(254) K.E. Fujimori, Kobayashi, Y., Sekine, T., T. Sahara, S. Ohgiya, Y. Kamagata: Whole genome sequence of an isogenic haploid strain Saccharomyces cerevisiae RI-2idA (MATa) established from the industrial diploid IR-2. Microbiology Resource Announcement 8: e00018-19 (2019).
(253) Sekine, T., Kobayashi, Y., T. Sahara, S. Ohgiya, Y. Kamagata, and K.E. Fujimori: Molecular evolutionary engineering of xylose isomerase to improve its catalytic activity and performance of micro-aerobic glucose/xylose co-fermentation in a recombinant Saccharomyces cerevisiae. Biotechnology for Biofuels 12:139 (2019).
(252) Takeuchi, M., H. Ozaki, S. Hiraoka, Y. Kamagata, S. Sakata, H. Yoshioka, and W. Iwasaki: Possible cross-feeding pathway of facultative methylotroph Methyloceanibacter caenitepidi Gela4 on Methylocaldum marinum S8. PLoS ONE 14: e0213535 (2019).
(251) Kusada, H., Y. Zhang, H. Tamaki, N. Kimura, and Y. Kamagata: A novel N-acylhomoserine lactone-degrading bacteria isolated from penicillin-contaminated environments and their quorum-quenching activities. Frontiers in Microbiol. 10: e455 (2019).
(250) Kato, S., K. Wada, W. Kitagawa, D. Mayumi, M. Ikarashi, T. Sone, K. Asano, and Y. Kamagata: Conductive iron oxides promote methanogenic acetate degradation by microbial communities in a high-temperature petroleum reservoir. 34: 95-98 (2019).
(249) Kobayashi, Y., T. Sahara, S. Ohgiya, Y. Kamagata, and K.E. Fujimori: Systematic optimization of gene expression of pentose phosphate pathway enhances ethanol production from a glucose/xylose mixed medium in a recombinant Saccharomyces cerevisiae. AMB Express 8:139 (2018).
(248) Hidalgo, C.A., M.K. Nobu, T. Narihiro, H. Tamaki, W-T Liu, Y. Kamagata, A.J.M Stams, H. Imachi, and Sousa, D.Z.: Novel energy conservation strategies and behavior of Pelotomaculum schinkii driving syntrophic propionate catabolism. Environ. Microbiol. 20: 4503-4511 (2018).
(247) Kato, S., A. Yamagishi, S. Daimon, K. Kawasaki, H. Tamaki, W. Kitagawa, A. Abe, A. Tanaka, T. Sone, K. Asano, and Y. Kamagata: Isolation of previously uncultured slow-growing bacteria by using a simple modification in preparation of agar media. Appl. Environ. Microbiol. 84: 00807-18 (2018).
(246) Mitani, Y., R. Yasuno, M. Isaka, N. Mitsuda, R. Futahashi, Y. Kamagata, and Y. Ohmiya: Novel gene encoding a unique luciferase from the fireworm Odontostyillis undecimdonta. Sci. Rep. 8: e12789 (2018).
(245) Tanka, Y., H. Tamaki, K. Tanaka, E. Tozawa, H. Matsuzawa, T. Toyama, Y. Kamagata, and K. Mori: "Duckweed-microbe co-cultivation method" for isolating a wide variety of microbes including taxonomically novel microbes. Microbe. Environ. 33: 402-406 (2018).
(244) Kusada, H., K. Kameyama, X-Y. Meng, Y. Kamagata, and H. Tamaki: Fusimonas intestini gen. nov., sp. nov., a novel intestinal bacterium of the family Lachnospiraceae associated with diabetes in mice. Sci. Rep. 7: 18087 (2017).
(243) Kawasaki, K and Y. Kamagata : Phosphate-catalyzed hydrogen peroxide formation from agar, gellan, and κ-carrageenan and recovery of microorganisms cultivability by catalase and pyruvate. Appl. Environ. Microbiol. 83: 01366-17 (2017).
(242) Tamazawa, S., D. Mayumi, H. Mochimaru, S. Sakata, H. Maeda, T. Wakayama, M. Ikarashi, Y. Kamagata : Petrothermobacter organivorans gen. nov., sp. nov., a thermophilic, strictly anaerobic bacterium of the phylum Deferribacteres isolated from a deep subsurface oil reservoir. Int. J. Syst. Evol. Microbiol., 67: 3982-3986 (2017).
(241) Tanaka, Y., H. Matsuzawa, H. Tamaki, M. Tagawa, T. Toyama, Y. Kamagata, K. Mori : Isolation of novel bacteria including rarely cultivated phyla, Acidobacteria and Verrucomicrobia, from the toots of emergent plants by simple culturing method. Microb. Environ. 32: 288-292 (2017).
(240) Takai, R., K. Shigetomi, Y. Kamagata, M. Ubukata: Growth mechanism of actinobacterial strain Leucobacter by zinc coproporphyrin. Heterocycles 95: 145-151 (2017).
(239) Mei, R., M. K. Nobu, T. Narihiro, K. Kuroda, J. M. Sierra, Z. Wu, L. Ye, P.K.H. Lee, P-H. Lee, J.B van Lier, M.J. McInerney, Y. Kamagata, W-T. Liu: Operation-driven heterogeneity and overlooked feed-associated populations in global anaerobic digester microbiome. Wat. Res. 124: 77-84 (2017).
(238) Kobayashi, Y., T. Sahara, T. Suzuki, S. Kamachi, A. Matsushika, T. Hoshino, S. Ohgiya, Y. Kamagata, K.E. Fujimori: Genetic improvement of xylose metabolism by enhancing the expression of pentose phosphate pathway genes in Saccharomyces cerevisiae IR-2 for high-temperature ethanol production. J. Ind. Microbiol. Biotechnol. 44: 879-891 (2017).
(237) Yasutake, Y., H. Kusada, T. Ebuchi, S. Hanada, Y. Kamagata, T. Tamura, N. Kimura : Bifunctional quorum-quenching and antibiotic-acylase MacQ forms a 170-kDa capsule-shaped molecule containing spacer polypeptides. Sci. Rep. 7: 8946 (2017).
(236) Kusada, H., H Tamaki, Y. Kamagata, S. Hanada, N. Kimura : A novel quorum-quenching N-acylhomoserine lactone acylase from Acidovorax sp. strain MR-S7 mediates antibiotic resistance. Appl. Environ. Microbiol. 83: e00080-17 (2017).
(235) Kato, S., Y. Kanata, W. Kitagawa, T. Sone, K. Asano, and Y. Kamagata: Restoration of the growth of Escherichia coli under K+-deficient conditions by Cs+ incorporation via the K+ transporter Kup. Sci. Rep. 7: 195 (2017).
(234) Narihiro, T. and Y. Kamagata : Genomics and metagenomics in microbial ecology: recent advances and challenges. Microb. Environ. 32: 1-4 (2017).
(233) Terashima, M., A. Yama, M. Sato, I. Yumoto, Y. Kamagata, and S. Kato : Culture-dependent and -independent identification of polyphosphate-accumulating Dechloromonas spp. predominating in a futll-scale oxidation ditch wastewater treatment plant. Microb. Environ. 31: 449-455 (2016).
(232) Tamazawa, S., K. Yamamoto, K. Takasaki, Y. Mitani, S. Hanada, Y. Kamagata, H. Tamaki : In situ gene expression responsible for sulfide oxidation and CO2 fixation of an uncultured large sausage-shaped Aquificae bacterium in a sulfidic hot spring. Microb. Environ. 31: 194-198 (2016).
(231) Iino, T., M. Ohkuma, Y. Kamagata, and S. Amachi : Iodidimonas muriae gen. nov., sp. nov., an aerobic iodide-oxidizing bacterium isolated from brine of a natural gas and iodine recovery facility, and proposals of Iodidimonadaceae fam. nov., Iodidimonadales ord. nov., Emcibacteraceae fam. nov. and Emcibacterales ord. nov. Int. J. Syst. Evol. Microbiol., published ahead of printing (2016).
(230) Mochimaru, H., H. Tamaki, T. Katayama, H. Imachi, S. Sakata, and Y. Kamagata : Methanomicrobium antiquum sp. nov., a hydrogenotrophic methanogen isolated from deep sedimentary aquifers in a natural gas field. Int. J. Syst. Evol. Microbiol., 66: 4873-4877 (2016).
(229) Mayumi, D., H. Mochimaru, H. Tamaki, K. Yamamoto, H. Yoshioka, Y. Suzuki, Y. Kamagata and S. Sakata : Methane production from coal by a single methanogen. Science, 354: 222-225 (2016).
(228) Kimura, N. and Y. Kamagata: A thermostable bilirubin-oxidizing enzyme from activated sludge isolated by a metagenomic approach. Microb. Environ., 31: 435-441. (2016).
(227) Tani, T., H. Taguchi, K. E. Fujimori, T. Sahara, S. Ohgiya, Y. Kamagata, and T. Akamatsu: Isolation and characterization of xylitol-assimilating mutants of recombinant Saccharomyces cerevisiae. J. Biosci. Bioeng., 122: 446-455 (2016).
(226) Shinzato, N., H. Aoyama, S. Saitoh., N. Nikoh., K. Nakano., M. Shimojo., M. Shinzato, K. Satou, K. Teruya, T. Hirano, T. Yamada, M.K. Nobu, H. Tamaki, Y. Shirai, S. Park, T. Narihiro, W-T. Liu and Y. Kamagata: Complete genome sequence of the intracellular bacterial symbiont TC1 in the anaerobic ciliate Trimyema compressum. Genome Announcements 5: e-01032-16 (2016).
(225) Y. Kamagata and T. Narihiro : Symbiosis studies in microbial ecology. Microb. Environ., 31: 201-202. (2016).
(224) Narihiro, T., M. K. Nobu, H. Tamaki, Y. Kamagata, Sekiguchi, Y., and W-T. Liu : Comparative genomics of syntrophic branched-chain fatty acid degrading bacteria. Microb. Environ., 31: 288-292. (2016).
(223) Narihiro, T., M. K. Nobu, H. Tamaki, Y. Kamagata, and W-T. Liu : Draft Genome Sequence of Syntrophomonas wolfei subsp. methylbutyratica strain 4J5T (JCM 14075), a mesophilic butyrate- and 2-methylbutyrate-degrading syntroph. Genome Announcements 4: e-00047-16 (2016).
(222) Tani, T., H. Taguchi, K. E Fujimori, T. Sahara, S. Ohgiya, Y. Kamagata, T. Akamatsu : Isolation and characterization of xylitol-assimilating mutants of recombinant Saccharomyces cerevisiae. J. Biosci. Bioeng., published ahead of printing (2016).
(221) Kato, S., E. Goya, M. Tanaka, W. Kitagawa, Y. Kikuchi, K. Asano, and Y. Kamagata : Enrichment and isolation of Flavobacterium strains with tolerance to high concentrations of cesium ion. Scientific Rep., 6 (2016).
