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Cai JC, Moriyama M, Fukatsu T. High temperature treatment optimized for symbiont suppression in an obligatory gut bacterial symbiosis in the stinkbug Plautia stali. Applied Entomology and Zoology in press.

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García-Lozano M, Henzler C, Porras MÁG, Pons I, Berasategui A, Lanz C, Budde H, Oguchi K, Matsuura Y, Pauchet Y, Goffredi S, Fukatsu T, Windsor D, Salem H. (2024) Paleocene origin of a streamlined digestive symbiosis in leaf beetles. Current Biology 34: 1–14.

Koga R, Moriyama M, Nozaki T, Fukatsu T. (2024) Genome analysis of “Candidatus Aschnera chinzeii”, the bacterial endosymbiont of the blood-sucking bat fly Penicillidia jenynsii (Insecta: Diptera: Nycteribiidae). Frontiers in Microbiology 14: 1336919.


Wang Y, Morishima T, Sezaki M, Sato R, Nakato G, Fukuda S, Kobiyama K, Ishii KJ, Li Y, Takizawa H. (2023) Akkermansia muciniphila induces slow extramedullary hematopoiesis via cooperative IL-1R/TLR signals. EMBO Reports: e57485.

Kanai Y, Tsuru S, Furusawa C. (2023) Insertion sequences: Simple mobile elements with rich ecological and evolutionary structures. Currrent Opinion in Systems Biology 36: 100481.

Genthon A, Nozoe T, Peliti L, Lacoste D. (2023) Cell lineage statistics with incomplete population trees. PRX Life 1: 013014.

Nishida K, Adachi H, Moriyama M, Futahashi R, Hanson PE, Kondo S. (2023) Butterfly wing color made of pigmented liquid Author links open overlay panel. Cell Reports 42(8): 112917.

Arai H, Anbutsu H, Nishikawa Y, Kogawa M, Ishii K, Hosokawa M, Lin S, Ueda M, Nakai M, Kunimi Y, Harumoto T, Kageyama D, Takeyama H, Inoue M. (2023) Combined actions of bacteriophage-encoded genes in Wolbachia-induced male lethality. iScience 26(6): 106842.

Kawamoto S, Uemura K, Hori N, Takayasu L, Konishi Y, Katoh K, Matsumoto T, Suzuki M, Sakai Y, Matsudaira T, Adachi T, Ohtani N, Standley DM, Suda W, Fukuda S, Hara E. (2023) Bacterial induction of B cell senescence promotes age-related changes in the gut microbiota. Nature Cell Biology 25(6): 865-876.

Koganezawa Y, Wakamoto Y, Sato M, Umetani M. (2023) Detecting photoactivatable Cre-mediated gene deletion efficiency in Escherichia coli. Bio-protocol 13(11): e4685.

Tsutsumi M, Saito N, Koyabu D, Furusawa C. (2023) A deep learning approach for morphological feature extraction based on variational auto-encoder: an application to mandible shape. NPJ Systems Biology and Applications 9: 30.

Zhu X, Sakamoto S, Ishii C, Smith MD, Ito K, Obayashi M, Unger L, Hasegawa Y, Kurokawa S, Kishimoto T, Li H, Hatano S, Wang TH, Yoshikai Y, Kano SI, Fukuda S, Sanada K, Calabresi PA, Kamiya A. (2023) Dectin-1 signaling on colonic γδ T cells promotes psychosocial stress responses. Nature Immunology 24(4): 625-636.

Omachi Y, Saito N, Furusawa C. (2023) Rare-event sampling analysis uncovers the fitness landscape of the genetic code. PLOS Computational Biology 19(4): e1011034.

Takano S, Takahashi H, Yama Y, Miyazaki R, Furusawa C, Tsuru S. (2023) Inference of transcriptome signatures of Escherichia coli in long-term stationary phase. Scientific Report 13(1): 5647.

Uchida Y, Takeda H, Furusawa C, Irie N. (2023) Stability in gene expression and body-plan development leads to evolutionary conservation. EvoDevo 14(1): 4.

Seike T, Takekata H, Uchida Y, Sakata N, Furusawa C, Matsuda F. (2023) Wickerhamiella bidentis sp. nov., a novel yeast species isolated from flowers and insects in Japan. International Journal of Systenatic and Evolutionary Microbiology 73(3): 005739.

Oishi S, Moriyama M, Mizutani M, Futahashi R, Fukatsu T. (2023) Regulation and remodeling of microbial symbiosis in insect metamorphosis. Proceedings of the National Academy of Sciences of the United States of America 120(40): e2304879120.

Harumoto T. (2023) Self-stabilization mechanism encoded by a bacterial toxin facilitates reproductive parasitism. Current Biology 33(18): 4021-4029.

