A０１班

Yusuke Tahara, Fumihiro Sassa, Ryo Takigawa, Yuma Kurihara “Development of a microfluidic-based taste sensor using lipid polymer membrane” Japanese Journal of Applied Physics 62, SG1014, 202302, doi: 10.35848/1347-4065/acb4fa

Clelia Duran, Shiyi Zhang, Chongyang Yang, Maria Lorena Falco, Cristiana Cravo-Laureau, Chiho Suzuki-Minakuchi, Hideaki Nojiri, Robert Duran, Fumihiro Sassa “Low-cost gel-filled microwell array device for screening marine microbial consortium” Frontiers in Microbiology 13, 1031439, 202212, doi: 10.3389/fmicb.2022.1031439

Lingpu Ge, Xiao Ye, Zeping Yu, Bin Chen, Chuanjun Liu, Hao Guo, Shiyi Zhang, Fumihiro Sassa, Kenshi Hayashi “A fully inkjet-printed disposable gas sensor matrix with molecularly imprinted gas-selective materials” npj Flexible Electronics 6, 40, 202206, doi: 10.1038/s41528-022-00168-6

Shinsuke Shigeto, Norio Takeshita “Raman Microspectroscopy and Imaging of Filamentous Fungi” Microbes and Environments 37, ME22006, 202204, doi: 10.1264/jsme2.ME22006

Nanako Kanno, Shingo Kato, Takashi Itoh, Moriya Ohkuma, Shinsuke Shigeto “Resonance Raman analysis of intracellular vitamin B12 analogs in methanogenic archaea” Analytical Science Advances 3, 165-173, 202206, doi: 10.1002/ansa.202100042

Nanako Kanno, Shingo Kato, Moriya Ohkuma, Motomu Matsui, Wataru Iwasaki, Shinsuke Shigeto “Nondestructive microbial discrimination using single-cell Raman spectra and random forest machine learning algorithm” STAR Protocols 3, 101812, 202211, doi: 10.1016/j.xpro.2022.101812

Risa Sasaki, Shogo Toda, Takaiku Sakamoto, Eiji Sakuradani, Shinsuke Shigeto “Simultaneous Imaging and Characterization of Polyunsaturated Fatty Acids, Carotenoids, and Microcrystalline Guanine in Single Aurantiochytrium limacinum Cells with Linear and Nonlinear Raman Microspectroscopy” The Journal of Physical Chemistry B 127, 2708-2718, 202303, doi: 10.1021/acs.jpcb.3c00302

Tokunou Y, Toyofuku M, Nomura N “Physiological Benefits of Oxygen-Terminating Extracellular Electron Transfer” mBio 13, e01957-22, 202212, doi: 10.1128/mbio.01957-22

Katayama Y, Toyofuku M, Kishimura A “Nanostructure Control of an Antibiotic-Based Polyion Complex Using a Series of Polycations with Different Side-Chain Modification Rates” Macromolecular Rapid Communications 43, 2200316, 202210, doi: 10.1002/marc.202200316

Chen YC, Ratchara Kalawong R, Toyofuku M, Eberl L “The role of peptidoglycan hydrolases in the formation and toxicity of Pseudomonas aeruginosa membrane vesicles” microLife 3, 1-9, 202206, doi: 10.1093/femsml/uqac009

Kikuchi Y, Toyofuku M, Ichinaka Y, Kiyokawa T, Obana N, Nomura N, Taoka A “Physical Properties and Shifting of the Extracellular Membrane Vesicles Attached to Living Bacterial Cell Surfaces” Microbiology Spectrum 21, e02165-22, 202212, doi: 10.1128/spectrum.02165-22

Toyofuku M, Kikuchi Y, Taoka A “A Single Shot of Vesicles” Microbes and Environments 37, ME22083, 202212, doi: 10.1264/jsme2.ME22083

Toyofuku M, Schild S, Kaparakis-Liaskos M, Eberl L “Composition and functions of bacterial membrane vesicles” Nature Reviews Microbiology 21, 415-430, 202303, doi: 10.1038/s41579-023-00875-5

