A０１班

Shiyi Zhang, Joseph Wang, Kenshi Hayashi, Fumihiro Sassa “Monolithic processing of a layered flexible robotic actuator film for kinetic electronics”  Scientific Reports, 11, 20015, 202110, doi: 10.1038/s41598-021-99500-9

Nanako Kanno, Shingo Kato, Moriya Ohkuma, Motomu Matsui, Wataru Iwasaki, Shinsuke Shigeto “Machine learning-assisted single-cell Raman fingerprinting for in situ and nondestructive classification of prokaryotes” iScience, 24(9), 102975, 202109, doi: 10.1016/j.isci.2021.102975

Nanako Kanno, Shingo Kato, Takashi Itoh, Moriya Ohkuma, Shinsuke Shigeto “Resonance Raman analysis of intracellular vitamin B12 analogs in methanogenic archaea” Analytical Science Advances, 2022, 1-9, 202201, doi: 10.1002/ansa.202100042

Toyofuku, M, Nomura, N, Eberl, L “Membrane vesicles and quantized bacterial signaling” Physical Biology, () -, , doi: TBA

Naradasu D, Miran W, Sharma S, Takenawa S, Soma T, Nomura N, Toyofuku M, Okamoto A “Biogenesis of Outer Membrane Vesicles Concentrates the Unsaturated Fatty Acid of Phosphatidylinositol in Capnocytophaga ochracea” Frontiers in Microbiology, 12, 682685, 2021.05, doi: 10.3389/fmicb.2021.682685

Zhang IH, Mullen S, Ciccarese D, Dumit D, Martocello DE 3rd, Toyofuku M, Nomura N, Smriga S, Babbin AR “Ratio of Electron Donor to Acceptor Influences Metabolic Specialization and Denitrification Dynamics in Pseudomonas aeruginosa in a Mixed Carbon Medium” Frontiers in Microbiology, 12, 711073, 2021.09,  doi: 10.3389/fmicb.2021.711073

Kunoh, T, Yamamoto, T, Sugimoto, S, Ono, E, Nomura, N, Utada, AS “Leptothrix cholodnii Response to Nutrient Limitation” Frontiers in Microbiology, 12, 691563, 2021.07, doi: 10.3389/fmicb.2021.691563

Abe, K, Toyofuku, M, Nomura, N, Obana, N “Autolysis-mediated membrane vesicle formation in Bacillus subtilis” Environmental Microbiology, 23(5), 2632-2647, 2021.05, doi: 10.1111/1462-2920.15502

Okano C, Takabe K, Hirayama T, Nomura N, Yawata Y “Three-dimensional morphology of bacterial community developed on the index-matched materials” Scientific Reports, 11, 19508, 2021.09, doi: 10.1038/s41598-021-98943-4

Nagakubo T, Yamamoto T, Asamizu S, Toyofuku M, Nomura N, Onaka H “Phage tail‐like nanostructures affect microbial interactions between Streptomyces and fungi” Scientific Reports, 11, 20116, 2021.10, doi: 10.1038/s41598-021-99490-8

Goto H, Komaba K, Eguchi N, Toyofuku M, Nomura N “A Possibility of Polaron Vortex Magnet of Polypyrrole Prepared in Virus Liquid Crystal” Journal of Polymer Science, 60, 90-96, 2021.10, doi: 10.1002/pol.20210585

Kobayashi N, Abe K, Akagi S, Kitamura M, Shiraishi Y, Yamaguchi A, Yutani M, Amatsu S, Matsumura T, Nomura N, Ozaki N, Obana N, Fujinaga Y. “Membrane vesicles derived from Clostridiumbotulinum and related clostridial species induce innate immune responses via MyD88/TRIF signaling in vitro” Frontiers in Microbiology, 13, 720308, 2022.02, doi: 10.3389/fmicb.2022.720308

Koh S, Sato M, Yamashina K, Usukura Y, Toyofuku M, Nomura N, Taguchi S “Controllable secretion of multilayer vesicles driven by microbial polymer accumulation” Scientific Reports, 12, 3393, 2022.03 ,doi: 10.1038/s41598-022-07218-z

Abe K, Kato H, Hasegawa Y, Yamamoto T, Nomura N, Obana N. “Visualization and characterization of spore morphogenesis in Paenibacillus polymyxa ATCC39564″ Journal of General and Applied Microbiology, (In press), doi: 10.2323/jgam.2021.10.006

Yasuda M, Yamamoto T, Nagakubo T, Morinaga K, Obana N, Nomura N, Toyofuku M “Phage Genes Induce Quorum Sensing Signal Release through Membrane Vesicle Formation” Microbes and Environments, 37, ME21067, 2022.01, doi: 10.1264/jsme2.ME21067

Hiroyuki Kusada, Kana Morinaga, Hideyuki Tamaki “Identification of Bile Salt Hydrolase and Bile Salt Resistance in a Probiotic Bacterium Lactobacillus gasseri JCM1131T” Microorganisms 9, 1011, 2021.05, doi: 10.3390/microorganisms9051011