Oishi S, Moriyama M, Fukatsu T. (2023) Structural remodeling of midgut symbiotic organ and altered food flow upon metamorphosis of the stinkbug Plautia stali. Applied Entomology and Zoology 58: 393–399.

Moriyama M, Nishide Y, Toyoda A, Ito T, Fukatsu T. (2023) Complete genomes of mutualistic bacterial co-symbionts “Candidatus Sulcia muelleri” and “Candidatus Nasuia deltocephalinicola” of the rice green leafhopper Nephotettix cincticeps. Microbiology Resource Announcements 12: e00353-23.

Fukatsu T, Gottlieb Y, Duron O, Graf J. (2023) Microbial associates of blood-sucking arthropods and other animals: relevance to their physiology, ecology and evolution. Frontiers in Microbiology 14: 1256275.

Salem H, Biedermann P, Fukatsu T. (2023) Diversity of beetles and associated microorganisms. Frontiers in Microbiology 14: 1252736.

Tanaka K, Tanigawa N, Song I, Komatsu T, Kuriki Y, Tanaka Y, Fukudo S, Urano Y, Fukuda S. (2023) A protease activity-based machine-learning approach as a complementary tool for conventional diagnosis of diarrhea-predominant irritable bowel syndrome. Frontiers in Microbiology 14: 1179534.

Kiefer JST, Bauer E, Okude G, Fukatsu T, Kaltenpoth M, Engl T. (2023) Cuticle supplementation and nitrogen recycling by a dual bacterial symbiosis in a family of xylophagous beetles. The ISME Journal 17: 1029-1039.

Hirota B, Koga R, Fukatsu T. (2023) Localization of symbiotic bacteria in embryogenesis of the lesser grain borer Rhyzopertha dominica and the African powderpost beetle Lyctus africanus (Coleoptera: Bostrichidae). Applied Entomology and Zoology 58(3): 291–296.

*Nagai M, *Moriyama M, *Ishii C, Mori H, Watanabe H, Nakahara T, Yamada T, Ishikawa D, Ishikawa T, Hirayama A, Kimura I, Nagahara A, Naito T, Fukuda S, Ichinohe T. (2023) High body temperature increases gut microbiota-dependent host resistance to influenza A virus and SARS-CoV-2 infection. Nature Communications 14: 3863.
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Oishi S, Harumoto T, Okamoto-Furuta K, Moriyama M, Fukatsu T. (2023) Mechanisms underpinning morphogenesis of a symbiotic organ specialized for hosting an indispensable microbial symbiont in stinkbugs. mBio 14(2): e00522-23.

*Kageyama D, *Harumoto T, Nagamine K, Fujiwara A, Sugimoto T, Jouraku A, Tamura M, Katoh T, Watada M. (2023) A male-killing gene encoded by a symbiotic virus of Drosophila. Nature Communications 14(1):1357. (*Equal contributions)

Morita H, Kano C, Ishii C, Kagata N, Ishikawa T, Hirayama A, Uchiyama Y, Hara S, Nakamura T, Fukuda S. (2023) Bacteroides uniformis and its preferred substrate, α-cyclodextrin, enhance endurance exercise performance in mice and human males. Science Advances 9: add2120.


Miyaho K, Sanada K, Kurokawa S, Tanaka A, Tachibana T, Ishii C, Noda Y, Nakajima S, Fukuda S, Mimura M, Kishimoto T, Iwanami A. (2022) The potential impact of age on gut microbiota in patients with major depressive disorder: a secondary analysis of the prospective observational study. Journal of Personalized Medicine 12(11): 1827.

Iwasawa J, Maeda T, Shibai A, Kotani H, Kawada M, Furusawa C. (2022) Analysis of the evolution of resistance to multiple antibiotics enables prediction of the Escherichia coli phenotype-based fitness landscape. PLOS Biology 20(12): e3001920.

Yamauchi, S., Nozoe, T., Okura, R., Kussell, E., Wakamoto, Y. (2022) A unified framework for measuring selection on cellular lineages and traits. eLife 11: e72299.

Kiyama H, Kakizawa S, Sasajima Y, Tahara Y, Miyata M. (2022) Reconstitution of a minimal motility system based on Spiroplasma swimming by two bacterial actins in a synthetic minimal bacterium. Science Advance 8: eabo7490.

Sezaki M, Hayashi Y, Nakato G, Wang Y, Nakata S, Biswas S, Morishima T, Fakruddin M, Moon J, Ahn S, Kim P, Miyamoto Y, Baba H, Fukuda S, Takizawa H. (2022) Hematopoietic stem and progenitor cells integrate microbial signals to promote post-inflammation gut tissue repair. The EMBO Journal 41(22): e110712.