Kunoh T, Yamamoto T, Prasad M, Ono E, Li X, Sugimoto S, Iida E, Obana N, Takeda M, Nomura N, Utada AS “Porous Pellicle Formation of a Filamentous Bacterium, Leptothrix” Applied and Environmental Microbiology 88, e0134122, 202212, doi: 10.1128/aem.01341-22

Shunsuke Tomita*, Hiroyuki Kusada* (*Co-first), Naoshi Kojima, Sayaka Ishihara, Koyomi Miyazaki, Hideyuki Tamaki, and Ryoji Kurita. “Polymer-based chemical nose systems for optical pattern recognition of gut microbiota” Chemical Science 13, 5830-5837, 202204, doi: 10.1039/D2SC00510G

Kana Morinaga*, Hiroyuki Kusada* (*Co-first), and Hideyuki Tamaki “Bile Salt Hydrolases with Extended Substrate Specificity Confer a High Level of Resistance to Bile Toxicity on Atopobiaceae Bacteria“ International Journal of Molecular Sciences 23, 10980, 202209, doi: 10.3390/ijms231810980

Tomoki Nishioka, Kana Morinaga, and Hideyuki Tamaki “Complete Genome Sequence of Flavobacterium sp. Strain GSB-24, Isolated from inside Dendrobium Roots“ Microbiology Resource Announcements 12, e01343-22, 202302, doi: 10.1128/mra.01343-22

Tomoki Nishioka and Hideyuki Tamaki “Improved Cultivation and Isolation of Diverse Endophytic Bacteria Inhabiting Dendrobium Roots by Using Simply Modified Agar Media” Microbiology Spectrum 10, e0223822, 202210, doi: 10.1128/spectrum.02238-22

Hiroyuki Kusada, Masanori Arita, Masanori Tohno, and Hideyuki Tamaki “Bile Salt Hydrolase Degrades β-Lactam Antibiotics and Confers Antibiotic Resistance on Lactobacillus paragasseri” Frontiers in Microbiology 6, 858263, 202206, doi: 10.3389/fmicb.2022.858263

Hidehiro Ishizawa, Yukiko Kaji, Yuki Shimizu, Masashi Kuroda, Daisuke Inoue, Ayaka Makino, Ryosuke Nakai, Hideyuki Tamaki, Masaaki Morikawa, and Michihiko Ike “Spontaneous Cell Lysis by Pelomonas saccharophila MRB3 Provides Plant-Available Macronutrients in Hydroponic Growth Media and Accelerates Biomass Production of Duckweed” Journal of Water and Environment Technology 21, 49-58, 202302, doi: 10.2965/jwet.22-054

Atsushi C. Suzuki, Kenta Sugiura, Megumu Tsujimoto, Ryosuke Nakai, Sandra J. McInnes, Hiroshi Kagoshima, and Satoshi Imura “A New Species of Bisexual Milnesium (Eutardigrada: Apochela) Having Aberrant Claws from Innhovde, Dronning Maud Land, East Antarctica” Zoological Science　40, 1-16, 202302, doi: 10.2108/zs220085

Ayaka Makino*, Ryosuke Nakai* (*Co-first), Yasuko Yoneda, Tadashi Toyama, Yasuhiro Tanaka, Xian-Ying Meng, Kazuhiro Mori, Michihiko Ike, Masaaki Morikawa, Yoichi Kamagata, and Hideyuki Tamaki “Isolation of Aquatic Plant Growth-Promoting Bacteria for the Floating Plant Duckweed (Lemna minor)” Microorganisms 10, 1564, 202208, doi: 10.3390/microorganisms10081564

Zichen He, Takeshi Naganuma, Ryosuke Nakai, Satoshi Imura, Megumu Tsujimoto, and Peter Convey “Microbiomic Analysis of Bacteria Associated with Rock Tripe Lichens in Continental and Maritime Antarctic Regions” Journal of Fungi 8, 817, 202208, doi: 10.3390/jof8080817