(220) Nazrul Bhuiyan, M., R. Takai, S. Mitsuhashi, K. Shigetomi, Y. Tanaka, Y. Kamagata, and M. Ubukata : Novel growth factors released by Sphingopyxis sp. enable laboratory cultivation of previously uncultured Leucobacter sp. through interspecies mutualism. J. Antibiotics. 69: 97-103 (2016).
(219) Kanno, M., P. Constant, P., H. Tamaki, and Y. Kamagata : Detection and isolation of plant-associated bacteria scavenging atmospheric molecular hydrogen. Environ. Microbiol., in press (2016).
(218) Kato, S., K. Chino, N. Kamimura, E. Masai, I. Yumoto, and Y. Kamagata : Methanogenic degradation of lignin-derived monoaromatic compounds by microbial enrichments from rice paddy field soil. Scientific Rep., 5 (2015).
(217) Ohbayashi, T., K. Takeshita, W. Kitagawa, N. Nikoh, R. Koga, X-Y. Meng, K. Tago, T. Hori, M. Hayatsu, K. Asano, Y. Kamagata, B.L. Lee, T. Fukatsu, and Y. Kikuchi : Insect's intestinal organ for symbiont sorting. Proc. Natl. Acad. Sci. USA, 117 (37): e5179-5188 (2015).
(216) Nazrul, M.I.B., R. Takai, S. Mitsuhashi, K. Shigetomi, Y. Tanaka, Y. Kamagata, and M. Ubukata : Zincmethylphyrins and coproporphyrins, novel growth factors released by Sphingopyxis sp., enable laboratory cultivation of previously uncultured Leucobacter sp. through interspecies mutualism. J. Antibiotics in press (2015).
(215) Kato, S., K. Chino, N. Kamimura, E. Masai, I. Yumoto, and Y. Kamagata : Methanogenic degradation of lignin-derived monoaromatic compounds by microbial enrichments from rice paddy field soil. Sci. Rep., 5 (2015).
(214) Narihiro, T., M.K. Nobu, N‐K. Kim, Y. Kamagata, and W‐T. Liu : The nexus of syntrophy-associated microbiota in anaerobic digestion revealed by long-term enrichment and community survey. Environ. Microbiol., 17 (6) : 1707-1720 (2015).
(213) Hori, T., T. Aoyagi, H. Itoh, T. Narihiro, A. Oikawa, K. Suzuki, A. Ogata, M. W. Friedrich, R. Conrad, and Y. Kamagata : Isolation of microorganisms involved in reduction of crystalline iron (III) oxides in natural environments. Frontiers in Microbiol., 6 (May) : e368 (2015).
(212) Kanno, M., T. Katayama, N. Morita, H. Tamaki, S. Hanada and Y. Kamagata : Catenisphaera adipataccumulans gen. nov., sp. nov., a member of the family Erysipelotrichaceae isolated from an anaerobic digester. Int. J. Syst. Evol. Microbiol., 65 (3) : 805-810 (2015).
(211) Puspita, I.D., W. Kitagawa, Y. Kamagata, M. Tanaka, and C.H. Nakatsu : Increase in bacterial colony formation from a erpmafrost ice wedge dosed with a Tomitella biformata recombinant resuscitation-promoting factor protein. Microb. Environ. published ahead of printing in Apr (2015).
(210) Takeuchi, M., T. Yamagishi, Y. Kamagata, K. Oshima, M. Hattori, T. Katayama, S. Hanada, H. Tamaki, K. Marumo, H. Maeda, M. Nedachi, W. Iwasaki, Y. Suwa, and S. Sakata : Tepidicaulis marinus gen. nov., sp. nov., a novel marine bacterium reducing nitrate to nitrous oxide strictly under microaerobic conditions. Int. J. Syst. Evol. Microbiol., published ahead of printing in March (2015).
(209) Katayama, T., H. Yoshioka, Y. Muramoto, J. Usami, K. Fujiwara, S. Yoshida, Y. Kamagata, and S. Sakata : Physicochemical impacts associated with natural gas development on methanogenesis in deep sand aquifers. ISME J. 9 (2): 436-446 (2015).
(208) Nobu, M.K., T. Narihiro, C. Rinke, Y. Kamagata, S.G. Tringe, T. Woyke, and W-T. Liu : Microbial dark matter ecogenomics reveals complex synergistic networks in a methanogenic bioreactor. ISME J., published ahead of printing in Jan (2015).
(207) Kanno, M., H. Tamaki, Y. Mitani, N. Kimura, S. Hanada, and Y. Kamagata : pH-induced change in cell susceptibility to butanol in a high butanol-tolerant bacterium, Enterococcus faecalis strain CM4A. Biotechnology for Biofules, 8 (1): e69 (2015).
(206) Kato, S., I. Yumoto, and Y. Kamagata : Isolation of acetogenic bacteria that induce biocorrrosion by utilizing metallic irons as the sole electron donor. Appl. Environ. Microbiol., 81 (1): 67-73 (2015).
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(205) Mori, K. and Y. Kamagata : The challenges for studying the anaerobic world. Microb. Environ. 29 (4): 335 (2014).
(204) Tanaka, T., K. Kawasaki, S. Daimon, W. Kitagawa, K. Yamamoto, H. Tamaki, M. Tanaka, C.H. Na-katsu, and Y. Kamagata : A hidden pitfall in the preparation of agar media undermines microor-ganisms cultivability. Appl. Environ. Microbiol., 80 (24): 7659-7666 (2014).
(203) Kato, S., R. Yoshida, T. Yamaguchi, T. Sato, I. Yumoto, and Y. Kamagata : The effects of elevated CO2 concentration on compettitive interaction between aceticlastic and syntrophic methanogenesis in a model microbial consortium. Frontiers in Microbiol., 5 (Oct) : e575 (2014).
(202) Kakizawa, S., A. Makino, Y. Ishii, H. Tamaki, and Y. Kamagata : Draft genome sequence of "Candi-datus Phytoplasma asteris" strain OY-V, an unculturable plant-pathogenic bacterium. Genome Announcements 2 (Oct) : e-00994-14 (2014).
(201) Yamamoto, K., H. Tamaki, H. Cadillo-Quiroz, H. Imachi, N. Kyrpides, T. Woyke, L. Goodwin, S. H. Zinder, Y. Kamagata, and W-T. Liu : Complete genome sequence of Methanolinea tarda NOBI-1T, a hydrogenotrophic methanogen isolated from a methanogenic digester sludge. Genome Announcements 2 (Oct) : e-00876-14 (2014).
(200) Yamamoto, K., H. Tamaki, H. Cadillo-Quiroz, H. Imachi, N. Kyrpides, T. Woyke, L. Goodwin, S. H. Zinder, Y. Kamagata, and W-T. Liu : Complete genome sequence of Methanoregula formicica SMSPT, a mesophilic hydrogenotrophic methanogen isolated from a methanogenic upflow anaerobic sludge blanket reactor. Genome Announcements 2 (Oct) : e-00870-14 (2014).
(199) Itoh, H., M. Aita, A. Nagayama, X-Y. Meng, Y. Kamagata, R. Navarro, T. Hori, S. Ohgiya, and Y. Kikuchi : Evidence of environmental and vertical transmission of Burkholderia symbionts in the oriental chinch bug, Cavelerius saccharivorus (Heteroptera: Blissidae). Appl. Environ. Microbiol., 80 (19): 5974-5983 (2014).
(198) Takeuchi, M., Y. Kamagata, K. Oshima, S. Hanada, H. Tamaki, K. Marumo, H. Maeda, M. Nedachi, M. Hattori, W. Iwasaki, and S. Sakata : Methylocaldum marinum sp. nov., a novel thermotolerant methane oxidizing bacterium isolated from marine sediments. Int. J. Syst. Evol. Microbiol., 64 (9): 3240-3246 (2014).
(197) Narihiro, T., H. Tamaki, A. Akiba, K. Takasaki, K. Nakano, Y. Kamagata, S. Hanada, and T. Maji : Microbial community structure of relict niter-beds previously used for saltpeter production. PLOS One 9 (8): e104752 (2014).
(196) Yamada, K., Y. Okuno, X-Y. Meng, H. Tamaki, Y. Kamagata, and S. Hanada : Granulicella cerasi sp. nov., an acidophilic bacterium isolated from cherry bark. Int. J. Syst. Evol. Microbiol., 64 (8) : 2781-2785 (2014).
(195) Wang, H., T. Narihiro, A. Straub, C. Pugh, H. Tamaki, J. Moor, J. Bradley, Y. Kamagata, W-T. Liu, and T. Nguyen : MS2 Bacteriophage reduction and microbial communities in biosand filters. Environ. Sci. Technol., 48 (12) (June) : 6702-6709 (2014).
(194) Narihiro, N., A. Suzuki, K. Yoshimune, T. Hori, T. Hoshino, I. Yumoto, A. Yokota, N. Kimura, and Y. Kamagata : Combination of functional metagenomics and oil-fed enrichment strategy revealed the phylogenetic diversity of lipolytic bacteria overlooked by cultivation-based method. Microb. Environ., 29 (2) : 154-161 (2014).
(193) Qiu, Y-L., S. Hanada, Y. Kamagata, R-B. Guo, and Y. Sekiguchi : Lactivibrio alcoholicus gen. nov., sp. nov., an anaerobic, mesophilic lactate-, alcohol-, carbohydrate- and amino-acid-degrading bacterium in the phylum Synergistetes. Int. J. Syst. Evol. Microbiol., 64 (6) : 2137-2145 (2014).
(192) Katayama, T., H. Yoshioka, H. Mochimaru, X-Y. Meng, Y. Muramoto, J. Usami, H. Ikeda, Y. Kamagata, and S. Sakata : Methanohalophilus levihalophilus sp. nov., a slightly halophilic, methylotrophic methanogen isolated from natural gas-bearing deep aquifers, and an emended description of the genus Methanohalophilus. Int. J. Syst. Evol. Microbiol., 64 (6) : 2089-2093 (2014).
(191) Kato, S., K. Sasaki, K. Watanabe, I. Yumoto, and Y. Kamagata : Physiological and transcriptomic analyses of a thermophilic, aceticlastic methanogen Methanosaeta thermophila responding to ammonia stress. Microb Environ., 29 (2) : 162-167 (2014).
(190) Suzuki, S., J.G. Kuenen, K. Schipper, S. van der Velde, S. Ishii, A. Wu, D.Y. Sorokin, A. Tenney, X-Y. Meng, P.L. Morrill, Y. Kamagata, G. Muyzer and K.H. Nealson : Physiological and genomic features of highly alkaliphilic hydrogen-utilizing Betaproteobacteria from a continental serpentinizing site. Nature Commun., 5 (May) : e4900 (2014).