Hiroyuki Kusada, Masanori Arita, Masanori Tohno, Hideyuki Tamaki “Isolation of a highly thermostable bile salt hydrolase with broad substrate specificity from Lactobacillus paragasseri” Frontiers in Microbiology 13, 810872, 2022.02, doi: 10.3389/fmicb.’2022.810872

Ryosuke Nakai*, Hiroyuki Kusada*, Fumihiro Sassa, Susumu Morigasaki, Hisayoshi Hayashi, Naoki Takaya, Hideyuki Tamaki (*equal contribution) ” “Draft genome sequence of novel filterable Rhodospirillales bacterium strain TMPK1, isolated from soil” Microbiology Resource Announcements”  10, e00393-21, 2021.07, doi: 10.1128/MRA.00393-21

Ryosuke Nakai, Takeshi Naganuma, Nozomi Tazato, Tadao Kunihiro, Sho Morohoshi, Tomomi Koide, Hiroyuki Kusada, Hideyuki Tamaki, Takashi Narihiro “Characterization of Terrihabitans soli gen. nov., sp. nov., a novel 0.2 μm-filterable soil bacterium belonging to a widely distributed lineage of Hyphomicrobiales (Rhizobiales)” Diversity, 13, 422, 2021.09, doi: 10.3390/d13090422

Sho Shimada*, Ryosuke Nakai*, Kotaro Aoki, Sakae Kudoh, Satoshi Imura, Norifumi Shimoeda, Giichiro Ohno, Kentaro Watanabe, Yasunari Miyazaki, Yoshikazu Ishii, Kazuhiro Tateda (*equal contribution) “Characterization of the first cultured psychrotolerant representative of Legionella from Antarctica reveals its unique genome structure” Microbiology Spectrum 9, e00424-21, 2021.10, doi: 10.1128/Spectrum.00424-21

Yasuko Yoneda, Kyosuke Yamamoto, Ayaka Makino, Yasuhiro Tanaka, Xian-Ying Meng, Junko Hashimoto, Kazuo Shin-Ya, Noriyuki Satoh, Manabu Fujie, Tadashi Toyama, Kazuhiro Mori, Michihiko Ike, Masaaki Morikawa, Yoichi Kamagata, Hideyuki Tamaki “Novel Plant-Associated Acidobacteria Promotes Growth of Common Floating Aquatic Plants, Duckweeds” Microorganisms 9, 1133, 2021.05, doi: 10.3390/microorganisms9061133

Kyosuke Yamamoto, Yasuko Yoneda, Ayaka Makino, Yasuhiro Tanaka, Xian-Ying Meng, Junko Hashimoto, Kazuo Shin-ya, Noriyuki Satoh, Manabu Fujie, Tadashi Toyama, Kazuhiro Mori, Michihiko Ike, Masaaki Morikawa, Yoichi Kamagata, Hideyuki Tamaki “Draft Genome Sequence of Bryobacteraceae Strain F-183” Microbiology Resource Announcements 11, e00453-21, 2022.01, doi: 10.1128/mra.00453-21

Kyosuke Yamamoto, Yasuko Yoneda, Ayaka Makino, Yasuhiro Tanaka, Xian-Ying Meng, Junko Hashimoto, Kazuo Shin-ya, Noriyuki Satoh, Manabu Fujie, Tadashi Toyama, Kazuhiro Mori, Michihiko Ike, Masaaki Morikawa, Yoichi Kamagata, Hideyuki Tamaki “Complete Genome Sequence of Luteitalea sp. Strain TBR-22” Microbiology Resource Announcements 11, e00455-21, 2022.02 ,doi: 10.1128/mra.00455-21

中井亮佑（2021） 極地に生きる未知微生物は何者か？、極限環境生物学会誌、19号、p 25-31.（in Japanese with English abstract and figures）

Ryo Tashiro, Takaaki Sato, Haruyuki Atomi, Kunio Miki, Masahiro Fujihashi “Altering the phosphorylation position of pyrophosphate-dependent myo-inositol-1-kinase based on its crystal structure” ACS Chemical Biology 16, 794-799, 2021.05, doi: 10.1021/acschembio.0c00733

Yasunobu Mori, Hiroki Kawamura, Takaaki Sato, Takayuki Fujita, Ryuhei Nagata, Masahiro Fujihashi, Kunio Miki, Haruyuki Atomi “Identification and enzymatic analysis of an archaeal ATP-dependent serine kinase from the hyperthermophilic archaeon Staphylothermus marinus” Journal of Bacteriology 203, e00025-21 2021.07, doi: 10.1128/JB.00025-21

Hiraoka S, Sumida T, Hirai M, Toyoda A, Kawagucci S, Yokokawa T, and Nunoura T “Diverse DNA modification in marine prokaryotic and viral communities” Nucleic Acids Research 50, 1531-1550, 2022.01, doi: 10.1093/nar/gkab1292

