Publications

Articles

• Nagakubo, T., Tahara YO, Miyata M, *Nomura N, *Toyofuku M, Mycolic acid-containing bacteria trigger distinct types of membrane vesicles through different routes. iScience, 2021, doi:10.1016/j.isci.2020.102015.

• Vidaillac C, Yong VFL, Aschtgen MS, Qu J, Yang S, Xu G, Seng ZJ, Brown AC, Ali MK, Jaggi TK, Sankaran J, Foo YH, Righetti F, Nedumaran AM, Mac Aogáin M, Roizman D, Richard JA, Rogers TR, Toyofuku M, Luo D, Loh E, Wohland T, Czarny B, Horvat JC, Hansbro PM, Yang L, Li L, Normark S, Henriques Normark B, Chotirmall SH. Sex Steroids Induce Membrane Stress Responses and Virulence Properties in Pseudomonas aeruginosa. mBio. 2020 Sep 29;11(5):e01774-20. doi: 10.1128/mBio.01774-20.

• Vitale A, Paszti S, Takahashi K, Toyofuku M, Pessi G, Eberl L. Mapping of the Denitrification Pathway in Burkholderia thailandensis by Genome-Wide Mutant Profiling. Journal of Bacteriology. 2020 Sep 8:JB.00304-20. doi: 10.1128/JB.00304-20.

• Nguyen BVG, Nagakubo T, Toyofuku M, Nomura N, Utada AS. Synergy between Sophorolipid Biosurfactant and SDS Increases the Efficiency of P. aeruginosa Biofilm Disruption. Langmuir. 2020 Jun 16;36(23):6411-6420. doi: 10.1021/acs.langmuir.0c00643. Epub 2020 Jun 1.

• Horiue H, Sasaki M, Yoshikawa Y, Toyofuku M, Shigeto S. Raman spectroscopic signatures of carotenoids and polyenes enable label-free visualization of microbial distributions within pink biofilms. Sci Rep. 2020 May 7;10(1):7704. doi: 10.1038/s41598-020-64737-3.

• Morinaga K, Nagakubo T, Nomura N, Toyofuku *M. Involvement of membrane vesicles in long-chain-AHL delivery in Paracoccus species. Environmental Microbiology Reports. 2020 Apr 14. doi: 10.1111/1758-2229.12843. [Epub ahead of print].

• Kikuchi Y, Obana N, Toyofuku M, Kodera N, Soma T, Ando T, Fukumori Y, *Nomura N, *Taoka A. Diversity of physical properties of bacterial extracellular membrane vesicles revealed through atomic force microscopy phase imaging. Nanoscale, 2020 Apr 14;12(14):7950-7959. doi: 10.1039/c9nr10850e. Epub 2020 Mar 31.

•  *Kunoh T, Morinaga K, Sugimoto S, Miyazaki S, Toyofuku M, Iwasaki K, Nomura N, *Utada AS. Polyfunctional nanofibril appendages mediate attachment, filamentation, and filament adaptability in Leptothrix cholodnii. ACS Nano, 2019 doi: 10.1021/acsnano.9b04663.

• †Andreoni F, †Toyofuku M, Menzi C, Kalawong R, Mairpady Shambat S, Francois P, *Zinkernagel AS, *Eberl L. Antibiotics stimulate vesicles formation in Staphylococcus aureus in a phage-dependent and independent fashion and via different routes. Antimicrobial Agents and Chemotherapy, 63(2): e01439-18 doi:10.1128/AAC.01439-18.

• Kobayashi S, Hira D, Yoshida K, Toyofuku M, Shida Y, Ogasawara W, Yamaguchi T, Araki N, *Oshiki M. Nitric oxide production from nitrite reduction and hydroxylamine oxidation by copper-containing dissimilatory nitrite reductase (NirK) from the aerobic ammonia-oxidizing archaeon, Nitrososphaera viennensis. Microbes and Environments, 33(4):428-434. doi: 10.1264/jsme2.ME18058.