(189) Kugo, T., W. Kitagawa, Y. Shimomura, T. Yamagishi, M. Tanaka, T. Sone, K. Asano, and Y. Kamagata : Draft genome sequence of a methanol Utilizer Methylophilus sp. strain OH31, isolated from a pond sediment in Hokkaido, Japan. Genome Announcements 2 (May) : e-00274-14 (2014).
(188) Nobu, M.K., T. Narihiro, H. Tamaki, Y-L. Qiu, T. Woyke, L. Goodwin, K.W. Davenport, Y. Kamagata, and W-T. Liu : The genome of Syntrophorhabdus aromaticivorans strain UI provides new insights for syntrophic aromatic compound metabolism and electron flow. Environ Microbiol., published ahead of printing in April (2014).
(187) Hanada, S., H. Tamaki, K. Nakamura, and Y. Kamagata : Crenotalea thermophila gen. and sp. nov. isolated from a Japanese hot spring. Int. J. Syst. Evol. Microbiol., 64 (4) : 1359-1364 (2014).
(186) Kakizawa, S. and Y. Kamagata : A multiplex-PCR method for strain identification and detailed phylogenetic analysis of AY-group phytoplasmas. Plant Disease, 98 (3) : 299-305 (2014).
(185) Sahara, T., K. E. Fujimori, M. Nezuo, M. Tsukahara, Y. Tochigi, S. Ohgiya, Y-Q. Tang, K. Kida, H. Taguchi, T. Akamatsu, and Y. Kamagata : Draft genome sequence of Saccharomyces cerevisiae NAM34-4C, a lactic acid-assimilating industrial yeast strain. Genome Announcements 2 (1) (Feb) : e-01145-13 (2014).
(184) Sahara, T., K. Fujimori, M. Nezuo, M. Tsukahara, Y. Tochigi, S. Ohgiya, and Y. Kamagata : Draft genome sequence of Saccharomyces cerevisiae IR-2, a useful industrial strain for highly efficient production of bioethanol. Genome Announcements. 2 (1) (Feb) : e01160-13 (2014).
(183) Funo, K., W. Kitagawa, M. Tanaka, T. Sone, K. Asano, and Y. Kamagata : Draft genome sequence of Tomitella biformata AHU 1821T, isolated from a permafrost ice wedge in Alaska. Genome Announcements 2 (1) (Feb) : e-00066-14 (2014).
(182) Nobu, M.K., T. Narihiro, H. Tamaki, Y-L. Qiu, Y. Sekiguchi, T. Woyke, L. Goodwin, K. Davenport, Y. Kamagata, and W-T. Liu : Draft genome sequence of Syntrophorhabdus aromaticivorans strain UI, a mesophilic aromatic compound degrading syntroph. Genome Announcements 2 (1) (Feb) : e-01064-13 (2014).
(181) Katayama, T., M. Kanno, N. Morita, T. Hori, T. Narihiro, Y. Mitani and Y. Kamagata : An oleaginous bacterium that intrinsically accumulates long-chain free fatty acids in its cytoplasm. Appl. Environ. Microbiol., 80 (3) : 1126-1131 (2014).
(180) Takeuchi, M.,T. Katayama, T. Yamagishi, S. Hanada, H. Tamaki, Y. Kamagata, K. Oshima, M. Hattori, K. Marumo, M. Nedachi, H. Maeda, Y. Suwa, and S. Sakata : Methyloceanibacter caenitepidi gen. nov., sp. nov., a novel facultatively methylotrophic bacterium isolated from marine sediments near the hydrothermal vent area. Int. J. Syst. Evol. Microbiol., 64 (2): 462-468 (2014).
(179) Kusada, H., S. Hanada, Y. Kamagata, and N. Kimura : The effects of N-acylhomoserine lactones, β-lactam antibiotics and adenosine on biofilm formation in the multi-β-lactam antibiotic-resistant bacterium Acidovorax sp. strain MR-S7. J. Biosci. Bioeng., 118 (1) : 14-19 (2014).
(178) Kanno, M., T. Katayama, H. Tamaki, Y. Mitani, X-Y. Meng, T. Hori, T. Narihiro, N. Morita, T. Hoshino, I. Yumoto, N. Kimura, S. Hanada, and Y. Kamagata : Isolation of butanol- and isobutanol-tolerant bacteria and physiological characterization of their butanol tolerance. Appl. Environ. Microbiol., 79 (22) : 6998-7005 (2013).
(177) Miura, T., H. Kusada, Y. Kamagata, S. Hanada, and N. Kimura : Genome sequence of the multiple β-lactam antibiotic resistant bacterium Acidovorax sp. strain MR-S7. Genome Announcements 1: e00412-13 (Aug) (2013).
(176) Narihiro, T., and Y. Kamagata : Cultivating yet-to-be cultivated microbes: the challenge continues. Microb. Environ., 28 (2) : 163-165 (2013).
(175) Mayumi, D., J. Dolfing, S. Sakata, H. Maeda, Y. Miyagawa, M. Ikarashi, H. Tamaki, M. Takeuchi, C.H. Nakatsu, and Y. Kamagata : Carbon dioxide concentration dictates alternative methanogenic pathways in oil reservoirs. Nature Commun., 4: e1998 (June) (2013).
(174) Puspita, I.D., M. Uehara., T. Ka, Y. Kamagata, M. Tanaka, K. Asano, and C.H. Nakatsu : Resuscitation promoting factor (Rpf) from Tomitella biformata AHU 1821T promotes growth and resuscitates non-dividing cells. Microb. Environ., 28 (1) : 58-64 (2013).
(173) Nakamura, K., A. Takahashi, C. Mori, H. Tamaki, H. Mochimaru, K. Nakamura, K. Takamizawa, and Y. Kamagata : Methanothermobacter tenebrarum sp. nov., a hydrogenotrophic thermophilic methanogen isolated from gas-associated formation water of a natural gas field in Japan. Int. J. Syst. Evol. Microbiol., 63 (2) : 715-722 (2013).
(172) Qiu, Y-L., M. Muramatsu, S. Hanada, Y. Kamagata, R-B. Guo, and Y. Sekiguchi : Oligosphaera ethanolica gen. nov., sp. nov., an anaerobic, carbohydrate-fermenting bacterium isolated from methanogenic sludge, and description of the Oligosphaeria classis nov. in the bacterial phylum Lentisphaerae. Int. J. Syst. Evol. Microbiol., 63 (2) : 533-539 (2013).
(171) Takasaki, K., M. Kanno, T. Miura, H. Tamaki, S. Hanada, Y. Kamagata, and N. Kimura : Discovery of glycoside hydrolase enzymes from an Avicel-adapted forest soil eukaryotic community revealed by a metatranscriptomic approach. PLoS ONE., 8: e 55485 (Feb) (2013).
(170) Li, H., Y. Zhang, M. Yang, and Y. Kamagata : Effects of hydraulic retention time on nitrification activities and population dynamics of a conventional activated sludge system. Frontiers Environ. Sci. Eng., 7 (Feb) : 43-48 (2013).
(169) Tamazawa, S., K. Takasaki, H. Tamaki, Y. Kamagata, and S. Hanada : Metagenomic and biochemical characterizations of sulfur oxidation metabolism in uncultured large sausage-shaped bacterium in hot spring microbial mats. PLoS ONE., 7: e 49793 (2012).
(168) Nasuno, E., N. Kimura, M.J. Fujita, C.H. Nakatsu, Y. Kamagata, and S. Hanada : Phylogenetically novel LuxI/LuxR-type quorum sensing systems isolated using a metagenomic approach. Appl. Environ. Microbiol., 78: 8067-8074 (2012).
(167) Kawakoshi, A., H. Nakazawa, J. Fukada, M. Sasagawa, Y. Katano, S. Nakamura, A. Hosoyama, H. Sasaki, S. Hanada, Y. Kamagata, K. Nakamura, S. Yamazaki, and N. Fujita : Deciphering the genome of polyphosphate accumulating actinobacterium Microlunatus phosphovorus. DNA Research., 19: 383-394 (2012).
(166) Puspita, I.D., Y. Kamagata, M. Tanaka, K. Asano, and C.H. Nakatsu : Are uncultivated bacteria really uncultivable? Microb. Environ., 27: 356-366 (2012).
(165) Mori, K., T. Iino, K-I. Suzuki, K. Yamaguchi, and Y. Kamagata : Aceticlastic and NaCl-requiring methanogen "Methanosaeta pelagica" sp. nov., isolated from marine tidal flat sediment. Appl. Environ. Microbiol., 78: 3416-3423 (2012).
(164) Narihiro, T., T. Terada, A. Ohashi, Y. Kamagata, K. Nakamura, and Y. Sekiguchi : Quantitative detection of previously characterized syntrophic bacteria in anaerobic wastewater treatment systems by sequence-specific rRNA cleavage method. Wat. Res., 46: 2167-2175 (2012).
(163) Tamaki, H., Zhang, R., Angly, F. E., Nakamura, S., Hong, P-Y., Yasunaga, T., Y. Kamagata, and W-T. Liu : Metagenomic analysis of DNA viruses in a wastewater treatment plant in tropical climate. Environ. Microbiol., 14: 441-452 (2012).
(162) Matsuura, Y., Y. Kikuchi, T. Hosokawa, R. Koga, X-Y. Meng, Y. Kamagata, N. Nikoh, and T. Fukatsu : Evolution of symbiotic organs and endosymbionts in lygaeid stinkbugs. The ISME J., 6: 397-409 (2012).
(161) Watanabe, T., M. Kanno, M. Tagawa, H. Tamaki, and Y. Kamagata : Primary simple assays of cellulose-degrading fungi. Mycoscience, 53: 45-48 (2012).
(160) Tanaka, Y., H. Tamaki, Matsuzawa, H., Nigaya, M., Y. Kamagata, and K. Mori : Microbial community analysis in the roots of aquatic plants and isolation of novel microbes including an organism of the Candidate Phylum OP10. Microb. Environ., 27: 149-157 (2011).
(159) Tamaki, H., C. L. Wright, X. Li, Q. Lin, C. Hwang, S. Wang, J. Thimmapuram, Y. Kamagata, and W-T. Liu : Analysis of 16S rRNA amplicon sequencing options on the Roche/454 Next-Generation Titanium Sequencing platform. PLoS ONE., 6: e25263 (2011).
(158) Enoki, M., N. Shinzato, H. Sato, K. Nakamura, and Y. Kamagata : Comparative proteomic analysis of Methanothermobacter themautotrophicus ΔH in pure culture and in co-culture with a butyrate-oxidizing bacterium. PLoS ONE., 6: e24309 (2011).
(157) Nakamura, K., H. Tamaki, M.S. Kang, H. Mochimaru, S-T Lee, K. Nakamura, and Y. Kamagata : A six-well plate method: less laborious and effective method for cultivation of obligate anaerobic microorganisms. Microb. Environ., 26: 301-306 (2011).