Qi Liu, Zichen He, Takeshi Naganuma, Ryosuke Nakai, Luz María Rodríguez, Rafael Carreño, and Franco Urbani “Phylotypic Diversity of Bacteria Associated with Speleothems of a Silicate Cave in a Guiana Shield Tepui” Microorganisms 10, 1395, 202207, doi: 10.3390/microorganisms10071395

Tomoki Nishioka, Kana Morinaga, and Hideyuki Tamaki “Complete Genome Sequence of Dyella sp. Strain GSA-30, a Predominant Endophytic Bacterium of Dendrobium Plants” Microbiology Resource Announcements 12, e01338-22, 202303, doi: 10.1128/mra.01338-22

Jian-qiang Jin, Takaaki Sato, Shin-ichi Hachisuka, Haruyuki Atomi “A lipoate-protein ligase Is required for de novo lipoyl-protein biosynthesis in the hyperthermophilic archaeon Thermococcus kodakarensis” Applied and Environmental Microbiology 88, e0064422, 202207, doi: 10.1128/aem.00644-22

Mamoru Oshiki, Yoshihiro Takaki, Miho Hirai, Takuro Nunoura, Atsushi Kamigaito, Satoshi Okabe “Metagenomic analysis of five phylogenetically distant Anammox bacterial enrichment cultures” Microbes and Environments 37, ME22017, 202207, doi: 10.1264/jsme2.ME22017

Sofia Medvedeva, Jiarui Sun, Natalya Yutin, Eugene V Koonin, Takuro Nunoura, Christian Rinke, Mart Krupovic “Three families of Asgard archaeal viruses identified in metagenome-assembled genomes “ Nature Microbiology 7, 962-973, 202207, doi: 10.1038/s41564-022-01144-6

Yukari Yoshida-Takashima, Yoshihiro Takaki, Mitsuhiro Yoshida, Yi Zhang, Takuro Nunoura, Ken Takai  “Genomic insights into phage-host interaction in the deep-sea chemolithoautotrophic Campylobacterota, Nitratiruptor” ISME Communications 2, 108, 202211, doi: 10.1038/s43705-022-00194-5

Takaaki Sato, Sanae Hodo Utashima, Yuta Yoshii, Kosuke Hirata, Shuichiro Kanda, Yushi Onoda, Jian-Qiang Jin, Suyi Xiao, Ryoko Minami, Hikaru Fukushima, Ayako Noguchi, Yoshiyuki Manabe, Koichi Fukase, Haruyuki Atomi “A non-carboxylating pentose bisphosphate pathway in halophilic archaea “ Communications Biology 5, 1290, 202211, doi: 10.1038/s42003-022-04247-2

Ángela Ares, Sanae Sakai, Toshio Sasaki, Shigeru Shimamura, Satoshi Mitarai, Takuro Nunoura “Sequestration and efflux largely account for cadmium and copper resistance in the deep-sea Nitratiruptor sp. SB155-2 (phylum Campylobacterota)” Environmental Microbiology 24, 6144-6163, 202212, doi: 10.1111/1462-2920.16255

Yu Su, Yuta Michimori, Haruyuki Atomi “Biochemical and genetic examination of two aminotransferases from the hyperthermophilic archaeon Thermococcus kodakarensis” Frontiers in Microbiology 14, 1126218, 202302, doi: 10.3389/fmicb.2023.1126218

Yuto Chiba, Akinori Yabuki, Yoshihiro Takaki, Takuro Nunoura, Syun-ichi Urayama, Daisuke Hagiwara “The first identification of a Narnavirus in Bigyra, a marine protist” Microbes and Environments 38, ME22077, 202303, doi: 10.1264/jsme2.ME22077

Kohtaro Hirao, Immacolata Speciale, Anna Notaro, Yoshiyuki Manabe, Yoshiaki Teramoto, Takaaki Sato, Haruyuki Atomi, Antonio Molinaro, Yoshihiro Ueda, Cristina De Castro, Koichi Fukase “Structural determination and chemical synthesis of the N-glycan from the hyperthermophilic archaeon Thermococcus kodakarensis” Angewandte Chemie International Edition 62, e202218655, 202303, doi: 10.1002/anie.202218655