Mori, Y., Kawamura, H., Sato, T., Fujita, T., Nagata, R., Fujihashi, M., Miki, K., Atomi, H. “Identification and enzymatic analysis of an archaeal ATP-dependent serine kinase from the hyperthermophilic archaeon Staphylothermus marinus“ Journal of Bacteriology, 203(16) e0002521, 2021.07, doi: 10.1128/JB.00025-21 

Melina Kerou, Rafael I Ponce-Toledo, Rui Zhao, Sophie S Abby, Miho Hirai, Hidetaka Nomaki, Yoshihiro Takaki, Takuro Nunoura, Steffen L Jørgensen, Christa Schleper “Genomes of Thaumarchaeota from deep sea sediments reveal specific adaptations of three independently evolved lineages” ISME Journal, 15(-) 2792-2808, 2021.04, doi: 10.1038/s41396-021-00962-6

跡見晴幸「超好熱菌の高温適応戦略」熱測定, 48(2) 78, 2021.04, abstract

Seiji Kawai, Yuko Sugaya, Ryota Hagihara, Hiroya Tomita, Yohei Katsuyama, and Yasuo Ohnishi “Complete biosynthetic pathway of alazopeptin, a tripeptide consisting of two molecules of 6-diazo-5-oxo-L-norleucine and one molecule of alanine” Angewandte Chemie-International Edition 60, 10319-10325, 2021.04, doi: 10.1002/anie.202100462

Seiji Kawai, Yohei Katsuyama, Yasuo Ohnishi “The α/β hydrolase AzpM catalyzes dipeptide synthesis in alazopeptin biosynthesis using two Molecules of carrier protein-tethered amino acid” Chembiochem 23, e202100700, 2022.02, doi: 10.1002/cbic.202100700

Tezuka Takeaki, Yasuo Ohnishi “Surface structure and nanomechanical properties of Actinoplanes missouriensis sporangia analyzed via atomic force microscopy” Bioscience, Biotechnology, and Biochemistry 86, 552-556, 2022.02, doi: 10.1093/bbb/zbac002

Hayama Tsutsumi, Yohei Katsuyama, Takeaki Tezuka, Rei Miyano, Yuki Inahashi, Yoko Takahashi, Takuji Nakashima, Yasuo Ohnishi “Identification and analysis of the biosynthetic gene cluster for the indolizidine alkaloid iminimycin in Streptomyces griseus” Chembiochem 23, e202100517, 2021.10, doi: 10.1002/cbic.202100517

Hayama Tsutsumi, Yoshitaka Moriwaki, Tohru Terada, Kentaro Shimizu, Kazuo Shin-Ya, Yohei Katsuyama, Yasuo Ohnishi “Structural and molecular basis of the catalytic mechanism of geranyl pyrophosphate C6-methyltransferase: creation of an unprecedented farnesyl pyrophosphate C6-methyltransferase” Angewandte Chemie-International Edition 61, e202111217, 2021.10, doi: 10.1002/anie.202111217

 

A０2班

Chakraborty J, Suzuki-Minakuchi C, Tomita T, Okada K, Nojiri H “A novel gene cluster is involved in the degradation of lignin-derived monoaromatics in Thermus oshimai JL-2″ Applied and Environmental Microbiology 87, e01589-20, 202105, doi: 10.1128/AEM.01589-20

Mpofu E, Alias A, Tomita K, Suzuki-Minakuchi C, Tomita K, Chakraborty J, Malon M, Ogura Y, Takikawa H, Okada K, Kimura T, Nojiri H “Azoxystrobin amine: A novel azoxystrobin degradation product from Bacillus licheniformis strain TAB7″ Chemosphere 273, 129663, 2021.06, doi: 10.1016/j.chemosphere.2021.129663

Laothamteep N, Kawano H, </>Vejarano F, Suzuki-Minakuchi C, Shintani M, Nojiri H, Pinyakong O “Effects of environmental factors and coexisting substrates on PAH degradation and transcriptomic responses of the defined bacterial consortium OPK” Environmental Pollution 277, 116769, 2021.05, doi: 10.1016/j.envpol.2021.116769

Masaki Shintani, Haruo Suzuki, Hideaki Nojiri, Masato Suzuki “Precise classification of antimicrobial resistance-associated IncP-2 megaplasmids for molecular epidemiological studies on Pseudomonas species” Journal of Antimicrobial Chemotherapy 77, 1202-1204, 202204, doi: 10.1093/jac/dkac006

Aktar S, Okamoto Y, Ueno S, Tahara YO, Imaizumi M, Shintani M, Miyata M, Futamata H, Nojiri H, Tashiro Y. “Incorporation of plasmid DNA in to bacterial membrane vesicles by peptidoglycan defects in Escherichia coli” Frontiers in Microbiology 12, 747606, 202111, doi: 10.3389/fmicb.2021.747606

Maejima Y, Iino T, Moriuchi R, Kushimoto K, Muraguchi Y, Fukuda K, Nojiri H, Ohkuma M, Dohra H, Kimbara K, Shintani M. “Fluviispira sanaruensis sp., nov., isolated from a brackish lake in Hamamatsu, Japan” Current Microbiology 78, 3268-3276, 202108, doi: 10.1007/s00284-021-02561-2