(156) Narihiro, T., T. Hori, O. Nagata, T. Hoshino, I. Yumoto, and Y. Kamagata : The impact of aridification and vegetation type on changes in the community structure of methane-cycling microorganisms in Japanese wetland soils. Biosci. Biotechnol. Biochem., 75: 1727-1734 (2011).
(155) Takeuchi, M., H. Yoshioka, Y. Seo, S. Tanabe, H. Tamaki, Y. Kamagata, H.A. Takahashi, S. Igari, D. Mayumi, and S. Sakata: A distinct subgroup of ANME-1 dominates active archaeal communities in terrestrial freshwater subsurfaces in Japan. Environ. Microbiol., 13: 3206-3218 (2011).
(154) Takeuchi, M., Y. Kawabe, E. Watanabe, T. Oiwa, M. Takahashi, K. Nanba, Y. Kamagata, S. Hanada, Y. Ohko, and T. Komai : Cmparative study of microbial dechlorination of chlorinated ethenes in an aquifer and a clayey aquitard. J. Contaminant Hydrology, 124: 14-24 (2011).
(153) Yamada, T., K. Kikuchi, T. Yamauchi, K. Shiraishi, T. Ito, S. Okabe, A. Hiraishi, A. Ohashi, H. Harada, Y. Kamagata, K. Nakamura, and Y. Sekiguchi : Ecophysiology of uncultured filamentous anaerobes belonging to the phylum KSB3 as causative agents of bulking in methanogenic granular sludge. Appl. Environ. Microbiol., 77: 2081-2087 (2011).
(152) Mayumi, D., H. Mochimaru, H. Yoshioka, S. Sakata, H. Maeda, Y. Miyagawa, M. Ikarashi, M. Takeuchi, and Y. Kamagata : Evidence for syntrophic acetate oxidation coupled to hydrogenotrophic methanogenesis in the high-temperature petroleum reservoir of Yabase oil field (Japan). Environ. Microbiol., 13: 1995-2006 (2011).
(151) Tamaki, H., Y. Tanaka, H. Matsuzawa, M. Muramatsu, X-Y. Meng, S. Hanada, K. Mori, and Y. Kamagata : Armatimonas rosea gen. nov., sp. nov., a Gram-negative, aerobic, chemoheterotrophic bacterium of a novel bacterial phylum, Armatimonadetes phyl. nov., formerly called the candidate phylum OP10. Int. J. Syst. Evol. Microbiol., 61: 1442-1447 (2011).
(150) Elsaied, H., H. W. Stokes, K. Kitamura, Y. Kurusu, Y. Kamagata, and A. Maruyama : Marine integrons containing novel integrase genes, attachment sites, attI, and associated gene cassettes in polluted sediments from Suez and Tokyo Bays. The ISME J. 5: 1162-1177 (2011).
(149) Okabe, S., M. Oshiki, Y. Kamagata, N. Yamaguchi, M. Toyofuku, Y. Yawata, Y. Tashiro, N. Nomura, H. Ohta, M. Ohkuma, A. Hiraishi and K. Minamisawa : A great leap forward in microbial ecology. Microb. Environ., 25: 230-240 (2010).
(148) Tamaki, H., T. Matsuoka, I. Yoshioka, S. Imamura, S. Hanada, Y. Kamagata, K. Nakamura, and S. Sakasegawa : A novel multi-copper oxidase with urate oxidase activity from Lysobacter sp. T-15: a new member of the multi-copper oxidase family. J. Biochem., 148: 481-489 (2010).
(147) Uyeno Y., Y. Sekiguchi, and Y. Kamagata : rRNA-based analysis to monitor succession of faecal bacterial communities in Holstein calves. Lett. Appl. Microbiol., 51: 570-577 (2010).
(146) Matsuzawa, H., Y. Tanaka, H. Tamaki, Y. Kamagata, and K. Mori : Isolation of a variety of novel microbes belonging to the phylum Verrucomicrobia from the rhizoplane of giant duckweed (Spirodela polyrrhiza). Microb. Environ., 25: 302-308 (2010).
(145) Aino, K., T. Narihiro, K. Minamida, Y. Kamagata, K. Yoshimune, and I. Yumoto : Bacterial community characterization and dynamics of indigo fermentation. FEMS Microbiol. Ecol., 74: 174-183 (2010).
(144) Gu, X., Y. Zhang, J. Zhang, M. Yang, H. Tamaki, and Y. Kamagata, D. Li : Isolation of phylogenetically diversenonylphenol ethoxylate-degrading bacteria and characterization of their corresponding biotransformation pathways. Chemosphere 80: 216-222 (2010).
(143) Uyeno Y., Y. Sekiguchi, K. Tajima, A. Takenaka, M. Kurihara, and Y. Kamagata : An rRNA-based analysis for evaluating the effect of heat stress on the rumen microbial composition of Holstein heifers. Anaerobe 16: 27-33 (2010).
(142) Tagawa, M., H. Tamaki, A. Manome, O. Koyama, and Y. Kamagata : Isolation and characterization of antagonistic fungi against potato scab pathogens from potato field soils. FEMS Microbiol. Lett., 305: 136-142 (2010).
(141) Kormas, K. Ar., H. Tamaki, S. Hanada, and Y. Kamagata : Apparent richness and community composition of Bacteria and Archaea in geothermal springs. Aquat. Microb. Ecol., 57: 113-122 (2009).
(140) Sakai, S., H. Imachi, Y. Sekiguchi, I-Cheng Tseng, A. Ohashi, H. Harada, and Y. Kamagata : Cultivation of methanogens under low hydrogen conditions by using the coculture method. Appl. Environ. Microbiol., 75: 4892-4896 (2009).
(139) Kimura, N. and Y. Kamagata : Impact of dibenzofuran / dibenzo-p-dioxin amend-ment on bacterial community from forest soil and ring-hydroxylating dioxygenase gene populations. Appl. Microbiol. Biotechnol., 84: 365-473 (2009).
(138) Yamada, K., H. Akimoto, Y. Ogawa, T. Kinumi, Y. Kamagata, Y. Ohmiya : Upregulation of immunity-related GTPase (IRG) proteins by TNF-alpha in murine astrocytes. Biochem. Biophys. Res. Commun., 382: 434-439 (2009).
(137) Tamaki, H., S. Hanada, Y. Sekiguchi, Y. Tanaka, and Y. Kamagata : Effect of gel-ling agent on colony formation in solid cultivation of microbial community in lake sediment. Environ. Microbiol., 11: 1827-1834 (2009).
(136) Iguchi, A., T. Terada, T. Narihiro, T. Yamaguchi, Y. Kamagata,Y. Sekiguchi : In situ detection and quantification of uncultured members of the phylum Nitrospirae that reside in methanogenic wastewater treatment systems in abundance. Microb. Environ., 24: 97-104 (2009).
(135) Narihiro, T., T. Terada, K. Kikuchi, A. Iguchi, M. Ikeda, T. Yamaguchi, K. Shiraishi, Y. Kamagata, K. Nakamura, and Y. Sekiguchi : Compatative analysis of bacterial and archaeal communities in methanogenic sludge granules from upflow anaerobic sludge blanket reactors treating various food-processing, high-strength organis wastewaters. Microb. Environ., 24: 88-96 (2009).
(134) Narihiro, T., T. Terada, A. Ohashi, J-H Wu, W-T, Liu, N. Araki, Y. Kamagata, K. Nakamura, and Y. Sekiguchi : Quantitative detection of culturable methanogenic archaea abundance in anaerobic treatment systems using the sequence-specific rRNA cleavage method. The ISME J., 3: 522-535 (2009).
(133) Kikuchi, Y., T. Hosokawa, N. Nikoh, X-Y. Meng, Y. Kamagata and T. Fukatsu : Host-symbiont co-speciation and reductive genome evolution in gut symbiotic bacteria of acanthosomatid stinkbugs. BMC Biology, 7: 2 (2009).
(132) Takeuchi, M., S. Hanada, H. Tamaki, S. Tanabe, M. Uchiyama, T. Nakazawa, Y. Miyachi, Y. Kamagata, T. Komai, and K. Kimura : Bacterial and archaeal 16S rRNA genes in Late Pleistocene to Holocene muddy sediments from the Kanto Plain of Japan. Geomicrobiol. J., 26: 104-118 (2009).
(131) Mochimaru, H, H. Tamaki, S. Hanada, H. Imachi, K. Nakamura, S. Sakata1 and Y. Kamagata : Methanolobus profundi sp. nov., a new methylotrophic methanogen isolated from deep subsurface sediments in a natural gas field. Int. J. Syst. Evol. Microbiol., 58: 714-718 (2009).
(130) Tagawa, M., H. Tamaki, A. Manome, O. Koyama, and Y. Kamagata : Development of genotyping method for potato scab pathogens based on multiplex PCR. Biosci. Biotechnol. Biochem., 72: 2324-2334 (2008).
(129) Sekiguchi, Y., M. Muramatsu, H. Imachi, T. Narihiro, A. Ohashi, H. Harada, S. Hanada, and Y. Kamagata : Thermodesulfovibrio aggregans and Thermodesulfovibrio fermentans sp. nov., two anaerobic, thermophilic, sulfate-reducing bacteria isolated from thermophilic methanogenic sludges. Int. J. Syst. Evol. Microbiol., 58: 2541-2548 (2008).
(128) Shinzato, N., M. Enoki, H. Sato, K. Nakamura, T. Matsui, and Y. Kamagata : Specific DNA binding of a potential transcriptional regulator, IMPDH-related protein VII, to the promoter region of MCRI-coding operon retrieved from Methanothermobacter thermautotrophicus strainΔH. Appl. Environ. Microbiol., 74: 6239-6247 (2008).
(127) Manome, A., A. Kageyama, S. Kurata,T. Yokomaku, O. Koyama, T. Kanagawa, H. Tamaki, M. Tagawa, and Y. Kamagata : Quantification of potato scab pathogens in soil by quantitative competitive PCR with fluorescent quenching-based probes. Plant Pathology, 57: 887-896 (2008).
(126) Xin, G.U., Y. Zhang, J. Zhang, M. Yang, H. Tamaki, and Y. Kamagata : Degradation behaviors of nonylphenol ethoxylates by isolated bacteria using improved isolation method. J. Environ. Sci., 20: 1025-1028 (2008).
(125) Yoshioka, H., S. Sakata, and Y. Kamagata : Hydrogen isotope fractionation by Methanothermobacter thermautotrophicus in coculture and pure culture conditions. Geochim. Cosmochim. Acta, 72: 2687-2694 (2008).
(124) Hu, J., J. Shi, H. Chang, D. Li, M. Yang, and Y. Kamagata : Phenotyping and genotyping of antibiotic-resistance Escherichia coli isolated from Beijing River Basin, North China. Environ. Sci. Technol., 42: 3415-3420 (2008).
(123) Sakai, S., H. Imachi, S. Hanada, A. Ohashi, H. Harada, and Y. Kamagata : Methanocella paludicola gen. nov., sp. nov., a methane producing archaeon that is the first isolate of the lineage 'Rice Cluster I' , and proposal of the new archaeal order Methanocellales ord. nov. Int. J. Syst. Evol. Microbiol., 58: 929-936 (2008).