Nishide Y, Nagamine K, Kageyama D, Moriyama M, Futahashi R, Fukatsu T. (2022) A new antimicrobial peptide, Pentatomicin, from the stinkbug Plautia stali. Scientific Reports 12: 16503.

*Kakizawa S, *Hosokawa T, Oguchi K, Miyakoshi K, Fukatsu T. (2022) Spiroplasma as facultative bacterial symbionts of stinkbugs. Frontiers in Microbiology 13: 1044771.
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Shibai A, Kotani H, Kawada M, Yokoi N, Furusawa C. (2022) Development of a device that generates a temperature gradient in a microtiter plate for microbial culture. SLAS Technology 27(5): 279-283.

Moriyama M, Fukatsu T. (2022) Host’s demand for essential amino acids is compensated by an extracellular bacterial symbiont in a hemipteran insect model. Frontiers in Physiology 13: 1028409.

Yakabe K, Higashi S, Akiyama M, Mori H, Murakami T, Toyoda A, Sugiyama Y, Kishino S, Okano K, Hirayama A, Gotoh A, Li S, Mori T, Katayama T, Ogawa J, Fukuda S, Hase K, Kim YG. (2022) Dietary-protein sources modulate host susceptibility to Clostridioides difficile infection through the gut microbiota. Cell Reports 40(11): 111332.

Yoshida Y, Shimizu I, Shimada A, Nakahara K, Yanagisawa S, Kubo M, Fukuda S, Ishii C, Yamamoto H, Ishikawa T, Kano K, Aoki J, Katsuumi G, Suda M, Ozaki K, Yoshida Y, Okuda S, Ohta S, Okamoto S, Minokoshi Y, Oda K, Sasaoka T, Abe M, Sakimura K, Kubota Y, Yoshimura N, Kajimura S, Zuriaga M, Walsh K, Soga T, Minamino T. (2022) Brown adipose tissue dysfunction promotes heart failure via a trimethylamine N-oxide-dependent mechanism. Scientific Reports 12: 14883.

Shibai A, Kotani H, Sakata N, Furusawa C, Tsuru S. Purifying selection enduringly acts on the sequence evolution of highly expressed proteins in Escherichia coli. G3: Genes, Genomes, Genetics 12(11): jkac235.

Koga R, Moriyama M, Onodera-Tanifuji N, Ishii Y, Takai H, Mizutani M, Oguchi K, Okura R, Suzuki S, Gotoh Y, Hayashi T, Seki M, Suzuki Y, Nishide Y, Hosokawa T, Wakamoto Y, Furusawa C, Fukatsu T. (2022) Single mutation makes Escherichia coli an insect mutualist. Nature Microbiology 7(8): 1141-1150.

*Nishide Y, *Oguchi K, Murakami M, Moriyama M, Koga R, Fukatsu T (2022) Endosymbiotic bacteria of the boar louse Haematopinus apri (Insecta: Phthiraptera: Anoplura). Frontiers in Microbiology 13: 962252.
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Yukawa-Muto Y, Kamiya T, Fujii H, Mori H, Toyoda A, Sato I, Konishi Y, Hirayama A, Hara E, Fukuda S, Kawada N, Ohtani N. (2022) Distinct responsiveness to rifaximin in patients with hepatic encephalopathy depends on functional gut microbial species. Hepatology Communications 6(8): 2090-2104.

Tanaka Y, Yamashita R, Kawashima J, Mori H, Kurokawa K, Fukuda S, Gotoh Y, Nakamura K, Hayashi T, Kasahara Y, Sato Y, Fukudo S. (2022) Omics profiles of fecal and oral microbiota change in irritable bowel syndrome patients with diarrhea and symptom exacerbation. Journal of Gastroenterology 57: 748-760.

Jangid A, Fukuda S, Seki M, Suzuki Y, Taylor TD, Ohno H, Prakash T. (2022) Gut microbiota alternation under the intestinal epithelium-specific knockout of mouse Piga gene. Scientific Reports 12: 10812.

Yamagishi R, Kamachi F, Nakamura M, Yamazaki S, Kamiya T, Takasugi M, Cheng Y, Nonaka Y, Yukawa-Muto Y, Thuy LTT, Harada Y, Arai T, Loo TM, Yoshimoto S, Ando T, Nakajima M, Taguchi H, Ishikawa T, Akiba H, Miyake S, Kubo M, Iwakura Y, Fukuda S, Chen WY, Kawada N, Rudensky A, Nakae S, Hara E, Ohtani N. (2022) Gasdermin D-mediated release of IL-33 from senescent hepatic stellate cells promotes obesity-associated hepatocellular carcinoma. Science Immunology 7(72): eabl7209.