Takashima A, Kawano H, Ueda T, Suzuki-Minakuchi C, Okada K, Nojiri H. “A toxin-antitoxin system confers stability to the IncP-7 plasmid pCAR1” Gene 812, 146068, 202202, doi: 10.1016/j.gene.2021.146068

Mohd Din ARJB, Suzuki K, Honjo M, Amano K, Nishimura T, Moriuchi R, Dohra H, Ishizawa H, Kimura M, Tashiro Y, Futamata H “Imbalance in Carbon and Nitrogen Metabolism in Comamonas testosteroni R2 Is Caused by Negative Feedback and Rescued by L-arginine” Microbes and Environments 36, ME21050, 202110, doi: 10.1264/jsme2.ME21050

Abdul Aziz FA, Suzuki K, Honjo M, Amano K, Mohd Din ARJB, Tashiro Y, Futamata H. “Coexisting mechanisms of bacterial community are changeable even under similar stable conditions in a chemostat culture” Journal of Bioscience and Bioengineering 131, 77-83, 202101, doi: 10.1016/j.jbiosc.2020.09.009

Ning Han, Chongyang Yang, Shunya Shimomura, Chihiro Inoue, Mei-Fang Chien “Empirical Evidence of Arsenite Oxidase Gene as an Indicator Accounting for Arsenic Phytoextraction by Pteris vittata” International Journal of Environmental Research and Public Health 19, 1796, 202201, doi: 10.3390/ijerph19031796

Jiang Wu, Bo Jiang, Zhe Kong, Chongyang Yang, Lu Li, Bo Feng, Zibin Luo, Kai-Qin Xu, Takuro Kobayashi, Yu-You Li “Improved stability of up-flow anaerobic sludge blanket reactor treating starch wastewater by pre-acidification: Impact on microbial community and metabolic dynamics” Bioresource Technology 326, 124781, 202101, doi: 10.1016/j.biortech.2021.124781

簡梅芳, 楊重陽, 魏書君, John Jewish, A. Dominguez, 何攖寧, 井上千弘 “微生物・植物による環境汚染浄化機構の解明とその応用–ヒ素のファイトエキストラクションおよび多環芳香族炭化水素のリゾデグラデーションを例として–” Journal of Environmental Biotechnology (環境バイオテクノロジー学会誌) 21, 45-51, 202105, doi: 0.50963/jenvbio.21.1_45

Ashikawa Y, Fujimoto Z, Inoue K, Yamane H, Nojiri H. “Crystal structure of the ferredoxin reductase component of carbazole 1,9a-dioxygenase from Janthinobacterium sp. J3″ Acta Crystallography D Structural Biology 77, 921-932, 202107, doi: 10.1107/S2059798321005040

Tomita K, Yashiroda Y, Matsuo Y, Piotrowski J, Li S, Okamoto R, Yoshimura M, Kimura H, Kawamura Y, Kawamukai M, Boone C, Yoshida M, Nojiri H, Okada K. “Genome-wide screening of genes associated with momilactone B sensitivity in the fission yeast Schizosaccharomyces pombe” G3 11, jkab156, 202108, doi: 10.1093/g3journal/jkab156

Nanami Sakata, Takako Ishiga, Shunsuke Masuo, Yoshiteru Hashimoto, Yasuhiro Ishiga “Coronatine contributes to Pseudomonas cannabina pv. alisalensis virulence by overcoming both stomatal and apoplastic defenses in dicot and monocot plants” Molecular Plant-Microbe Interactions 34, 746-757, 202108, doi: 10.1094/MPMI-09-20-0261-R

Takuto Kumano, Sanae Hori, Satomi Watanabe, Yuzu Terashita, Hong Yang Yu, Yoshiteru Hashimoto, Toshiya Senda, Miki Senda, Michihiko Kobayashi “FAD-dependent C-glycoside–metabolizing enzymes in microorganisms: Screening, characterization, and crystal structure analysis” Proceedings of the National Academy of Sciences USA 118 e2106580118, 202110, doi: 10.1073/pnas.2106580118

Shunsuke Masuo, Chisa Saga, Kurumi Usui, Yuma Sasakura, Yukie Kawasaki, Naoki Takaya “Glucose-Derived Raspberry Ketone Produced via Engineered Escherichia coli Metabolism” Frontiers in Bioengineering and Biotechnology 10, 843843-843843, 202202, doi: 10.3389/fbioe.2022.843843

Takahiro Mori, Takuto Kumano, Haibing He, Satomi Watanabe, Miki Senda, Toshio Moriya, Naruhiko Adachi, Sanae Hori, Yuzu Terashita, Masato Kawasaki, Yoshiteru Hashimoto, Takayoshi Awakawa, Toshiya Senda, Ikuro Abe, Michihiko Kobayashi “C-Glycoside metabolism in the gut and in nature: Identification, characterization, structural analyses and distribution of C-C bond-cleaving enzymes” Nature Communications 12, 6294, 202111, doi: 10.1038/s41467-021-26585-1