(122) Qiu, Y-L., S. Hanada, A. Ohashi, H. Harada, and Y. Kamagata, and Y. Sekiguchi : Syntrophorhabdus aromatica gen. nov., sp. nov., the first cultured representative of Syntrophorhabdaceae fam. nov. in the class Deltaproteobacteria: an anaerobe capable of degrading phenol into acetate in syntrophic associations with a hydrogenotrophic methanogen. Appl. Environ. Microbiol., 74: 2051-2058 (2008).
(121) Zhang Y., K. Sei, T. Toyama, M. Ike, J. Zhang, M. Yang, Y. Kamagata : Changes of catabolic genes and microbial community structures during biodegradation of nonylphenol ethoxylates and nonylphenol in natural water microcosms. Biochem. Eng. J., 39: 288-296 (2008).
(120) Uyeno, Y., Y. Sekiguchi, and Y. Kamagata : Impact of consumption of probiotic lactobacilli-containing yogurt on microbial composition in human feces. Int. J. Food Microbiol., 122: 16-22 (2008).
(119) Imachi, H., S. Sakai, Y. Sekiguchi, S. Hanada, Y. Kamagata, A. Ohashi and H. Harada : Methanolinea tarda gen. nov. sp. nov., a methane-producing archaeon isolated from a methanogenic digester sludge. Int. J. Syst. Evol. Microbiol., 58: 294-301 (2008).
(118) Zhang, Y., X. Dou, J. Liu, M. Yang, L. Zhang, and Y. Kamagata : Decolorization of reactive brilliant red X-3B by heterogeneous photo-Fenton reaction using an Fe-Ce bimetal catalyst. Catalysis Today, 126: 387-393 (2007).
(117) Nakamura, T., T. Hoaki, S. Hanada, A. Maruyama, Y. Kamagata, and H. Fuse : Soluble and particulate methane monooxygenase gene clusters in a marine methanotroph Methylomicrobium sp. strain NI. FEMS Microbiol. Lett., 277: 157-164 (2007).
(116) Shinzato, N., I. Watanabe, X-Y. Meng, Y. Sekiguchi, H. Tamaki, T. Matsui, and Y. Kamagata : Phylogenetic analysis and fluorescence in situ hybridization detection of archaeal and bacterial endosymbionts in the anaerobic ciliate Trimyema compressum. Microbial Ecol., 54: 627-636 (2007).
(115) Yamada,T., H. Imachi, A. Ohashi, H. Harada, S. Hanada, Y. Kamagata, and Y. Sekiguchi : Bellilinea caldifistulae gen. nov., sp. nov. and Longilinea arvoryzae gen. nov., sp. nov., strictly anaerobic, filamentous bacteria of the phylum Chloroflexi isolated from methanogenic propionate-degrading consortia. Int. J. Syst. Evol. Microbiol., 57: 2299-2306 (2007).
(114) Uyeno, Y., Y. Sekiguchi, K.Tajima, A. Takenaka, M. Kurihara, and Y. Kamagata : Evaluation of group-specific, 16S rRNA-targeted scissor probes for quantitative detection of predominant bacterial populations in dairy cattle rumen. J. Appl. Micobiol., 103: 1995-2005 (2007).
(113) Morono, Y., W. Kitagawa, N. Kimura, N. Noda, K. Nakamura, and Y. Kamagata : "Mark the gene": a method for non-destructive introduction of marker sequences inside the gene-frame of transgenes. Appl. Environ. Microbiol., 73: 4915-4331 (2007).
(112) Sakai, S., H. Imachi, Y. Sekiguchi, A. Ohashi, H. Harada and Y. Kamagata : Isolation of key methanogens for global methane emission from rice paddy field: a novel isolate affiliated with a clone cluster, the Rice Cluster I. Appl. Environ. Microbiol., 73: 4326-4331 (2007).
(111) Yamada, T., T. Yamauchi, S. Shiraishi, P. Hugenholtz, A. Ohashi, H. Harada, Y. Kamagata, K. Nakamura, and Y. Sekiguchi: Identification, distribution and diversity of filamentous bacteria, belonging to candidate phylum KSB3, that are associated with bulking in methanogenic granular sludges. The ISME journal, 1: 246-255 (2007).
(110) Jeong, H., Y-W. Lim, H. Yi, Yuji Sekiguchi, Y. Kamagata, and J. Chun : Anaerosporobacter mobilis gen. nov., sp. nov., isolated from forest soil. Int. J. Syst. Evol. Microbiol., 57: 1784-1787 (2007).
(109) Imachi, H., S. Sakai, A. Ohashi, H. Harada, S. Hanada, Y. Kamagata, and Y. Sekiguchi : Pelotomaculum propionicicum sp. nov., an anaerobic, mesophilic, obligately syntrophic propionate-oxidizing bacterium. Int. J. Syst. Evol. Microbiol., 57: 1487-1492 (2007).
(108) Mochimaru, H., H. Yoshioka, H. Tamaki, K. Nakamura, H. Imachi, Y. Sekiguchi, T. Hoaki, H. Uchiyama, and Y. Kamagata : Methanogen diversity in deep subsurface gas-associated water at Minami-kanto gas field in Japan. Geomicrobiol. J., 24: 93-100 (2007).
(107) Mochimaru, H., H. Yoshioka, H. Tamaki, K. Nakamura, N. Kaneko, S. Sakata, H. Imachi, Y. Sekiguchi, T. Hoaki, H. Uchiyama, and Y. Kamagata : Microbial diversity and methanogenic potential in a high temperature natural gas field in Japan. Extremophiles, 11: 453-461 (2007).
(106) Nakamura, K., T. Terada, Y. Sekiguchi, N. Shinzato, X-Y. Meng, M. Enoki, and Y. Kamagata : Application of pseudomurein endoisopeptidase to fluorescence in situ hybridization of methanogens within the family Methanobacteriaceae. Appl. Environ. Microbiol., 72: 6907-6913 (2006).
(105) Kimura, N., W. Kitagawa, T. Mori, N. Nakashima, T. Tamura, and Y. Kamagata : Genetic and biochemical characterization of the dioxygenase involved in lateral dioxygenation of dibenzofuran from Rhodococcus opacus strain SAO101. Appl. Microbiol. Biotechnol., 73: 474-484 (2006).
(104) Sekiguchi, Y., H. Imachi, A. Susilorukmi, M. Muramatsu, A. Ohashi, H. Harada, S. Hanada, and Y. Kamagata : Tepidanaerobacter syntrophicus gen. nov., sp. nov., a novel anaerobic, moderately thermophilic, syntrophic alcohols- and lactate-degrading bacterium isolated from thermophilic digested sludges. Int. J. Syst. Evol. Microbiol., 56: 1621-1629 (2006).
(103) Yamada, T., Y. Sekiguchi, S. Hanada, H. Imachi, A. Ohashi, H. Harada, and Y. Kamagata : Anaerolinea thermolimosa sp. nov., Levilinea saccharolytica gen. nov., sp. nov. and Leptolinea tardivitalis gen. nov., sp. nov., novel filamentous anaerobes and description of the new classes Anaerolineae classis nov. and Caldilineae classis nov. in the bacterial phylum Chloroflexi. Int. J. Syst. Evol. Microbiol., 56: 1331-1340 (2006).
(102) Imachi, H., Y. Sekiguchi, Y. Kamagata, A. Loy, Y-L. Qiu, P. Hugenholtz, N. Kimura, M. Wagner, A. Ohashi, and H. Harada : Non-sulfate-reducing, syntrophic bacteria affiliated with the Desulfotomaculum cluster I are widely distributed in methanogenic environments. Appl. Environ. Microbiol., 72: 2080-2091 (2006).
(101) Qiu, Y-L., Y. Sekiguchi, S. Hanada, H. Imachi, I-C. Tseng, S-S. Cheng, A. Ohashi, H. Harada, and Y. Kamagata : Pelotomaculum terephthalicicum sp. nov. and Pelotomaculum isophthalicicum sp. nov.: two anaerobic bacteria that degrade phthalate isomers in syntrophic association with hydrogenotrophic methanogens. Arch. Microbiol., 185: 172-182 (2006).
(100) Kosaka, T., T. Uchiyama, I. Ishii, M. Enoki, H. Imachi, Y. Kamagata, A. Ohashi, H. Harada, H. Ikenaga, and K. Watanabe : Genomic insights into the central catabolic pathway in a thermophilic syntrophic bacterium, Pelotomaculum thermopropionicum. J. Bacteriol., 188: 202-210 (2006).
(99) Dinoto, A., A. Suksomcheep, S. Ishizuka, S. Hanada, Y. Kamagata, K. Asano, F. Tomita, and A. Yokota : Modulation of rat cecal microbiota by the administration of raffinose and encapsulated Bifidobacterium breve. Appl. Environ. Microbiol., 72: 784-792 (2006).
(98) Nakatsu, C.H., K. Hristova, S. Hanada, X-Y. Meng, J.R. Hanson, K.M. Scow, and Y. Kamagata : Methylibium petroleiphilum PM1T gen. nov., sp. nov., a new methyl tert-butyl ether (MTBE) degrading methylotroph of the beta-Proteobacteria. Int. J. Syst. Evol. Microbiol., 56: 983-989 (2006).
(97) Zhang, T., X. Fan, S. Hanada, Y. Kamagata, and H.H.P. Fang: Bacillus macaensis sp. nov., a long-chain bacterium isolated from a drinking water supply. Int. J. Syst. Evol. Microbiol., 56: 349-353 (2006).
(96) Li, H., M. Yang, Y. Zhang, T. Yu, and Y. Kamagata : Nitrification performance and microbial community dynamics in a submerged membrane bioreactor with complete sludge retention. J. Biotechnol., 123: 60-70 (2005).
(95) Yamada, T., Y. Sekiguchi, H. Imachi, Y. Kamagata, A. Ohashi, and H. Harada : Diversity, localization and physiological properties of filamentous microbes belonging to Chloroflexi subphylum I in mesophilic and thermophilic methanogenic sludge granules. Appl. Environ. Microbiol., 71: 7493-7503 (2005).
(94) Yamada, T., T. Fujii, T. Kanai, T. Amo, T. Imanaka, H. Nishimasu, H. Wakagi, H. Shoun, M. Kamakura, Y. Kamagata, T. Kato, and K. Kawashima : Expression of acetylcholine (ACh) and ACh-synthesizing activity in Archaea. Life Sci., 77: 1935-1944 (2005).
(93) Y. Kamagata and H. Tamaki : Cultivation of uncultured fastidious microbes. Microb. Environ., 20: 85-91 (2005).
(92) Tanaka, Y., S. Hanada, H. Tamaki, K. Nakamura, and Y. Kamagata : Isolation and identification of bacterial strains producing diffusible growth factor(s) for Catellibacterium nectariphilum strain AST4T. Microb. Environ., 20: 110-116 (2005).