*Moriyama M., *Hayashi T., Fukatsu T. (2022) A mucin protein predominantly expressed in the female-specific symbiotic organ of the stinkbug Plautia stali. Scientific Reports 12: 7782.
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Harumoto T., Fukatsu T. (2022) Perplexing dynamics of Wolbachia proteins for cytoplasmic incompatibility. PLOS Biology 20(5): e3001644.

Koganezawa Y, Umetani M, Sato M, Wakamoto Y (2022) History-dependent physiological adaptation to lethal genetic modification under antibiotic exposur. eLife 11: e74486.

Jangid A, Fukuda S, Suzuki Y, Taylor TD, Ohno H, Prakash T. (2022) Shotgun metagenomic sequencing revealed the prebiotic potential of a grain-based diet in mice. Scientific Reports 12: 6748.

Kure A, Tsukimi T, Ishii C, Aw W, Obana N, Nakato G, Hirayama A, Kawano H, China T, Shimizu F, Nagata M, Isotani S, Muto S, Horie S, Fukuda S. (2022) Gut environment changes due to androgen deprivation therapy in patients with prostate cancer. Prostate Cancer and Prostatic Diseases: DOI: 10.1038/s41391-022-00536-3.

Shiroma H, Shiba S, Erawijantari PP, Takamaru H, Yamada M, Sakamoto T, Kanemitsu Y, Mizutani S, Soga T, Saito Y, Shibata T, Fukuda S, Yachida S, Yamada T (2022) Surgical treatment for colorectal cancer partially restores gut microbiome and metabolome traits. mSystems: e00018-22.

Ishihara S, Sato T, Fujikado N, Miyazaki H, Yoshimoto T, Yamamoto H, Fukuda S, Katagiri K (2022) Rap1 prevents colitogenic Th17 cell expansion and facilitates Treg cell differentiation and distal TCR signaling. Communications Biology 5: 206.

Jangid A, Fukuda S, Kato T, Seki M, Suzuki Y, Taylor TD, Ohno H, Prakash T (2022) Impact of dietary fructooligosaccharides (FOS) on murine gut microbiota and intestinal IgA secretion. 3 Biotech 12: 56.

Kanai Y, Tsuru S, Furusawa C (2022) Experimental demonstration of operon formation catalyzed by insertion sequence. Nucleic Acids Research gkc004: 6511971.

Fukumori K, Oguchi K, Ikeda H, Shinohara T, Tanahashi M, Moriyama M, Koga R, Fukatsu T (2022) Evolutionary dynamics of host organs for microbial symbiosis in tortoise leaf beetles (Coleoptera: Chrysomelidae: Cassidinae). mBio 13(1): e03691-21.

Maruyama Y, Nishimoto Y, Umezawa K, Kawamata R, Ichiba Y, Tsutsumi K, Kimura M, Murakami S, Kakizawa Y, Kumagai T, Yamada T, Fukuda S (2022) Comparison of oral metabolome profiles of stimulated saliva, unstimulated saliva, and mouth-rinsed water. Scientific Reports 12: 689.


Furusawa C, Tanabe K, Ishii C, Kagata N, Tomita M, Fukuda S (2021) Decoding gut microbiota by imaging analysis of fecal samples. iScience 24: 103481.

Seike T, Sakata N, Shimoda C, Niki H, Furusawa C (2021) The sixth transmembrane region of a pheromone G-protein coupled receptor, Map3, is implicated in discrimination of closely related pheromones in Schizosaccharomyces pombe. Genetics 219(4): iyab150.

Connell S, Kawashima M, Nakamura S, Imada T, Yamamoto H, Tsubota K, Fukuda S (2021) Lactoferrin ameliorates dry eye disease potentially through enhancement of short-chain fatty acid production by gut microbiota in mice. International Journal of Molecular Sciences 22(22): 12384.

Yokoyama Y, Shinohara K, Kitamura N, Nakamura A, Onoue A, Tanaka K, Hirayama A, Aw W, Nakamura S, Ogawa Y, Fukuda S, Tsubota K, Watanabe M (2021) Metabolic effects of bee larva-derived protein in mice: assessment of an alternative protein source. Foods 10(11): 2642.

Shimaya T, Okura R, Wakamoto Y, Takeuchi K A (2021) Scale invariance of cell size fluctuations in starving bacteria. Communications Physics 4: 238.

Nishiumi F, Kawai Y, Nakura Y, Yoshimura M, Wu HN, Hamaguchi M, Kakizawa S, Suzuki Y, Glass JI, Yanagihara I (2021) Blockade of endoplasmic reticulum stress-induced cell death by Ureaplasma parvum vacuolating factor. Cellular Microbiology 23(12): e13392.