Ryo Kurosawa, Ryota Sugimoto, Hiroe Imai, Kohe Atsuji, Koji Yamada, Yusuke Kawano, Iwao Ohtsu, Kengo Suzuki “Impact of spaceflight and artificial gravity on sulfur metabolism in mouse liver: sulfur metabolomic and transcriptomic analysis” Scientific Reports 11, 1-12, 202111, doi: 10.1038/s41598-021-01129-1

Yusuke Kawano, Kengo Suzuki, Iwao Ohtsu. “Development of quantitative analytical method for volatile thiol compound with LC-ESI-MS as nonvolatile derivative by integrating a thiol-specific derivatization” Bioscience, Biotechnology, and Biochemistry 85, 1932-1936, 202107, doi: 10.1093/bbb/zbab129

大津厳生 “エルゴチオネイン生産能の高い 藻類の探索” アグリバイオ, 5, 823-827, 202109, doi:

Tsukasa Fukunaga and Wataru Iwasaki “Inverse Potts model improves accuracy of phylogenetic profiling” Bioinformatics 38, 1794–1800, 202204, doi: 10.1093/bioinformatics/btac034

Tsukasa Fukunaga and Wataru Iwasaki “Mirage: Estimation of ancestral gene-copy numbers by considering different evolutionary patterns among gene families” Bioinformatics Advances 1, vbab014, 202107, doi: 10.1093/bioadv/vbab014

Takao K Suzuki, Motomu Matsui, Sira Sriswasdi, and Wataru Iwasaki “Lifestyle Evolution Analysis by Binary-State Speciation and Extinction (BiSSE) Model” Methods in Molecular Biology , (to be updated)

Motomu Matsui “Frontier of Inferring Phylogenies（分子系統解析の最前線）” JSBi Bioinformatics Review 2, 30-57, 202110, doi: 10.11234/jsbibr.2021.7

Shinkai T, Ikeyama N, Kumagai M, Ohmori H, Sakamoto M, Ohkuma M, Mitsumori M. “Prevotella lacticifex sp. nov., isolated from the rumen of cows” International Journal of Systematic and Evolutional MIcrobiology 72, 00518, 202203, doi: 10.1099/ijsem.0.005278

Delgado G, Miller AN, Hashimoto A, Iida T, Ohkuma M, Okada G. “A phylogenetic assessment of Endocalyx (Cainiaceae, Xylariales) with E.grossus comb. et stat. nov” Mycological Progress 21, 221-242, 202201, doi: 10.1007/s11557-021-01759-9

Igai K, Kitade O, Fu J, Omata K, Yonezawa T, Ohkuma M, Hongoh Y. “Fine-scale genetic diversity and putative ecotypes of oxymonad protists coinhabiting the hindgut of Reticulitermes speratus” Molecular Ecology 31, 1317-1331, 202202, doi: 10.1111/mec.16309

Kuncharoen N, Yuki M, Kudo T, Ohkuma M, Booncharoen A, Mhuantong W, Tanasupawat S. “Comparative genomics and proposal of Streptomyces radicis sp. nov., an endophytic actinomycete from roots of plants in Thailand” Microbiological Research 254, 126889, 202201, doi: 10.1016/j.micres.2021.126889

Sakai H, Nur N, Kato S, Yuki M, Shimizu M, Itoh T, Ohkuma M, Kurosawa N, Suwanto A. “Insight into the symbiotic lifestyle of DPANN archaea revealed by cultivation and genome analyses” Proceedings of the National Academy of Sciences USA 119, e2115449119, 202201, doi: 10.1073/pnas.2115449119

Ogata Y, Sakamoto M, Kumar N, Ohkuma M, Hattori M, Suda W. “Complete Genome Sequence of Megamonas funiformis Strain 1CBH44, Isolated from Human Feces” Microbiology Resource Announcements 10, e0078521, 202112, doi: 10.1128/MRA.00785-21

Omokawa H, Kurosawa N, Kato S, Itoh T, Ohkuma M, Sakai HD. “Genome Sequence of a Novel Sulfolobales Archaeon Strain, HS-7, Isolated from the Unzen Hot Spring in Japan” Microbiology Resource Announcements 10, e0058221, 202109, doi: 10.1128/MRA.00582-21

Tohno M, Tanizawa Y, Kojima Y, Sakamoto M, Ohkuma M, Kobayashi H. “Lentilactobacillus fungorum sp. nov., isolated from spent mushroom substrates” International Journal of Systematic and Evolutional MIcrobiology 71, 005184, 202112, doi: 10.1099/ijsem.0.005184

Kanchanasin P, Phongsopitanun W, Yuki M, Kudo T, Ohkuma M, Nakashima T, Tanasupawat S. “Actinomadura violacea sp. nov., a madurastatin A1-producing strain from lichen in Thailand” International Journal of Systematic and Evolutional MIcrobiology 71, 005126, 202112, doi: 10.1099/ijsem.0.005126