(91) Li, H., M. Yang, Y. Zhang, X. Liu, M. Gao, and Y. Kamagata : Comparison of nitrification performance and microbial community between submerged membrane bioreactor and conventional activated sludge system. Water Sci. Technol., 51: 193-200 (2005).
(90) Sekiguchi, Y., Y. Uyeno, A. Sunaga, H. Yoshida and Y. Kamagata : Sequence-specific cleavage of 16S rRNA for rapid and quantitative detection of a particular group of anaerobes in bioreactors. Wat. Sci. Tech., 52: 107-113 (2005).
(89) Hattori, S., A.S. Galushko, Y. Kamagata, and B. Schink : Operation of the CO dehydrogenase/acetyl-CoA pathway both in acetate oxidation and acetate formation by the syntrophically acetate-oxidizing bacterium Thermacetogenium phaeum. J. Bacteriol., 187: 3471-3476 (2005).
(88) Mitani, Y., X-Y. Meng, Y. Kamagata, and T. Tamura : Characterization of LtsA from Rhodococcus erythropolis -an enzyme with glutamine amidotransferase activity. J. Bacteriol., 187: 2582-2591 (2005).
(87) Tamaki, H., Y. Sekiguchi, S. Hanada, K. Nakamura, N. Nomura, M. Matsumura, and Y. Kamagata : Comparative analysis of bacterial diversity in freshwater sediment of a shallow eutrophic lake as revealed by molecular and improved cultivation-based techniques. Appl. Environ. Microbiol., 71: 2162-2169 (2005).
(86) Amachi, S., Y. Muramatsu, Y. Akiyama, K. Miyazaki, S. Hanada, Y. Kamagata, H. Shinoyama, T. Bannai, and T. Fujii : Isolation of iodide-oxidizing bacteria from iodide-rich natural gas brines and seawaters. Microbial Ecol., 49: 547-557 (2005).
(85) Lee, T.H., S. Kurata, C.H. Nakatsu, and Y. Kamagata : Molecular analysis of bacterial community based on 16S rDNA and functional genes in activated sludge enriched with 2,4-dichlorophenoxyacetic acid (2,4-D) under different cultural conditions. Microbial Ecol., 49: 151-162 (2005).
(84) Kurata, S., T. Kanagawa, Y. Magariyama, K. Takatsu, K. Yamada, T. Yokomaku, and Y. Kamagata : Reevaluation and reduction of a PCR bias caused by reannealing of templates. Appl. Environ. Microbiol., 70: 7545-7549 (2004).
(83) Kitagawa, W., N. Kimura, and Y. Kamagata : A Novel p-nitrophenol degradation gene cluster from a gram-positive bacterium, Rhodococcus opacus SAO101. J. Bacteriol., 186: 4894-4902 (2004).
(82) Amachi, S., T. Fujii, H. Shinoyama, S. Hanada, Y. Kamagata, T. Ban-nai, and Y. Muramatsu : Radiotracer experiments on biological volatilization of organic iodine from seawaters. Geomicrobiology J., 21: 481-488 (2004).
(81) Jeong, H., H. Yi, Y. Sekiguchi, M. Muramatsu, Y. Kamagata, and J. Chun : Clostridium jejuense sp. nov., isolated from soil. Int. J. Syst. Evol. Microbiol., 54: 1465-1468 (2004).
(80) Tanaka, Y., S. Hanada, A. Manome, T. Tsuchida, R. Kurane, K. Nakamura, and Y. Kamagata : Catellatibacterium nectariphililum gen. nov., sp. nov., which requires a diffusible compound from a strain related to the genus Sphingomonas for vigorous growth. Int. J. Syst. Evol. Microbiol., 54: 955-959 (2004).
(79) Tamaki, H., S. Hanada, K. Nakamura, N. Nomura, M. Matsumura, and Y. Kamagata : The functional role of a proteolytic psychrophile, Flavobacterium limicola belonging to the Cytophaga-Flavobacteria cluster, for decomposition of particulate organic nitrogen in freshwater sediment. Microb. Environ., 19: 147-153 (2004).
(78) Uyeno, Y., Y. Sekiguchi, A. Sunaga, H. Yoshida, and Y. Kamagata : Sequence-specific cleavage of small-subunit (SSU) rRNA with oligonucleotides and ribonuclease H: a rapid and simple approach to the SSU rRNA-based quantitative detection of microorganisms. Appl. Environ. Microbiol., 70: 3650-3663 (2004).
(77) Itoh, K., Y. Tashiro, K. Uobe, Y. Kamagata, K. Suyama, and H. Yamamoto : Root nodule Bradyrhizobium spp. harbor ttfdAa and cadA , homologous with genes encoding 2,4-dichlorophenoxyacetic acid-degrading proteins. Appl. Environ. Microbiol., 70: 2110-2118 (2004).
(76) Qiu, Y-L., Y. Sekiguchi, H. Imachi, Y. Kamagata, I-C. Tseng, S-S. Cheng, A. Ohashi, and H. Harada : Identification and isolation of anaerobic, syntrophic p-phthalate isomers-degrading microbes from methanogenic sludges treating wastewater from terephthalate manufacturing. Appl. Environ. Microbiol., 70: 1617-1626 (2004).
(75) Mackie, R.I., R.I. Aminov, W. Hu, A.V. Klieve, D. Ouwerkerk, M. A. Sundset, and Y. Kamagata : Ecology of uncultivated Oscillospira species in the rumen of cattle, sheep and reindeer as assessed by molecular and microscopy approaches. Appl. Environ. Microbiol., 69: 6808-6815 (2003).
(74) Akasaka, H., A. Ueki, S. Hanada, Y. Kamagata, and K. Ueki : Propionicimonas paludicola gen. nov., sp. nov., a new facultatively anaerobic, Gram-positive propionate-producing bacterium isolated from plant residue in irrigated rice field soil. Int. J. Syst. Evol. Microbiol., 53: 1991-1998 (2003).
(73) Sekiguchi, Y., T. Yamada, S. Hanada, A. Ohashi, H. Harada, and Y. Kamagata : Anaerolinea thermophila gen. nov., sp. nov., and Caldilinea aerophila gen. nov., sp. nov., two novel filamentous thermophiles that represent a previously uncultured lineage of the domain Bacteria at the subphylum leve l. Int. J. Syst. Evol. Microbiol., 53: 1843-1851 (2003).
(72) Sakayori, Y., M. Muramatsu, S. Hanada, Y. Kamagata, S. Kawamoto, and J. Shima : Characterization of Enterococcus faecium mutants resistant to mundticin KS, a Class IIa bacterioci. Microbiology UK, 149: 2901-2908 (2003).
(71) Zhang, H., H-W. Luo, and Y. Kamagata : Characterization of the phenol hydroxylase from Burkholderia kururiensis KP23 involved in trichloroethylene degradation by gene cloning and disruption. Microb. Environ., 18: 167-173 (2003).
(70) Amachi, S., M. Kasahara, S. Hanada, Y. Kamagata, H. Shinoyama, T. Fujii, and Y. Muramatsu : Microbial participation in iodine volatilization from soils. Environ. Sci. Technol., 37: 3885-3890 (2003).
(69) Yanagita, K., A. Manome, X-Y. Meng, S. Hanada, T. Kanagawa, T. Tsuchida, R.I. Mackie, and Y. Kamagata : Flow cytometric sorting, phylogenetic analysis and in situ detection of Oscillospira guillermondii, a large morphologically conspicuous but uncultured ruminal bacterium. Int. J. Syst. Evol. Microbiol., 53: 1609-1614 (2003).
(68) Zhang, H., Y. Sekiguchi, S. Hanada, P. Hugenholtz, H. Kim, Y. Kamagata, and K. Nakamura : Gemmatimonas aurantiaca gen. nov., sp. nov., a gram-negative, aerobic, polyphosphate-accumulating micro-organism, the first cultured representation of the new bacterial phylum Gemmatimonadtes phyl. nov. Int. J. Syst. Evol. Microbiol., 53: 1155-1163 (2003).
(67) Qui Y-L., Y. Sekiguchi, H. Imachi, Y. Kamagata, I-C. Tseng, S-S. Cheng, A. Ohashi, H. Harada : Sporotomaculum syntrophicum sp. nov., a novel anaerobic, syntrophic benzoate-degrading bacterium isolated from methanogenic sludge treating purified-terephthalate-manufacturing wastewater. Arch. Microbiol., 179: 242-249 (2003).
(66) Kozono, D., X. Ding, I. Iwasaki, X. Meng, Y. Kamagata, P. Agre, and Y. Kitagawa : Functional expression and characterization of an archaeal aquaporin: AqpM from Methanothermobacter marburgensis. J. Biol. Chem., 278: 10649-10656 (2003). (P. Agre was awarded the NOBEL prize in 2003)
(65) Tamaki, H., S. Hanada, Y. Kamagata, K. Nakamura, N. Nomura, K. Nakano, and M. Matsumura : Flavobacterium limicola sp. nov., a psychrophilic, organic polymers-degrading bacterium isolated from freshwater sediments. Int. J. Syst. Evol. Microbiol., 53: 519-526 (2003).
(64) Niamsup, P., N. Sujaya, M. Tanaka, T. Sone, S. Hanada, Y. Kamagata, S. Lumyong, A. Assavanig, A. Asano, F. Tomita, and A. Yokota : Lactobacillus thermotolerans sp. nov., a new thermotolerant lactic acid bacteria isolated from chicken faeces. Int. J. Syst. Evol. Microbiol., 53: 263-268 (2003).
(63) Kurata, S., K. Yamada, K. Takatsu, S. Hanada, O. Koyama, T. Yokomaku, Y. Kamagata, T. Kanagawa, and R. Kurane : Extracellular acidic polysaccharaide production by a two-membered bacterial coculture. Biosci. Biotechnol. Biochem., 67: 8-14 (2003).
(62) Sekiguchi, Y., Y. Kamagata, A. Ohashi, and H. Harada : Molecular and conventional analyses of microbial diversity in mesophilic and thermophilic upflow anaerobic sludge blanket granular sludges. Wat. Sci. Tech., 45: 19-25 (2002).
(61) Liu, W-T., S. Hanada, T.L. Marsh, Y. Kamagata, and K. Nakamura : Kineosphaera limosa gen. nov. sp. nov., a new Gram-positive polyhydroxyalkanoate-accumulating coccus, isolated from activated sludge. Int. J. Syst. Evol. Microbiol., 52: 1845-1849 (2002).
(60) Imachi, H., Y. Sekiguchi, Y. Kamagata, S. Hanada, A. Ohashi, and H. Harada : Pelotomaculum thermopropionicum gen. nov., sp. nov., a novel anaerobic, thermophilic syntrophic propionate-oxidizing bacterium. Int. J. Syst. Evol. Microbiol., 52: 1729-1735 (2002).
