolated from the deep-sea. Biosci. Biotech. Biochem 4, 72-79

  8. Hideto Takami, and Terry Krulwich (2000) Re-identification of fucaltatively alkaliphilic Bacillus firmus OF4 as Bacillus pseudofirmus. Extremophiles 4, 19-22

1999

[Original paper]

  1. Hideto Takami, Yuichi Nogi, and Koki Horikoshi (1999) Reidentification of keratinase-producing facultatively alkaliphilic Bacillus sp. AH-101 as Bacillus halodurans. Extremophiles 3, 293-296

  2. Hideto Takami, Yoshihiro Takaki, Kaoru Nakasone, Tokuki Sakiyama, Go Maeno, Rumie Sasaki, Fumie Fuji, Chie Hirama and Noriaki Masui (1999) Genetic analysis of the genome of alkaliphilic Bacillus halodurans C-125. Extremophiles 3, 227-233

  3. Hideki Kobayashi, Hideto Takami, Hisako Hirayama, Kuniko Kobata, Ron Usami and Koki Horikoshi (1999) Outer membrane changes in a toluene-sensitive mutant isolated from toluene-tolerant Pseudomonas putida IH-2000. J. Bacteriol. 181, (15) 4493-4498

  4. Hideto Takami, Noriaki Masui, Kaoru Nakasone, and Koki Horikoshi (1999) Replication origin region of the chromosome of alkaliphilic Bacillus sp. strain C-125. Biosci. Biotech. Biochem. 63,1134-1137

  5. Hideto Takami and Koki Horikoshi (1999) Reidentification of facultatively alkaliphilic Bacillus sp. C-125 to Bacillus halodurans. Biosci. Biotech. Biochem. 63, 943-945

  6. Hideto Takami, Yoshihiro Takaki, Kaoru Nakasone, Chie Hirama, Akira Inoue and Koki Horikoshi (1999) Sequence analysis of 32 kb fragment including the major ribosomal protein gene clusters in alkaliphilic Bacillus sp. strain C-125. Biosci. Biotech. Biochem. 63, 452-455

  7. Hideto Takami, Kuniko Kobata, Takahiko Nagahama, Hideki Kobayashi, Akira Inoue and Koki Horikoshi (1999) Biodiversity in deep-sea sites near the south part of Japan. Extremophiles 3, 97-102

  8. Hideto Takami, Kaoru Nakasone, Naotake Ogasawara, Yuka Nakamura, Chie Hirama, Fumie Fuji, Yoshihiro Takaki, Noriaki Masui, Akira Inoue, and Koki Horikoshi (1999) Sequencing of three lambda clones from the genome of alkaliphilic Bacillus sp. C-125. Extremophiles 3, 29-34

  9. Hideto Takami, Kaoru Nakasone, Chie Hirama, Noriaki Masui, Fumie Fuji, Yoshihiro Takaki, Yuka Nakamura, Akira Inoue (1999) An improved physical and genetic map of the genome of alkaliphilic Bacillus sp. C-125. Extremophiles 3, 21-28
[Book chapter]

  1. Hideto Takami (1999) New Approches and Future Scope for Deep-sea Microbiology: Genome Analysis of Facultatively Alkaliphilic Bacillus halodurans C-125. In: Extremophiles in the deep-sea environments (Horikoshi, K and Tsujii K., eds.) Springer-verlag, Tokyo, pp. 249-284

  2. Hideto Takami (1999) Biodiversity in the deep-sea environment: Isolation and Characterization of Micro-organisms from Deep-sea Mud. In: Extremophilies in the deep-sea environments (Horikoshi, and Tsujii K., eds.) Springer-verlag, Tokyo, pp. 3-26

  3. Hideto Takami, Akira Inoue, Fumie Fuji, and Koki Horikoshi (1999) Biodiversity in the deepest se mud of the Mariana Trench. JAMSTEC J. Deep Sea Res., 14, 545-552

  4. Hideki Kobayashi, Hideto Takami, Takahiko Nagahama, Akira Inoue, and Koki Horikoshi (1999) Microbial flora in deep-sea sites located near the south part of Japan. JAMSTEC J. Deep Sea Res., 15, 35-39