Sakamoto M, Ikeyama N, Yuki M, Murakami T, Mori H, Iino T, Ohkuma M. “Adlercreutzia hattorii sp. nov., an equol non-producing bacterium isolated from human faeces” International Journal of Systematic and Evolutional MIcrobiology 71, 005121, 202112, doi: 10.1099/ijsem.0.005121

Sa’fdiyah W, Hashimoto A, Okada G, Ohkuma M. “Notes on Some Interesting Sporocarp-Inhabiting Fungi Isolated from Xylarialean Fungi in Japan” Diversity 13, 574, 202111, doi: 10.3390/d13110574

Kobayashi H, Tanizawa Y, Yagura M, Sakamoto M, Ohkuma M, Tohno M. “Clostridium zeae sp. nov., isolated from corn silage” International Journal of Systematic and Evolutional MIcrobiology 71, 005088, 202111, doi: 10.1099/ijsem.0.005088

Gile GH, Taerum SJ, Jasso-Selles DE, Sillam-Dussès D, Ohkuma M, Kitade O, Noda S. “Molecular Phylogenetic Position of Microjoenia (Parabasalia: Spirotrichonymphea) from Reticulitermes and Hodotermopsis Termite Hosts” Protist 172, 125836, 202110, doi: 10.1016/j.protis.2021.125836

Iino T, Shono N, Ito K, Nakamura R, Sueoka K, Harayama S, Ohkuma M. “Nitrite as a causal factor for nitrate-dependent anaerobic corrosion of metallic iron induced by Prolixibacter strains” MicrobiologyOpen 10, e1225, 202108, doi: 10.1002/mbo3.1225

Chen Y, Nishihara A, Iino T, Ohkuma M, Haruta S. “Caldicellulosiruptor diazotrophicus sp. nov., a thermophilic, nitrogen-fixing fermentative bacterium isolated from a terrestrial hot spring in Japan” International Journal of Systematic and Evolutional MIcrobiology 71, 005014, 202109, doi: 10.1099/ijsem.0.005014

Kato S, Ohkuma M. “A Single Bacterium Capable of Oxidation and Reduction of Iron at Circumneutral pH” Microbiol. Spectr. 9, e0016121, 202109, doi: 10.1128/Spectrum.00161-21

Kobayashi H, Tanizawa Y, Sakamoto M, Ohkuma M, Tohno M. “Taxonomic status of the species Clostridium methoxybenzovorans Mechichi et al. 1999″ International Journal of Systematic and Evolutional MIcrobiology 71, 004951, 202108, doi: 10.1099/ijsem.0.004951

Saeng-in P, Kanchanasin P, Yuki M, Kudo T, Ohkuma M, Phongsopitanun W, Tanasupawat S. “Actinoplanes lichenicola sp. nov., and Actinoplanes ovalisporus sp. nov., isolated from lichen in Thailand” International Journal of Systematic and Evolutional MIcrobiology 71, 004921, 202107, doi: 10.1099/ijsem.0.004921

Tohno M, Tanizawa Y, Kojima Y, Sakamoto M, Ohkuma M, Kobayashi H. “Lactobacillus corticis sp. nov., isolated from hardwood bark” International Journal of Systematic and Evolutional MIcrobiology 71, 004882, 202108, doi: 10.1099/ijsem.0.004882

Ogata Y, Sakamoto M, Ohkuma M, Hattori M, Suda W. “Complete genome sequence of Longicatena caecimuris strain 3BBH23 isolated from healthy Japanese feces” Microbiology Resource Announcements 10, e00282-21, 202105, doi: 10.1128/MRA.00282-21

Sakamoto M, Nao Ikeyama N, Toyoda A, Murakami T, Mori H, Iino T, Ohkuma M. “Coprobacter secundus subsp. similis subsp. nov. and Solibaculum mannosilyticum gen. nov., sp. nov., isolated from human faeces” Microbiol Immunol. 65, 245-256, 202106, doi: 10.1111/1348-0421.12886

Iino T, Oshima K, Hattori M, Ohkuma M, Amachi S. “Iodidimonas gelatinilytica sp. nov., aerobic iodide-oxidizing bacteria isolated from brine water and surface seawater” Antonie Van Leeuwenhoek 114, 625-631, 202105, doi: 10.1007/s10482-021-01546-2

Ikeyama N, Sakamoto, Ohkuma M, Hiramoto S, Wang J, Tone S, Shiiba K. “Fecal Microbiota Perspective for Evaluation of Prebiotic Potential of Bamboo Hemicellulose Hydrolysate in Mice: A Preliminary Study” Microorganisms 9, 888, 202104, doi: 10.3390/microorganisms9050888

Suzuki-Hashido N, Tsuchida S, Sakamoto M, Hayakawa T, Azumano A, Seino S, Matsuda I, Ohkuma M, Ushida K. “Lactobacillus nasalidis sp. nov., isolated from the forestomach of a captive proboscis monkey (Nasalis larvatus)” International Journal of Systematic and Evolutional MIcrobiology 71, 004787, 202104, doi: 10.1099/ijsem.0.004787