(59) Takeda, M., Y. Kamagata, and J. Koizumi : Paenibacillus koleovorans sp. nov., able to grow on the sheath of Sphaerotilus natans. Int. J. Syst. Evol. Microbiol., 52: 1597-1601 (2002).
(58) Iida, T., K. Inatomi, Y. Kamagata, and T. Maruyama : F- and V-type ATPases in the hyperthermophilic bacterium, Thermotoga neapolitana. Extremophiles, 6: 369-375 (2002).
(57) Aruga, S., Y. Kamagata, T. Kohno, S. Hanada, K. Nakamura, and T. Kanagawa : Characterization of filamentous Eikelboom type 021N bacteria and description of Thiothrix discata sp. nov. and Thiothrix flexilie sp. nov. Int. J. Syst. Evol. Microbiol., 52: 1309-1316 (2002).
(56) Itoh, K., R. Kanda, Y. Sumita, Kim, H., Y. Kamagata, K. Suyama, H. Yamamoto, R.P. Hausinger, and J.M. Tiedje : tfdA-like genes in 2,4-dichlorophenoxyacetic acid-degrading bacteria belonging to the Bradyrhizobium- Agromonas-Nitribacter-Afipia cluster in a-Proteobacteria. Appl. Environ. Microbiol., 68: 3449-3454 (2002).
(55) Takeda, M., Y. Kamagata, W.C. Ghiorse, S. Hanada, and J. Koizumi : Caldimonas manganoxidans gen. nov., sp. nov., a poly (3-hydroxybutyrate)-degrading, manganese-oxidizing thermophile. Int. J. Syst. Evol. Microbiol., 52: 895-900 (2002).
(54) Hanada, S., W-T. Liu, T. Shintani, Y. Kamagata, and K. Nakamura : Tetrasphaera elongata sp. nov., a polyphosphate accumulating bacterium isolated from activated sludge. Int. J. Syst. Evol. Microbiol., 52: 883-887 (2002).
(53) Luo, H-W., H. Zhang, T. Suzuki, S. Hattori, and Y. Kamagata : Differential expression of methanogenesis genes of Methanothermobacter thermoautotrophicus (formerly Methanobacterium thermoautotrophicum) between in pure culture and in cocultures with fatty acid-oxidizing syntrophs. Appl. Environ. Microbiol., 68: 1173-1179 (2002).
(52) Kitagawa, W., S. Takami, K. Miyauchi, E. Masai, Y. Kamagata, J.M. Tiedje, and M. Fukuda : Novel 2,4-dichlorophenoxyacetic acid degradation genes from oligotrophic Bradyrhizobium sp. strain HW13 isolated from a pristine environment. J. Bacteriol., 184: 509-518 (2002).
(51) Suzuki, T., T. Kanagawa, and Y. Kamagata : Identification of a gene essential for sheathed structure formation in Sphaerotilus natans, a filamentous sheathed bacterium. Appl. Environ. Microbiol., 68: 365-371 (2002).
(50) Sekiguchi, Y., H. Takahashi, Y. Kamagata, A. Ohashi, and H. Harada : In situ detection, isolation and physiological properties of a thin filamentous microorganism abundant in methanogenic granular sludges : a novel isolate affiliated with a clone cluster, the Green Non Sulfur Bacteria subdivision I. Appl. Environ. Microbiol., 67: 5740-5749 (2001).
(49) Yamada, K., M. Torimura, S. Kurata, Y. Kamagata, T. Kanagawa, K. Kano, T. Ikeda, T. Yokomaku, and R. Kurane : Application of capillary electrophoresis to monitor populations of Cellulomonas cartae KYM-7 and Agrobacterium tumefaciens KYM-8 in mixed culture. Electrophoresis, 22: 3413-3417 (2001).
(48) Sekiguchi, Y., Y. Kamagata and H. Harada : Recent advances in methane fermentation technology. Curr. Opinion. Biotechnol., 12: 277-282 (2001).
(47) Amachi, S., Y. Kamagata, T. Kanagawa, and Y. Muramatsu : Bacteria mediate methylation of iodine in marine and terrestrial environments. Appl. Environ. Microbiol., 67: 2718-2722 (2001).
(46) Kurata, S., T. Kanagawa, K. Yamada, M. Torimura, T. Yokomaku, Y. Kamagata, and R. Kurane : Fluorescent quenching-based quantitative detection of specific DNA/RNA using a BODIPY FL-labeled probe or primer. Nucleic Acid Res., 29 (6): e34 (2001).
(45) Hattori, S., H-W. Luo, H. Shoun, and Y. Kamagata : Involvement of formate as an interspecies electron carrier in a syntrophic acetate-oxidizing anaerobic microorganism in coculture with methanogens. J. Biosci. Bioeng., 91: 294-298 (2001).
(44) Torimura, M., S. Kurata, K. Yamada, T. Yokomaku, Y. Kamagata, T. Kanagawa, and R. Kurane : Fluorescence quenching phenomenon by photoinduced electron transfer between a fluorescent dye and a nucleotide base. Anal. Sci., 17: 155-160 (2001).
(43) Amachi, S., Y. Muramatsu, and Y. Kamagata : Radioanalytical determination of biogenic volatile iodine emitted from aqueous environmental samples. J. Radioanal. Nuclear Chem., 246: 337-341 (2000).
(42) Kanagawa, T., Y. Kamagata, S. Aruga, T. Kohno, M. Horn, and M. Wagner : Phylogenetic analysis of and oligonucleotide probe development for Eikelboom Type 021N filamentous bacteria isolated from bulking activated sludge. Appl. Environ. Microbiol., 66: 5043-5052 (2000).
(41) Mori, K., H. Yamamoto, Y. Kamagata, M. Hatsu, and K. Takamizawa : Methanocalculus pumilus sp. nov., a heavy metal tolerant methanogen isolated from a waste disposal site. Int. J. Syst. Evol. Microbiol., 50: 1723- 1729 (2000).
(40) Imachi, H., Y. Sekiguchi, Y. Kamagata, A. Ohashi, and H. Harada : Cultivation and in situ detection of a thermophilic bacterium capable of oxidizing propionate in syntrophic association with hydrogenotrophic methanogens in a thermophilic methanogenic granular sludge. Appl. Environ. Microbiol., 66: 3608-3615 (2000).
(39) Yanagita, K., Y. Kamagata, M. Kawaharasaki, T. Suzuki, Y. Nakamura, and H. Minato : Phylogenetic analysis of methanogens in sheep rumen ecosystem and detection of Methanomicrobium mobile by fluorescence in situ hybridization. Biosci. Biotechnol. Biochem., 64: 1737-1742 (2000).
(38) Itoh, K., R. Kanda, Y. Momoda, Y. Sumita, Y. Kamagata, K. Suyama, and H. Yamamoto : Presence of 2,4-D-catabolizing bacteria in a Japanese arable soil that belong to BANA (Bradyrhizobium-Agromonas-Nitrobacter-Afipia) cluster in the a-Proteobacteria. Microb. Environ., 15: 113-117 (2000).
(37) Hattori, S., Y. Kamagata, S. Hanada, and H. Shoun : Thermacetogenium phaeum gen. nov., sp. nov., a strictly anaerobic, thermophilic, syntrophic acetate-oxidizing bacterium. Int. J. Syst. Evol. Microbiol., 50: 1601-1609 (2000).
(36) Sawayama, S., S. Hanada, and Y. Kamagata : Isolation and characterization of phototrophic bacteria growing in lighted upflow anaerobic sludge blanket reactor. J. Biosci. Bioeng., 89: 396-399 (2000).
(35) Sekiguchi, Y., Y. Kamagata, K. Nakamura, A. Ohashi, and H. Harada : Syntrophothermus lipocalidus gen. nov., sp. nov., a novel thermophilic syntrophic fatty acid-oxidizing anaerobe which utilizes isobutyrate. Int. J. Syst. Evol. Microbiol., 50: 771-779 (2000).
(34) Zhang, H., S. Hanada, T. Shigematsu, K. Shibuya, Y. Kamagata, T. Kanagawa, and R. Kurane : Burkholderia kururiensis sp. nov., a trichloroethylene (TCE)-degrading bacterium isolated from an aquifer polluted with TCE. Int. J. Syst. Evol. Microbiol., 50: 743-749 (2000).
(33) Shintani, T., W.T. Liu, S. Hanada, Y. Kamagata, S. Miyaoka, T. Suzuki, and K. Nakamura : Micropruina glycogenica gen. nov. sp. nov., a new gram positive glycogen accumulating bacterium isolated from activated sludge. Int. J. Syst. Evol. Microbiol., 50: 201-207 (2000).
(32) Shigematsu, T., S. Hanada, M. Eguchi, Y. Kamagata, T. Kanagawa, and R. Kurane : Soluble methane monooxygenase gene clusters from trichloroethylene-degrading Methylomonas sp. strains and detection of methanotrophs during in situ bioremediation. Appl. Environ. Microbiol., 65: 5198-5206 (1999).
(31) Sekiguchi, Y., Y. Kamagata, K. Nakamura, A. Ohashi, and H. Harada : Fluorescence in situ hybridization using 16S rRNA targeted oligonucleotides reveals localization of methanogens and selected uncultured bacteria in mesophilic and thermophilic sludge granules. Appl. Environ. Microbiol., 65: 1280-1288 (1999).
(30) Suyama, T., Y. Tokiwa, P. Ouichanpagdee, T. Kanagawa, and Y. Kamagata : Phylogenetic distribution of soil bacteria that degrade aliphatic polyesters available commercially as biodegradable plastics. Appl. Environ. Microbiol., 64: 5008-5011 (1998)
(29) Hanada, S., T. Shigematsu, K. Shibuya, M. Eguchi, T. Hasegawa, F. Suda, Y. Kamagata, T. Kanagawa, and R. Kurane : Phylogenetic analysis of trichloroethylene-degrading bacteria newly isolated from soil polluted with this contaminant. J. Ferment. Bioeng., 86: 539-544 (1998).
(28) Boone, D.R. and Y. Kamagata : Rejection of the species Methanothrix soehngeniiVP and the genus MethanothrixVP as a nomina confusa, and transfer of Methanothrix thermophilaVP to the genus MethanosaetaVP as Methanosaeta thermophila comb. nov. Request for Opinion. Int. J. Syst. Bacteriol., 48: 1079-1080 (1998).
(27) Sekiguchi, Y., Y. Kamagata, K. Syutsubo, A. Ohashi, H. Harada, and K. Nakamura : Phylogenetic diversity of mesophilic and thermophilic granular sludges determined by 16S rRNA gene analysis. Microbiology, 144: 2655-2665 (1998).
(26) Iida, T., S. Kanai., K. Inatomi., Y. Kamagata, and T. Maruyama : Alpha and Beta subunits of a V-type ATPase in a hyperthermophilic sulfur-dependent archaeum, Thermococcus sp. KI. Biophys. Biochim. Acta, 1329: 12-17 (1997).