Takeaki Tezuka, Shumpei Nitta, Yasuo Ohnishi “Involvement of BldC in the Formation of Physiologically Mature Sporangium in Actinoplanes missouriensis” Journal of Bacteriology 204,  e00189-22, 202208, doi: 10.1128/jb.00189-22

Seiji Kawai, Ryota Hagihara, Kazuo Shin-ya, Yohei Katsuyama, Yasuo Ohnishi “Bacterial Avenalumic Acid Biosynthesis Includes Substitution of an Aromatic Amino Group for Hydride by Nitrous Acid Dependent Diazotization” Angewandte Chemie International Edition 61,  e202211728, 202209, doi: 10.1002/anie.202211728

Chananan Ngamcharungchit, Hiroki Kanto, Akira Také , Bungonsiri Intra, Atsuko Matsumoto, Watanalai Panbangred , Yuki Inahashi “Amycolatopsis iheyensis sp. nov., a new species of the genus Amycolatopsis isolated from soil on Iheya island, Japan” International Journal of Systematic and Evolutionary Microbiology 73, , 202303, doi: 10.1099/ijsem.0.005757

Yuki Yamada​, Yuki Inahashi, Yuki Goda​, Akira Také, Atsuko Matsumoto “Rhizohabitans arisaemae gen. nov., sp. nov., a novel actinomycete of the family Streptosporangiaceae” International Journal of Systematic and Evolutionary Microbiology 73, , 202303, doi: 10.1099/ijsem.0.005803

 

A02班

Hayakawa M, Tokuda M, Kaneko K, Nakamichi K, Yamamoto Y, Kamijo T, Umeki H, Chiba R, Yamada R, Mori M, Yanagiya K, Moriuchi R, Yuki M, Dohra H, Futamata H, Ohkuma M, Kimbara K, Shintani M “Hitherto-unnoticed self-transmissible plasmids widely distributed among different environments in Japan” Applied and Environmental Microbiology 80, e011422, 202209, doi: 10.1128/aem.01114-22

Obi N, Moriuchi R, Dohra H, Kimbara K, Shintani M, Yoshida N “Complete genome sequence of Rhodococcus qingshengii N9T-4” Microbiology Resource Announcements 11, e0089122, 202212, doi: 10.1128/mra.00891-22

Shintani M, Suzuki H, Nojiri H, Suzuki M “Reconsideration of the previously classified incompatibility groups of plasmids, IncP-1 and IncP-11” Environmental Microbiology 25, 1071-1076, 202302, doi: 10.1111/1462-2920.16345

Yang C, Han N, Inoue C, Yang YL, Nojiri H, Ho YN, Chien MF “Rhizospheric plant-microbe synergistic interactions achieve efficient arsenic phytoextraction by Pteris vittata” Journal of Hazardous Materials 434, 128870, 202207, doi: 10.1016/j.jhazmat.2022.128870

Naloka K, Jaroonrunganan J, Woratecha N, Khondee N, Nojiri H, Pinyakong O. “Physiological changes in Rhodococcus ruber S103 immobilized on biobooms using low-cost media enhance stress tolerance and crude oil-degrading activity” Scientific Reports 12, 10474, 202206, doi: 10.1038/s41598-022-14488-0

Itani A, Masuo S, Yamamoto R, Serizawa T, Fukasawa Y, Takaya N, Toyota M, Betsuyaku S, Takeshita N. “Local calcium signal transmission in mycelial network exhibits decentralized stress responses” PNAS nexus 2, 1-10, 202303, doi: 10.1093/pnasnexus/pgad012

Gupta A, Badum R, Takamori N, Minakawa H, Masuo S, Takaya N, Matsumi N. “Microbial pyrazine diamine is a novel electrolyte additive that shields high-voltage LiNi1/3Co1/3Mn1/3O2 cathodes” Scientific Reports 12, 19888, 202211, doi: 10.1038/s41598-022-22018-1

Minakawa H, Masuo S, Takada K, Kumakura T, Katsuki N, Kaneko T, Takaya N. “Fermentative production of 2-(4-aminophenyl)ethylamine to synthesize a novel heat-resistant biopolyurea” Bioscience, Biotechnology and Biochemistry 86, 1114-1121, 202208, doi: 10.1093/bbb/zbac077