Tourlousse DM, Narita K, Miura T, Sakamoto M, Ohashi A, Shiina K, Matsuda M, Miura D, Shimamura M, Ohyama Y, Yamazoe A, Uchino Y, Kameyama K, Arioka S, Kataoka J, Hisada T, Fujii K, Takahashi S, Kuroiwa M, Rokushima M, Nishiyama M, Tanaka Y, Fuchikami T, Aoki H, Kira S, Koyanagi R, Naito T, Nishiwaki M, Kumagai H, Konda M, Kasahara K, Ohkuma M, Kawasaki H, Sekiguchi Y, Terauchi J. “Validation and standardization of DNA extraction and library construction methods for metagenomics-based human fecal microbiome measurements” Microbiome 9, 95, 202104, doi: 10.1186/s40168-021-01048-3

Endoh R, Horiyama M, Ohkuma M. “D-Fructose Assimilation and Fermentation by Yeasts Belonging to Saccharomycetes: Rediscovery of Universal Phenotypes and Elucidation of Fructophilic Behaviors in Ambrosiozyma platypodis and Cyberlindnera americana” Microorganisms 9, 758, 202104, doi: 10.3390/microorganisms9040758

大熊盛也 “環境と健康の分野に有用な微生物の研究材料の整備” 生物の科学　遺伝 75, 560-565, 202111

 

公募班

Shimamori Y, Pramono AK, Kitao T, Suzuki T, Aizawa SI, Kubori T, Nagai H, Takeda S, Ando H “Isolation and Characterization of a Novel Phage SaGU1 that Infects Staphylococcus aureus Clinical Isolates from Patients with Atopic Dermatitis” Current Microbiology 78, 1267-1276, 2021.04,  doi: 10.1007/s00284-021-02395-y

Miho Hirai, Yoshihiro Takaki, Fumie Kondo, Masayuki Horie, Syun-ichi Urayama, Takuro Nunoura “RNA viral metagenome analysis from subnanogram dsRNA using fragmented and primer ligated dsRNA sequencing (FLDS)” Microbes and Environments 36, ME20152, 202105, doi: 10.1264/jsme2.ME20152

S. Hirano, S Ihara, S. Wakai, Y. Dotsuta, K. Otani, T. Kitagaki, F.Ueno, A.Okamoto “Novel Methanobacterium Strain Induces Severe Corrosion by Retrieving Electrons from Fe0 under a Freshwater Environment” Microorganisms 10, 10020270, 202201, doi: 10.3390/microorganisms10020270

W.Miran, X Long, W Huang, A Okamoto “Current Production Capability of Drug-Resistant Pathogen Enables Its Rapid Label-Free Detection Applicable to Wastewater-Based Epidemiology” Microorganisms 10, 10020472, 202202, doi: 10.3390/microorganisms10020472

Watanabe M, Igarashi K, Kato S, Kamagata Y, Kitagawa W “Complete Genome Sequence of Alphaproteobacteria bacterium Strain SO-S41, Isolated from Forest Soil” Microbiology Resource Announcements 10, e00536-21, 202107, doi: 10.1128/MRA.00536-21

Tomoe Kitao, Kohei Arasaki, Hiroki Nagai, and Tomoko Kubori. “Protocol for imaging proteins associated with Legionella-containing vacuoles in host cells” STAR Protocols 2, 100410, 202106, doi: 10.1016/j.xpro.2021.100410

北尾 公英，久堀 智子，永井 宏樹 “病原細菌レジオネラによるユビキチンを介した宿主小胞輸送システムの操作” 生化学 93, 835-839, 202106, doi: 10.14952/SEIKAGAKU.2021.930835

Takekawa N, Kubori T, Iwai T, Nagai H, Imada K “Structural basis of ubiquitin recognition by a bacterial OTU deubiquitinase LotA” Journal of Bacteriology 204, , 202201, doi: 10.1128/JB.00376-21

Kitao T, Kubori T, /u>Nagai H “Recent advances in structural studies of the Legionella pneumophila Dot/Icm type IV secretion system” Microbiology and Immunology 66, 67-74, 202201, doi: 10.1111/1348-0421.12951

Murata M, Kanamori R, Kitao T, Kubori T, Nagai H, Tagaya M, Arasaki K. “Requirement of phosphatidic acid binding for distribution of the bacterial protein Lpg1137 targeting syntaxin 17” Journal of Cell Science 135, , 202203, doi: 10.1242/jcs.259538

Takashima Y., Degawa Y., Nishizawa T., Ohta H., Narisawa K. “Aposymbiosis of a Burkholderiaceae-Related Endobacterium Impacts on Sexual Reproduction of Its Fungal Host” Microbes and Environments 35, , 202004, doi: 10.1264/jsme2.ME19167

Afri Herlambang, Yong Guo, Yusuke Takashima, Kazuhiko Narisawa, Hiroyuki Ohta, Tomoyasu Nishizawa ” Whole-genome sequence of Entomortierella parvispora E1425, a Mucoromycotan fungus associated with Burkholderiaceae-related endosymbiotic bacteria” Microbiology Resource Announcements 11, , 202201, doi: 10.1128/mra.01101-21