(25) Y. Kamagata, R.R. Fulthorpe, K. Tamura, H. Takami, L.J. Forney, and J.M. Tiedje : Pristine environments harbor a new group of oligotrophic 2,4-dichlorophenoxyacetic acid-degrading bacteria. Appl. Environ. Microbiol., 63: 2266-2272 (1997).
(24) Yamada, K., Y. Kamagata, and K. Nakamura : The effect of endosymbiotic methanogens on the growth and metabolic profile of the anaerobic free-living ciliate Trimyema compressum. FEMS Microbiol. Lett., 149: 129-132 (1997).
(23) Iida, T., T. Hoaki, K. Kamino, K. Inatomi, Y. Kamagata, and T. Maruyama : Vacuolar-type ATPase in a hyperthermophilic archaeum, Thermococcus sp. KI. Biochem. Biophys. Res. Commun., 229: 559-564 (1996).
(22) Hiraishi, A., Y. Kamagata, and K. Nakamura : Polymerase chain reaction amplification and restriction fragment length polymorphism analysis of 16S rRNA genes from methanogens. J. Ferment. Bioeng., 79: 523-529 (1995).
(21) Nakamura, K., A. Hiraishi, Y. Yoshimi, M. Kawaharasaki, K. Masuda, and Y. Kamagata : Microlunatus phosphovorus gen. nov., sp. nov., a new gram-positive polyphosphate-accumulating bacterium isolated from activated sludge. Int. J. Syst. Bacteriol., 45: 17-22 (1995).
(20) Yamada, K., Y. Kamagata, K. Nakamura, Y. Inamori, and I. Nakamura : Selectivity of food bacteria for the growth of Trimyema compressum. Arch. Microbiol., 161: 229-233 (1994).
(19) Koyama, O., Y. Kamagata, and K. Nakamura : Degradation of halogenated aromatics by Fenton oxidation and methanogenic sludge. Wat. Res., 28: 895-899 (1994).
(18) Tasaki, M., Y. Kamagata, K. Nakamura, K. Okamura, and K. Minami : Acetogenesis from pyruvate by Desulfotomaculum thermobenzoicum and differences in pyruvate metabolism among three sulfate-reducing bacteria in the absence of sulfate. FEMS Microbiol. Lett., 106: 259-264 (1993).
(17) Inatomi, K., Y. Kamagata, and K. Nakamura : Membrane ATPase from aceticlastic methanogen Methanothrix thermophila. J. Bacteriol., 175: 80-84 (1993).
(16) Y. Kamagata, H. Kawasaki, H. Oyaizu, K. Nakamura, E. Mikami, G. Endo, Y. Koga, and K. Yamasato : Characterization of three thermophilic strains of Methanothrix ("Methanosaeta") thermophila sp. nov. and rejection of Methanothrix ("Methanosaeta") thermoacetophila. Int. J. Syst. Bacteriol., 42: 463-468 (1992).
(15) Tasaki, M., Y. Kamagata, K. Nakamura, and E. Mikami : Propionate formation from alcohols or aldehydes by Desulfobulbus propionicus in the absence of sulfate. J. Ferment. Bioeng., 73: 329-331 (1992).
(14) Y. Kamagata, N. Kitagawa, M. Tasaki, K. Nakamura, and E. Mikami : Degradation of benzoate by an anaerobic consortium and some properties of hydrogenotrophic methanogen and sulfate-reducing bacterium in the consortium. J. Ferment. Bioeng., 73: 213-218 (1992).
(13) Tasaki, M., Y. Kamagata, K. Nakamura, and E. Mikami : Utilization of methoxylated benzoates and formation of intermediates by Desulfotomaculum thermobenzoicum in the presence or absence of sulfate. Arch. Microbiol., 157: 209-212 (1992).
(12) Kurasawa, T., M. Yachi, M. Suto, Y. Kamagata, S. Takao, and F. Tomita : Induction of cellulase by gentiobiose and its sulfur-containing analog in Penicillium purpurogenum. Appl. Environ. Microbiol., 58: 106-110 (1992).
(11) Inoue, K., S. Kageyama, T. Morinaga, K. Miki, Y. Kamagata, K. Nakamura, and E. Mikami : Vitamin B12 production by Acetobacterium sp. and its tetrachloromethane-resistant mutants. J. Ferment. Bioeng., 73: 76-78 (1992).
(10) Suto, M., M. Yachi, Y. Kamagata, H. Sasaki, S. Takao, and F. Tomita : Cellulase induction by soluble acetylcellobioses in Penicillium purpurogenum. J. Ferment. Bioeng., 72: 352-357 (1991).
(9) Y. Kamagata, M. Yachi, T. Kurasawa, M. Suto, H. Sasaki, S. Takao, and F. Tomita : Cellulase induction by cellobiose-octaacetate in Penicillium purpurogenum. J. Ferment. Bioeng., 72: 217-220 (1991).
(8)Y. Kamagata and E. Mikami : Isolation and characterization of a novel thermophilic Methanosaeta strain. Int. J. Syst. Bacteriol., 41: 191-196 (1991).
(7) Tasaki, M., Y. Kamagata, K. Nakamura, and E. Mikami : Isolation and characterization of a thermophilic benzoate-degrading sulfate-reducing bacterium, Desulfotomaculum thermobenzoicum sp. nov. Arch. Microbiol., 155: 348-352 (1991).
(6) Y. Kamagata and E. Mikami : Some characteristics of two morphotypes of Methanothrix soehngenii from mesophilic anaerobic digesters. J. Ferment. Bioeng., 70: 272-274 (1990).
(5) Nakamura, K., Y. Kamagata, K. Tanaka, K. Matsuda, M. Tasaki, and E. Mikami : Anaerobic bacteria degrading low molecular chlorinated fatty acids and related compounds. Wat. Sci. Tech., 23: 1211-1218 (1990).
(4) Y. Kamagata, M. Yachi, H. Sasaki, and S. Takao : Purification and properties of two endocellulases from Penicillium purpurogenum. Agric. Biol. Chem., 50: 2989-2995 (1986).
(3) Takao, S., H. Sasaki, K. Kurosawa, M. Tanida, and Y. Kamagata : Production of a raw starch-saccharifying enzyme by Corticium rolfsii. Agric. Biol. Chem., 50: 1979-1987 (1986).
(2) Y. Kamagata, H. Sasaki, and S. Takao : Purification and some properties of two cellobiohydrolases from Penicillium purpurogenum. J. Ferment. Technol., 64: 211-217 (1986).
(1) Takao, S., Y. Kamagata, and H. Sasaki : Cellulase production by Penicillium purpurogenum. J. Ferment. Technol., 63: 127-134 (1985).
BOOKCHAPTERS
(15) Shinzato, N. and Y. Kamagata : The methanogenic and archaeal endosymbionts in free-living anaeroibic ciliates. In: Endosymbiotic methanogenic archaea (Edited by J.H.P. Hackstein). Springer Verlag. pp. 37-53 (2018).
(14) Narihiro, T. and Y. Kamagata : Anaerobic cultivation. In: Manual of Environmental Microbiology 4th edition (Edited by Marylynn Yates). American Society of Microbiology. 2-1-2 12pp (2016).
(13) Katayama, T. and Y. Kamagata : Cultivation of Methanogens. In:Hydrocarbon and Lipid Microbiology Protocol. Springer, Heiderberg. 177-195 (2015).
(12) Y. Kamagata : Syntrophy in Anaerobic Digestion. Anaerobic Biotechnology: In: Environmental Protection and Resource Recovery (Edited by H.H.P. Fang and T. Zhang). Published ahead of printing (2015).
(11) Kimura, N. W. Kitagawa and Y. Kamagata : Biodegradation of nitrophenol compounds. In: Biological Remediation of Explosive Residues (Edited by S.N. Singh). Springer International. pp. 43-57 (2014).
(10) Kitagawa, W. and Y. Kamagata : Diversity of 2,4-Dichorophenoxyacetic Acid (2,4-D)-Degradative Genes and Degrading Bacteria. In: Biodegradative Bacteria (Edited by H. Nojiri et al). Springer Verlag. pp. 43-57 (2013).
(9) Shinzato, N. and Y. Kamagata : The methanogenic and archaeal endosymbionts of Trimyema In: Endosymbiotic methanogenic archaea (Edited by J.H.P. Hackstein). Springer Verlag. (2010).
(8) Okabe, S. and Y. Kamagata : Wastewater treatment. In: Environmental Molecular Biology (Edited by W-T, Liu and Jansson J.K.). Caiser Academic Press. chapter 10 (2009).
(7) Y. Kamagata, Y. Sekiguchi, and S. Hanada : Gemmatimonadetes phylum nov. In: Bergey's manual of systematic bacteriology (Edited by Garrity G.). Springer-Verlag. (2009).
(6) Y. Kamagata : Genus Oscillospira Chatton and Perard 1913, 1159AL In: Bergey's manual of systematic bacteriology volume 3, (Edited by Garrity G.). Springer-Verlag. (2009).
(5) Y. Kamagata : Genus Thermoacetogenium Hattori, Kamagata, Hanada, and Shoun 2000. In: Bergey's manual of systematic bacteriology volume 3, (Edited by Garrity G.). Springer-Verlag. (2009).
(4) Sekiguchi, Y., and Y. Kamagata : Microbial community structure and functions in methane fermentation technology for wastewater treatment. In: Strict and facultative anaerobes: medical and environmental aspects., (Ed. by Zuber, P. and Nakano, M. M.). Horizon Scientific Press, Norfolk, UK. 361-384 (2004).
(3) Nakatsu, C.H., R. Fulthorpe, W.E. Holben, Y. Kamagata, O.V. Maltseva, V.G. Matheson, C. McGowan, Y. Suwa, J.M. Tiedje, E.M. Top, A.D. Wright, and L.J. Forney : Genetic diversity of 2,4-D catabolic genes. In Microbial diversity and genetics of biodegradation. (eds. Horikoshi, K., Fukuda, M., and Kudo, T). Japan Scientific Societies Press, Tokyo, 197-206 (1997).
(2) Tiedje, J.M., R. Fulthorpe, Y. Kamagata, C.McGowan, A. Rhodes, H. Takami : What is the global pattern of chloroaromatic degrading microbial populations. In Microbial diversity and genetics of biodegradation. (eds. Horikoshi, K., Fukuda, M., and Kudo, T). Japan Scientific Societies Press, Tokyo, 65-74 (1997).
(1) Hausinger, R.P., F. Fukumori, D.A. Hogan, T.W. Sasanella, Y. Kamagata, H. Takami, and R.E. Wallace : Biochemistry of 2,4-D degradation : Evolutionary implications. In Microbial diversity and genetics of biodegradation (eds. Horikoshi, K., Fukuda, M., and Kudo, T). Japan Scientific Societies Press, Tokyo, 35-51 (1997).