You Y, Doi Y, Maeda N, Masuo S, Takeshita N, Takaya N. “Carboxypeptidase G and pterin deaminase metabolic pathways degrade folic acid in Variovorax sp. F1” BMC Microbiology 22, 225, 202209, doi: 10.1186/s12866-022-02643-6

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 2569, 327-342, 202209, doi: 10.1007/978-1-0716-2691-7_16

Sakamoto, M., Ikeyama, N., Iino, T., and Ohkuma, M “Growth of succinate consumer Dialister hominis is supported by Bacteroides thetaiotaomicron” Anaerobe 77, 102642, 202210, doi: 10.1016/j.anaerobe.2022.102642

Muramatsu, S., Hirose, S., Iino, T., Ohkuma, M., Hanada, S., and Haruta, S “Neotabrizicola shimadae gen. nov., sp. nov., an aerobic anoxygenic phototrophic bacterium harbouring photosynthetic genes in the family Rhodobacteraceae, isolated from a terrestrial hot spring” Antonie van Leeuwenhoek 115, 731-740, 202206, doi: 10.1007/s10482-022-01728-6

Kato, S., Masuda, S., Shibata, A., Shirasu, K., and Ohkuma, M “Insights into ecological roles of uncultivated bacteria in Katase hot spring sediment from long-read metagenomics” Frontiers in Microbiology 13, 1045931, 202211, doi: 10.3389/fmicb.2022.1045931

Kato, S., Itoh, T., Iino, T., and Ohkuma, M “Sideroxyarcus emersonii gen. nov. sp. nov., a neutrophilic, microaerobic iron- and thiosulfate-oxidizing bacterium isolated from iron-rich wetland sediment” International Journal of Systematic and Evolutionary Microbiology 72, 5347, 202204, doi: 10.1099/ijsem.0.005347

Sakamoto, M., Sakurai, N., Tanno, H., Iino, T., Ohkuma, M., and Endo, A “Genome-based, phenotypic and chemotaxonomic classification of Faecalibacterium strains: proposal of three novel species Faecalibacterium duncaniae sp. nov., Faecalibacterium hattorii sp. nov. and Faecalibacterium gallinarum sp. nov.” International Journal of Systematic and Evolutionary Microbiology 72, 5379, 202204, doi: 10.1099/ijsem.0.005379

Kato, S., Ogasawara, A., Itoh, T., Sakai, H., Shimizu, M., Yuki, M., Kaneko, M., Takashina, T., and Ohkuma, M. “Nanobdella aerobiophila gen. nov., sp. nov., a thermoacidophilic, obligate ectosymbiotic archaeon, and proposal of Nanobdellaceae fam. nov., Nanobdellales ord. nov. and Nanobdellia class. nov” International Journal of Systematic and Evolutionary Microbiology 72, 5489, 202208, doi: 10.1099/ijsem.0.005489

Tohno, M., Tanizawa, Y., Sawada, H., Sakamoto, M., Ohkuma, M., and Kobayashi, H. “A novel species of lactic acid bacteria, Ligilactobacillus pabuli sp. nov., isolated from alfalfa silage” International Journal of Systematic and Evolutionary Microbiology 72, 5587, 202210, doi: 10.1099/ijsem.0.005587

Hamana, K., Hayashi, H., Furuchi, T., Niitsu, M., Sakamoto, M., Itoh, T., and Ohkuma, M. “Additional cellular polyamine data in the twenty bacterial phyla, Acidobacteria, Armatimonadetes, Atribacterota, Balneolaeota, Chlorobi, Chloroflexi, Chrysiogenetes, Deferribacteres, Elusimicrobia, Fusobacteria, Gemmatimonadetes, Ignavibacteriae, Kiritimatiellaeota, Lentisphaerae, Nitrospirae, Planctomycetes, Rhodothermaeota, Spirochaetes, Synergistetes, and Verrucomicrobia” Microbial Resources and Systematics 38, 17-30, 202206, doi:

Kinjo, Y., Bourguignon, T., Hongoh, Y., Lo, N., Tokuda, G., and Ohkuma, M.  “Coevolution of metabolic pathways in blattodea and their Blattabacterium endosymbionts, and comparisons with other insect-bacteria symbioses” Microbiology Spectrum 10, 02779-22, 202210, doi: 10.1128/spectrum.02779-22

Aoki, H., Yuki, M., Shimizu, M., Hongoh, Y., Ohkuma, M., and Yamagata, Y. “Agarose gel microcapsules enable easy-to-prepare, picolitre-scale, single-cell genomics, yielding high-coverage genome sequences” Scientific Reports 12, 17014-17026, 202210, doi: 10.1038/s41598-022-20923-z

Namwonga, S., Pandeya, S., Yuki, M., Kudo, T., Ohkuma, M., and Tanasupawatc, S. “Characterization, genome annotation, and antibacterial properties of Actinopolyspora saharensis BKK2” ScienceAsia 48, 635-641, 202207, doi: 10.2306/scienceasia1513-1874.2022.087

Yamada M, Endoh R, Masumoto H, Yoshihashi Y, Ohkuma M, Degawa Y “Taxonomic study of polymorphic basidiomycetous fungi Sirobasidium and Sirotrema: Sirobasidium apiculatum sp. nov., Phaeotremella translucens comb. nov. and rediscovery of Sirobasidium japonicum in Japan” Antonie van Leeuwenhoek 115, 1421-1436, 202212, doi: 10.1007/s10482-022-01787-9

Hamana K, Hayashi H, Furuchi T, Niitsu M, Itoh T, Sakamoto M, Ohkuma M. “Additional polyamine analysis of newly validated archaeal halophiles, methanogens, thermophiles, acidothermophiles, and mesophilic ammonia-oxidizers for a chemotaxonomy in the phyla Euryarchaeota, Crenarchaeota, and Thaumarchaeota. -Polyamine catalogues of bacterial and archaeal extremophiles- (XI)” Journal of Japanese Society for Extremophiles 21, 24-38, 202209, doi:

Hamana K, Hayashi H, Furuchi T, Uemura T, Niitsu M, Itoh T, Sakamoto M, Ohkuma M. “Polyamine analysis of acidophiles, alkaliphiles, halophiles and thermophiles belonging to the bacterial phyla Actinobacteria, Aquificae, Bacteroidetes, Cyanobacteria, Desulfobacterota, Firmicutes, Tenericutes, and Thermotogae. -Polyamine catalogues of bacterial and archaeal extremophiles- (Ⅻ)” Journal of Japanese Society for Extremophiles 21, , 202209, doi:

Kato S, Itoh T, Wu L, Ma J, Ohkuma M. “Complete Genome Sequence of Vulcanisaeta souniana Strain IC-059, a Hyperthermophilic Archaeon Isolated from Hot Spring Water in Japan” Microbiology Resource Announcements 12, e01080-22, 202301, doi: 10.1128/mra.01080-22

 

公募班

Dawoon Jung, Koshi Machida, Yoichi Nakao, Jeffrey S. Owen, Shan He, Tomonori Kindaichi, Akiyoshi Ohashi, Yoshiteru Aoi “Cultivation of previously uncultured sponge-associated bacteria using advanced cultivation techniques: A perspective on possible key mechanisms” Frontiers in Marine Science 9, 1-13, 202008, doi: 10.3389/fmars.2022.963277

Kozgunova E, Yoshida MW, Reski R, Goshima G. “Spindle motility skews division site determination during asymmetric cell division in Physcomitrella” Nature communications 13, 2488-2488, 202205, doi: 10.1038/s41467-022-30239-1

Ta KN, Yoshida MW, Tezuka T, Shimizu-Sato S, Nosaka-Takahashi M, Toyoda A, Suzuki T, Goshima G, Sato Y. “Control of plant cell growth and proliferation by MO25A, a conserved major component of the Mammalian Sterile20-like kinase pathway” Plant and Cell Physiology 64, 336-351, 202303, doi: 10.1093/pcp/pcad005