Tomoya Maeda, Hazuki Kotani, Chikara Furusawa “Morphological change of coiled bacterium Spirosoma linguale with acquisition of β-lactam resistance” Scientific Reports 11, 13278, 202106, doi: 10.1038/s41598-021-92787-8

Tomoya Maeda, Atsushi Shibai, Naomi Yokoi, Yumeko Tarusawa, Masako Kawada, Hazuki Kotani, Chikara Furusawa “Mutational property of newly identified mutagen L-glutamic acid γ-hydrazide in Escherichia coli” Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis 823, 11759, 202107, doi: 10.1016/j.mrfmmm.2021.111759

Tomoya Maeda, Masako Kawada, Natsue Sakata, Hazuki Kotani, Chikara Furusawa “Laboratory evolution of Mycobacterium on agar plates for analysis of resistance acquisition and drug sensitivity profiles” Scientific Reports 11, 15136, 202107, doi: 10.1038/s41598-021-94645-z

Ryutaro Kawai, Yoshihiro Toya, Kenta Miyoshi, Manami Murakami, Teppei Niide, Takaaki Horinouchi, Tomoya Maeda, Atsushi Shibai, Chikara Furusawa, Hiroshi Shimizu “Acceleration of target production in co‐culture by enhancing intermediate consumption through adaptive laboratory evolution” Biotechnology Bioengineering 119, 936-945, 202203, doi: 10.1002/bit.28007

Chiba Y, Oiki S, Zhao Y, Nagano Y, Urayama S, Hagiwara D* “Splitting of RNA-dependent RNA Polymerase is Common in Narnaviridae: Identification of a type II Divided-RdRp from Deep-Sea Fungal Isolates” Virus Evolution 7, veab095, 202111, doi: 10.1093/ve/veab095

Hirai, M. Takaki, Y. Kondo, F. Horie, M. Urayama, S. Nunoura, T. “RNA Viral Metagenome Analysis of Subnanogram dsRNA Using Fragmented and Primer Ligated dsRNA Sequencing (FLDS)” Microbes and Environments 36, ME20152, 202105, doi: 10.1264/jsme2.ME20152

Shion Hosoda, Tsukasa Fukunaga and Michiaki Hamada. “Umibato: estimation of time-varying microbial interaction using continuous-time regression hidden Markov model” Bioinformatics 37, i16-i24, 202107, doi: 10.1093/bioinformatics/btab287

Hitoshi Iuchi, Taro Matsutani, Keisuke Yamada, Shunsuke Sumi, Shion Hosoda, Shitao Zhao, Tsukasa Fukunaga and Michiaki Hamada “Representation learning applications in biological sequence analysis” Computational and Structural Biotechnology Journal 19, 3198-3208, 202105, doi: 10.1016/j.csbj.2021.05.039

Ma’ruf, I. F., Sasaki, Y., Kerbs, A., Nie?er, J., Sato, Y., Taniguchi, H., Okano, K., Kitani, S., Restiawaty, E., Akhmaloka, Honda, K. “Heterologous gene expression and characterization of two serine hydroxymethyltransferases from Thermoplasma acidophilum” Extremophiles 25, 393-402, 202107, doi: 10.1007/s00792-021-01238-9

Masuda S., Yaeno T.*, Shibata H., Yorozu S., Yamamoto S., Shirasu K “High-quality genome sequence resource of the taro pathogen Phytophthora colocasiae” Resource announcement 35, , 202202, doi: 10.1094/MPMI-05-21-0120-A

Matsui H., Nishimura T., Asai S., Masuda S., Shirasu K., Yamamoto M., Noutoshi Y., Toyoda K., and Ichinose Y. “Complete genome sequence of Pseudomonas amygdali pv. tabaci strain 6605, a causal agent of tobacco wildfire disease” Microbiology Resource Announcements 15, , 202107, doi: 10.1128/MRA.00405-21

Yazaki W., Shimasaki T., Aoki Y., Masuda S., Shibata A., Suda W., Shirasu K., Yazaki K., Sugiyama A. “Nitrogen deficiency-induced bacterial community shifts in soybean roots” Microbes and Environments 36, ME21004, 202107, doi: 10.1264/jsme2.ME21004

Shimasaki T., Masuda S., Oter R. G., Kawasaki T., Aoki Y., Shibata A., Suda W., Shirasu K., Yazaki K., Nakano R. T., Sugiyama A. “Tobacco root endophytic Arthrobacter harbors genomic features enabling the catabolism of host-specific plant specialized metabolites” mBio 12, , 202105, doi: 10.1128/mBio.00846-21

Gan P., Hiroyama R., Tsushima A., Masuda S., Shibata A., Ueno A., Kumakura N., Narusaka M., Hoat T., X., Narusawa Y., Takano Y., and Shirasu K. “Telomeres and a repeat-rich chromosome encode effector gene clusters in plant pathogenic Colletotrichum fungi” Environmental Microbiology 23, 6004-6018, 202103, doi: 10.1111/1462-2920.15490