Kurokawa S, Tomizawa Y, Miyaho K, Ishii D, Takamiya A, Ishii C, Sanada K, Fukuda S, Mimura M, Kishimoto T (2021) Fecal microbial and metabolomic change during treatment course for depression: an observational study. Journal of Psychiatric Research 140: 45-52.

Ejima R, Akiyama M, Sato H, Tomioka S, Yakabe K, Kimizuka T, Seki N, Fujimura Y, Hirayama A, Fukuda S, Hase K, Kim YG (2021) Seaweed dietary fiber sodium alginate suppresses the migration of colonic inflammatory monocytes and diet-induced metabolic syndrome via the gut microbiota. Nutrients 13(8): 2812.

Maeda T, Shibai A, Yokoi N, Tarusawa Y, Kawada M, Kotani H, Furusawa C (2021) Mutational property of newly identified mutagen L-glutamic acid γ-hydrazide in Escherichia coli. Mutation Research 823: 111759.

Maeda T, Kawada M, Sakata N, Kotani H, Furusawa C (2021) Laboratory evolution of Mycobacterium on agar plates for analysis of resistance acquisition and drug sensitivity profiles. Scientific Reports 11: 15136.

Maeda T, Kotani H, Furusawa C (2021) Morphological change of coiled bacterium Spirosoma linguale with acquisition of β-lactam resistance. Scientific Reports 11: 13278.

*Koga R, *Tanahashi M, Nikoh N, Hosokawa T, Meng XY, Moriyama M, Fukatsu T (2021) Host’s guardian protein counters degenerative symbiont evolution. Proceedings of the National Academy of Sciences of the United States of America 118 (25): e2103957118. (* Equal contributions)

Kiefer JST, Batsukh S, Bauer E, Hirota B, Weiss B, Wierz JC, Fukatsu T, Kaltenpoth M, Engl T (2021) Inhibition of a nutritional endosymbiont by glyphosate abolishes mutualistic benefit on cuticle synthesis in Oryzaephilus surinamensis. Communications Biology 4: 554.

Sato S, Shimizu E, He J, Ogawa M, Asai K, Yazu H, Rusch R, Yamane M, Yang F, Fukuda S, Kawakami Y, Tsubota K, Ogawa Y (2021) Positive effects of oral antibiotic administration in murine chronic graft-versus-host disease. International Journal of Molecular Sciences 22(7): 3745.

Nakamura A, Kurihara S, Takahashi D, Ohashi W, Nakamura Y, Kimura S, Onuki M, Kume A, Sasazawa Y, Furusawa Y, Obata Y, Fukuda S, Saiki S, Matsumoto M, Hase K (2021) Symbiotic polyamine metabolism regulates epithelial proliferation and macrophage differentiation in the colon. Nature Communications 12: 2105.

*Nishino T, *Hosokawa T, Meng XY, Koga R, Moriyama M, Fukatsu T (2021) Environmental acquisition of gut symbiotic bacteria in the saw-toothed stinkbug Megymenum gracilicorne (Hemiptera: Pentatomoidea: Dinidoridae). Zoological Science 38 (3): 213-222. (*Equal contributions)

Fukatsu T (2021) The long and winding road for symbiont and yolk protein to host oocyte. mBio 12(1): e02997-20.

Seita A, Nakaoka H, Okura R, Wakamoto Y (2021) Intrinsic growth heterogeneity of mouse leukemia cells underlies differential susceptibility to a growth-inhibiting anticancer drug. PLoS One 16(2): e0236534.

Tomizawa Y, Kurokawa S, Ishii D, Miyaho K, Ishii C, Sanada K, Fukuda S, Mimura M, Kishimoto T (2021) Effects of psychotropics on the microbiome in patients with depression and anxiety: Considerations in a naturalistic clinical setting. International Journal of Neuropsychopharmacology 24(2): 97-107.

Nishide Y, Kageyama D, Tanaka Y, Yokoi K, Jouraku A, Futahashi R, Fukatsu T (2021)
Effectiveness of orally-delivered double-stranded RNA on gene silencing in the stinkbug Plautia stali. PLoS One 16(1): e0245081.


Maeda T, Iwasawa J, Kotani H, Sakata N, Kawada M, Horinouchi T, Sakai A, Tanabe K, Furusawa C (2020) High-throughput laboratory evolution reveals evolutionary constraints in Escherichia coli. Nature Communications 11: 5970.

Ogawa Y, Miyoshi C, Obana N, Yajima K, Hotta-Hirashima N, Ikkyu A, Kanno S, Soga T, Fukuda S, Yanagisawa M (2020) Gut microbiota depletion by chronic antibiotic treatment alters the sleep/wake architecture and sleep EEG power spectra in mice. Plautia stali. Scientific Reports 10: 19554.