Kurita G, Goshima G, Uesaka K. “Draft Genome Sequences of Two Dothideomycetes strains, NU30 and NU200, Derived from the Marine Environment around Sugashima, Japan” Microbiology Resource Announcements 12, e01217-22, 202305, doi: 10.1128/mra.01217-22

Yoshida MW, Hakozaki M, Goshima G. “Armadillo repeat-containing kinesin represents the versatile plus-end-directed transporter in Physcomitrella” Nature Plants 9, 733-748, 202305, doi: 10.1038/s41477-023-01397-x

Yi P, Goshima G. “Division site determination during asymmetric cell division in plants” Plant Cell 34, 2120-2139, 202206, doi: 10.1093/plcell/koac069

Shinya Sugimoto, Yuki Kinjo “Instantaneous Clearing of Biofilm (iCBiofilm): an optical approach to revisit bacterial and fungal biofilm imaging” Communications Biology 6, 38, 202301, doi: 10.1038/s42003-022-04396-4

Tatsuki Kunoh, Tatsuya Yamamoto, Erika Ono, Shinya Sugimoto, Minoru Takeda, Nobuhiko Nomura “Identification of lthB, a gene encoding a putative glycosyltransferase family 8 protein required for Leptothrix sheath formation” Applied and Environmental Microbiology 89, e0191922, 202303, doi: 10.1128/aem.01919-22

Takahashi K, Li X, Kunoh T, Nagasawa R, Takeshita N, Utada AS. “Novel Insights into Microbial Behavior Gleaned Using Microfluidics” Microbes and Environments 37, ME22089, , doi: 10.1264/jsme2.ME22089

Kubori T, Lee J, Kim H, Yamazaki K, Nishikawa M, Kitao T, Oh BH, Nagai H. “Reversible modification of mitochondrial ADP/ATP translocases by paired Legionella effector proteins” Proc Natl Acad Sci U S A. 119, e2122872119, 202206, doi: 10.1073/pnas.2122872119

Mitsunaka S, Yamazaki K, Pramono AK, Ikeuchi M, Kitao T, Ohara N, Kubori T, Nagai H, Ando H. “Synthetic engineering and biological containment of bacteriophages” Proc Natl Acad Sci U S A. 119, e2206739119, 202211, doi: 10.1073/pnas.2206739119

Warren GD, Kitao T, Franklin TG, Nguyen JV, Geurink PP, Kubori T, Nagai H, Pruneda JN “Mechanism of Lys6 poly-ubiquitin specificity by the L. pneumophila deubiquitinase LotA” Molecular Cell 83, P105-120.E5, 202301, doi: 10.1016/j.molcel.2022.11.022

Pruneda JN, Nguyen JV, Nagai H, Kubori T “Bacterial usurpation of the OTU deubiquitinase fold” FEBS Journal , , 202301, doi: 10.1111/febs.16725

Yusuke Takashima, Mai Suyama, Kohei Yamamoto, Tomohiko Ri, Kazuhiko Narisawa, Yousuke Degawa. “Revisiting the isolation source after the first discovery: Myconymphaea yatsukahoi on excrements of Lithobiomorpha (Chilopoda)” Mycoscience 63, 176-180, 202207, doi: 10.47371/mycosci.2022.04.003

Takashi Hirasawa and Tomoya Maeda “Adaptive Laboratory Evolution of Microorganisms: Methodology and Application for Bioproduction“ Microorganisms 11, 92, 202212, doi: 10.3390/microorganisms11010092

Junichiro Iwasawa, Tomoya Maeda, Atsushi Shibai, Hazuki Kotani, Masako Kawada, Chikara Furusawa “Analysis of the evolution of resistance to multiple antibiotics enables prediction of the Escherichia coli phenotype-based fitness landscape“ PLoS Biology 20, 1-19, 202212, doi: 10.1371/journal.pbio.3001920