Hirota B, Meng XY, Fukatsu T (2020) Bacteriome-associated endosymbiotic bacteria of Nosodendron tree sap beetles (Coleoptera: Nosodendridae). Frontiers in Microbiology 11: 588841.

Nikoh N., Tsuchida T., Koga R., Oshima K., Hattori M., Fukatsu T (2020) Genome analysis of "Candidatus Regiella insecticola" strain TUt, facultative bacterial symbiont of the pea aphid Acyrthosiphon pisum. Microbiology Resource Announcements 9: e00598-20.

Caballero-Flores G, Pickard JM, Fukuda S, Inohara N, Núñez G (2020) An enteric pathogen subverts colonization resistance by evading competition for amino acids in the gut. Cell Host & Microbe 28(4): 526-533.

Nakamura A, Yokoyama Y, Tanaka K, Benegiamo G, Hirayama A, Zhu Q, Kitamura N, Sugizaki T, Morimoto K, Itoh H, Fukuda S, Auwerx J, Tsubota K, Watanabe M (2020) Asperuloside improves obesity and type 2 diabetes through modulation of gut microbiota and metabolic signaling. iScience 23(9): 101522.

Salem H, Kirsch R, Pauchet Y, Berasategui A, Fukumori K, Moriyama M, Cripps M, Windsor D, Fukatsu T, Gerardo NM (2020) Symbiont digestive range reflects host plant breadth in herbivorous beetles. Current Biology 30(15): 2875-2886.

Mishima E, Ichijo M, Kawabe T, Kikuchi K, Akiyama Y, Toyohara T, Suzuki T, Suzuki C, Asao A, Ishii N, Fukuda S, Abe T (2020) Germ-free conditions modulate host purine metabolism, exacerbating adenine-induced kidney damage. Toxins 12(9): E547.

Yang J, Yang Y, Ishii M, Nagata M, Aw W, Obana N, Tomita M, Nomura N, Fukuda S (2020) Does the gut microbiota modulate host physiology through polymicrobial biofilms? Microbes and Environment 35(3): ME20037.

Horinouchi T, Maeda T, Kotani H, Furusawa C (2020) Suppression of antibiotic resistance evolution by single-gene deletion. Plautia stali. Scientific Reports 10: 4178.

Toju H, Abe MS, Ishii C, Hori Y, Fujita H, Fukuda S (2020) Scoring species for synthetic community design: network analyses of functional core microbiomes. Frontiers in Microbiology 11: 1361.

Tsukimi T, Watabe T, Tanaka K, Sato MP, Suzuki H, Tomita M, Fukuda S (2020) Draft genome sequences of Bifidobacterium animalis consecutively isolated from healthy Japanese individuals. Journal of Genomics 8: 37-42.

Erawijantari PP, Mizutani S, Shiroma H, Shiba S, Nakajima T, Sakamoto T, Saito Y, Fukuda S, Yachida S, Yamada T (2020) Influence of gastrectomy for gastric cancer treatment on faecal microbiome and metabolome profiles. Gut 69(8): 1404-1415.

Jangid A, Fukuda S, Seki M, Horiuchi T, Suzuki Y, Taylor TD, Ohno H, Prakash T (2020) Association of colitis with gut-microbiota dysbiosis in clathrin adapter AP-1B knockout mice. PLoS One 15(3): e0228358.

Nagao-Kitamoto H, Leslie JL, Kitamoto S, Jin C, Thomsson KA, Gillilland MG 3rd, Kuffa P, Goto Y, Jenq RR, Ishii C, Hirayama A, Seekatz AM, Martens EC, Eaton KA, Kao JY, Fukuda S, Higgins PDR, Karlsson NG, Young VB, Kamada N (2020) Interleukin-22-mediated host glycosylation prevents Clostridioides difficile infection by modulating the metabolic activity of the gut microbiota. Nature Medicine 26(4): 608–617.

Kitamoto S, Alteri CJ, Rodrigues M, Nagao-Kitamoto H, Sugihara K, Himpsl SD, Bazzi M, Miyoshi M, Nishioka T, Hayashi A, Morhardt TL, Kuffa P, Grasberger H, El-Zaatari M, Bishu S, Ishii C, Hirayama A, Eaton KA, Dogan B, Simpson KW, Inohara N, Mobley HLT, Kao JY, Fukuda S, Barnich N, Kamada N (2020) Dietary L-serine confers a competitive fitness advantage to Enterobacteriaceae in the inflamed gut. Nature Microbiology 5(1): 116–125.


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柿澤茂行 (2023) “Development and utilization of Mycoplasma minimal cells” Journal of Japanese Society for Extremophiles 21(2): 27-32.

深津武馬 (2023) 「見えない世界に進化のカギがあった 生き物同士がつながり合う『共生』の本質に迫る」 超・進化論 生命40億年 地球のルールに迫る

柿澤茂行 (2023) 「細菌の全ゲノム合成」 実験医学、41(3): 432-436.

木山花, 柿澤茂行, 宮田真人 (2023) 「遊泳する『最小の』細菌を作り出すことに成功」 日本ゲノム微生物学会誌、26: 1.

水谷雅希、古賀隆一、深津武馬、柿澤茂行 (2023) 「細菌の全ゲノムクローニングと未培養細菌への応用」 未培養微生物研究の最新動向 ed. 青柳秀紀. pp82-91.


福田真嗣 (2022) 「『もう一つの臓器』を知り、健康と疾患を制御する!」 改訂版もっとよくわかる!腸内細菌叢

古賀隆一(2022)「小事が大事−たった一つの変異で相利共生は進化しうる」実験医学: 40(19): 3132.

古澤力(2022)「微生物進化実験を用いた進化過程の定量解析」生物の科学 遺伝 76(1): 32.


柿澤茂行(2021)「人工生命? 人工のゲノムをもった細菌」生物工学会誌 99(6): 303.

芝井厚(2021)「実験室内で細菌の進化を観察・制御する」生物工学会誌 99(9): 493.


月見友哉、伊藤光平、福田真嗣(2020)「QIIME2:Wet研究者も使える細菌叢解析ツール」実験医学 38 (1): 103-114.

石井千晴、福田真嗣(2020)「メタボロゲノミクスが解き明かす腸内細菌叢の機能」実験医学 38(8): 1306-1312.

若本祐一(2020)ラマン分光を用いた細胞内の遺伝子発現の推定.実験医学増刊 「機械学習を生命科学に使う!」(小林徹也,杉村薫, 舟橋啓 編) 38(20): 3376-3383

古澤力, 前田智也, 芝井厚(2020)大腸菌進化実験の表現型・遺伝子型解析:微生物生態系進化の予測と制御へ向けて、実験医学38(18):3072-3077

福田真嗣(2020)なぜ腸内デザインに数理科学や群衆生態学が必要なのか? 実験医学38(18): 3038-3046

金子邦彦, 澤井哲, 高木拓明, 古澤力(2020)細胞の理論生物学: ダイナミクスの視点から, 東京大学出版会



科学新聞 「腸内細菌の機能切り替え 幼虫→成虫『変態が契機』、菌保持から植物消化吸収に変化 産総研 昆虫遺伝子操作でメカニズム解明」

日刊工業新聞 「発熱による腸内細菌叢の活性化、コロナ・インフル抑制 東大など確認」

荘内日報 「体温上昇 ウイルスへの抵抗力高める 慶應先端研など研究グループ 重症化抑えるメカニズム解明」

山形新聞 「体温⤴ ウイルスへの抵抗力も⤴ 先端研など仕組み解明 腸内細菌活性化『二次胆汁酸』増、重症化抑え」

「発熱がウイルス性肺炎の重症化を抑制するメカニズムを解明 ―重症化の抑制には38℃以上の体温で活性化した腸内細菌叢が必要だった―」

Yahoo!ニュース 「雄の発生止める遺伝子特定 ショウジョウバエから発見」




Lab BRAINS(アズワン株式会社) 「生物はなぜ動くのか?最小の "動く" 合成生命「JCVI-syn3B」を作成!」

「細胞運命の不平等さを定量化する ―細胞系譜情報を利用した統計解析手法を構築―」


Labroots “Scientists Create a Mobile Organism With the Smallest Possible Genome”

New Atlas “Synthetic bacteria becomes smallest lifeform that can move around”

Sci-News “Japanese Scientists Create ‘Smallest Mobile Lifeform’”

AZO Life Sciences “Research could advance our understanding of evolution and the origins of cell motility”

テック・アイ技術情報研究所ブログ 「細胞運動能の起源と進化に迫る ~自ら動く『最小の』生命体を作り出すことに成功~」

時事通信 「2種類の遺伝子で遊泳能力=細菌に導入実験―大阪公立大と産総研」

朝日新聞デジタル 「たんぱく2種あれば泳ぎ出す 自ら動く「最小の生命体」作製に成功」

日本経済新聞 「大阪公立大と産総研、細胞運動能の起源と進化を合成細菌を用いて明らかにする研究について発表」

Science 2.0, Scientific blogging “Syn3: This Synthetic Bacteria Is The Smallest Mobile Lifeform Ever (Artificially) Created”

Nanowerk “Smallest mobile lifeform created”