Angela Kranz, Tino Polen, Christian Kotulla, Annette Arndt, Graziella Bosco, Michael Bussmann, Ava Chattopadhyay, Annette Cramer, Cedric-Farhad Davoudi, Ursula Degner, Ramon Diesveld, Raphael Freiherr von Boeselager, Kim Gärtner, Cornelia Gätgens, Tobias Georgi, Christian Geraths, Sabine Haas, Antonia Heyer, Max Hünnefeld, Takeru Ishige, Armin Kabus, Nicolai Kallscheuer, Larissa Kever, Simon Klaffl, Britta Kleine, Martina Kočan, Abigail Koch-Koerfges, Kim J Kraxner, Andreas Krug, Aileen Krüger, Andreas Küberl, Mohamed Labib, Christian Lange, Christina Mack, Tomoya Maeda, Regina Mahr, Stephan Majda, Andrea Michel, Xenia Morosov, Olga Müller, Arun M Nanda, Jens Nickel, Jennifer Pahlke, Eugen Pfeifer, Laura Platzen, Paul Ramp, Doris Rittmann, Steffen Schaffer, Sandra Scheele, Stephanie Spelberg, Julia Schulte, Jens-Eric Schweitzer, Georg Sindelar, Ulrike Sorger-Herrmann, Markus Spelberg, Corinna Stansen, Apilaasha Tharmasothirajan, Jan van Ooyen, Philana van Summeren-Wesenhagen, Michael Vogt, Sabrina Witthoff, Lingfeng Zhu, Bernhard J Eikmanns, Marco Oldiges, Georg Schaumann, Meike Baumgart, Melanie Brocker, Lothar Eggeling, Roland Freudl, Julia Frunzke, Jan Marienhagen, Volker F Wendisch, Michael Bott “A manually curated compendium of expression profiles for the microbial cell factory Corynebacterium glutamicum“ Scientific Data 9, 594, 202210, doi: 10.1038/s41597-022-01706-7

Urayama, Syun-Ichi; Takaki, Yoshihiro; Chiba, Yuto; Zhao, Yanjie; Kuroki, Misa; Hagiwara, Daisuke; Nunoura, Takuro “Eukaryotic Microbial RNA Viruses-Acute or Persistent? Insights into Their Function in the Aquatic Ecosystem” Microbes and Environments 37, ME22034, 202204, doi: 10.1264/jsme2.ME22034

Nao Matsukawa, Chiaki Tsumori, Kouhei Ohnishi, Kenji Kai “Discovery of Cyclic Lipopeptides Ralstopeptins A and B from Ralstonia solanacearum Species Complex and Analysis of Biosynthetic Gene Evolution” ACS Chemical Biology 18, 572-582, 202303, doi: 10.1021/acschembio.2c00907

Tsukasa Fukunaga, Wataru Iwasaki “Mirage 2.0: fast and memory-efficient reconstruction of gene-content evolution considering heterogeneous evolutionary patterns among gene families” Bioinformatics 38, 4039-4041, 202208, doi: 10.1093/bioinformatics/btac433

Tsukasa Fukunaga, Michiaki Hamada “LinAliFold and CentroidLinAliFold: fast RNA consensus secondary structure prediction for aligned sequences using beam search methods” Bioinformatics Advances 2, vbac078, 202210, doi: 10.1093/bioadv/vbac078

Euki Yazaki, Akinori Yabuki, Yuki Nishimura, Takashi Shiratori, Tetsuo Hashimoto, Yuji Inagaki “Microheliella maris possesses the most gene-rich mitochondrial genome in Diaphoretickes” Frontiers in Ecology and Evolution 10, , 202211, doi: 10.3389/fevo.2022.1030570

Kazumori Mise, Wataru Iwasaki “Unexpected absence of ribosomal protein genes from metagenome-assembled genomes” ISME Communications 2, 118, 202211, doi: 10.1038/s43705-022-00204-6

Yoko Masuda*, Kazumori Mise*, Zhenxing Xu, Zhengcheng Zhang, Yutaka Shiratori, Keishi Senoo, and Hideomi Itoh (*: co-first authorship) “Global soil metagenomics reveals ubiquitous yet previously-hidden predominance of Deltaproteobacteria in nitrogen-fixing microbiome” bioRxiv , , 202212, doi: 10.1101/2022.12.09.519847