Bioengineer.org “Smallest mobile lifeform created”

Newswise “Smallest mobile lifeform created”

Phys.org “Smallest mobile lifeform created”

Science Magazine “Smallest mobile lifeform created”

EurekAlert! by The American Association for the Advancement of Science (AAAS) “Smallest mobile lifeform created- Understanding of cell motility’s evolution swims forward”

現代化学(10月号) 「大腸菌―突然変異でカメムシの共生細菌になる」

マイナビニュース/Yahoo!ニュース 「産総研が大腸菌を昆虫共生細菌へ進化させることに成功!」

科学新聞 「大腸菌を昆虫共生細菌に進化 1つのスイッチで有益なパートナーに」

Phys.org “Engineering a symbiotic relationship between E. coli and stinkbugs reveals clues about how symbiosis develops”

日刊工業新聞 「大腸菌、昆虫の生存支える 産総研 共生細菌への進化成功」

The Scientist “Best Bugs: How E. coli Evolves into a Stinkbug Symbiont”

ナゾロジー 「大腸菌を昆虫の中で「共生細菌」に進化させることに成功!」

Nature Asia 「微生物学:1つのスイッチによって、大腸菌が昆虫にとって有益なパートナーになる」

Nature Microbiology News & Views “Fast track to mutualism”





山形新聞 「AI活用し顕微鏡画像から腸内細菌叢を推定」

プレス発表(理化学研究所 慶應義塾大学先端生命科学研究所)


PNAS Perspective “A new protein protects a symbiotic relationship”
Wilson A. C. C. (2021) A new protein protects a symbiotic relationship. Proceedings of the National Academy of Sciences of the United States of America 118 (30): e2109637118.

Science Editor’s choice
Ash C. (2021) Symbiosis: Costly symbiont inheritance. Science 373 (6551): 177.

MONOist/Yahoo!ニュース 「次世代へ共生細菌を伝達するために必要な宿主タンパク質を発見」


JST News 「腸内細菌叢がなくなると睡眠パターンに異常が

フジサンケイビジネスアイ 「ロボットによる微生物の大規模進化実験」


プレス発表(理化学研究所 東京大学大学院理学系研究科 科学技術振興機構)



オンライン特別講義 岐阜県立恵那高等学校1~2年生


アカデミック・ハイスクール事業基調講演会 静岡県立焼津中央高等学校1~3年生

オンライン特別講義 石川県立金沢泉丘高等学校1年生

オンライン特別講義 愛知県立豊田西高等学校1~2年生

オンライン特別講義 京都府立南陽高等学校附属中学校2~3年生

オンライン特別講義 石川県立七尾高等学校1年生

特別講演会 愛知県立時習館高等学校1~2年生

「生きもの“超・進化論”ワールド ~キッズ&ティーンズ特別編~」
「第3集 すべては微生物から始まった ~見えないスーパーパワー~」

オンライン特別講義 埼玉県立川越女子高等学校1年生


オンライン特別講義 埼玉県立浦和高等学校1~2年生

オンライン特別講義 愛知県立明和高等学校1~2年生

オンライン特別講義 関西学院高等部1年生

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オンライン特別講義 洛南高等学校1~2年生

オンライン特別講義 愛知県立旭丘高等学校1~3年生

オンライン特別講義 名城大学附属高等学校2年生

オンライン特別講義 南山高等・中学校女子部 高校3年生

「共生・進化・生物多様性 〜生きものにわくわくしつづける喜びとともに〜」



オンライン特別講義 大阪府立高津高等学校1~3年生

オンライン特別講義 京都府立南陽高等学校1年生

オンライン特別講義 京都府立嵯峨野高等学校3年生

オンライン特別講義 関西学院高等部2年生

オンライン特別講義 京都府立西舞鶴高等学校1年生

オンライン科学講演会 茨城県立日立第一高等学校・附属中学校1~3年生

オンライン特別講義 大阪府立豊中高等学校1~2年生

オンライン特別講義 大阪府立天王寺高等学校1~2年生


オンライン特別講義 神奈川県立横須賀高等学校1~2年生

オンライン特別講義 神奈川県立柏陽高等学校1~2年生


オンライン特別講義 東京都立小石川中等教育学校1~6年生

オンライン特別講義 東京都立青山高等学校3年生

オンライン特別講義 東京都立青山高等学校1年生

オンライン特別講義 東京都立戸山高等学校1~2年生

オンライン特別講義 愛知県立岡崎北高等学校1年生

オンライン特別講義 京都府立洛北高等学校1年生


オンライン特別講義 京都府立洛北高等学校1年生

「共生するならどっち? ~微生物か、ロボットか~」

オンライン特別講義 京都府立洛北高等学校3年生