• Prasad M, Obana N, Sakai K, Nagakubo T, Miyazaki S, Toyofuku M, Fattaccioli J, Nomura N, Utada AS. Point Mutations Lead to Increased Levels of c-di-GMP and Phenotypic Changes to the Colony Biofilm Morphology in Alcanivorax borkumensis SK2. Microbes and Environments. 2019 Mar 30;34(1):104-107. doi: 10.1264/jsme2.ME18151. Epub 2019 Feb 16.

• Nakanishi Y, Yamamoto T, Obana N, Toyofuku M, *Nomura N, Kaneko A. Spatial distribution and chemical tolerance of Streptococcus mutans within dual-species cariogenic biofilms. Microbes and Environments, doi:10.1264/jsme2.ME18113, in press.

• Morinaga K, Yamamoto T, Nomura N, *Toyofuku M. Paracoccus denitrificans can utilize various long-chain N-acylhomoserine lactones and sequester them in membrane vesicles. Environmental Microbiology Reports,10: 651-654, 2018.

•  *Toyofuku M, Cárcamo-Oyarce G, Yamamoto T, Eisenstein F, Hsiao C, Kurosawa M, Gademann K, *Pilhofer M, Nomura N, and *Eberl L. Prophage-triggered membrane vesicle formation through peptidoglycan damage in Bacillus subtilis. Nature Communications, 8:481, 2017.

• Kiyokawa T, Usuba R., Obana N, Yokokawa M, Toyofuku M, Suzuki H, *Nomura N. A versatile and rapidly deployable device to enable spatiotemporal observations of the sessile microbes and environmental surfaces. Microbes and Environments, 32:81-91, 2017.

• Toyofuku M, Morinaga K, Hashimoto Y, Uhl J, Shimamura H, Inaba H, Schmitt-Kopplin P, Eberl L, *Nomura N. Membrane vesicle-mediated bacterial communication. The ISME Journal, 11:1504-1509, 2017.

• Yoshida K, *Toyofuku M, Obana N, Nomura N. Biofilm formation by Paracoccus denitrificans requires a type I secretion system dependent adhesin BapA. FEMS Microbiology Letters, 364:fnx029, 2017.

• Yang J, †Toyofuku M, Sakai R, *Nomura N. Influence of the alginate production on cell-to-cell communication in Pseudomonas aeruginosa PAO1. Environmental Microbiology Reports, 9:239-249, 2017.

• Turnbull L, †*Toyofuku M, Hynen AL, Kurosawa M, Pessi G, Petty NK, Osvath SR, Cárcamo-Oyarce G, Gloag ES, Shimoni R, Omasits U, Ito S, Yap X, Monahan LG, Cavaliere R, Ahrens CH, Charles IG, Nomura N, *Eberl L and *Whitchurch CB. Explosive cell lysis is a novel mechanism for the biogenesis of membrane vesicles and biofilms. Nature Communications, 7:11220, 2016.

• Inaba T, Oura H, Morinaga K, Toyofuku M, *Nomura N. The Pseudomonas quinolone signal inhibits biofilm development of Streptococcus mutans. Microbes and Environments, 30:189-91, 2015.

• Oura H, Tashiro Y, Toyofuku M, Ueda K, Kiyokawa T, Ito S, Takahashi Y, Lee S, Nojiri H, Nakajima-Kambe T, Uchiyama H, Futamata H, *Nomura N. Inhibition of Pseudomonas aeruginosa swarming motility by 1-naphthol and other bicyclic compounds bearing hydroxyl groups. Applied and Environmental Microbiology, 81:2808-18, 2015.

• Line L, Alhede M, Kolpen M, Kühl M, Ciofu O, Bjarnsholt T, Moser C, Toyofuku M, Nomura N, Høiby N, *Jensen PØ. Physiological levels of nitrate support anoxic growth by denitrification of Pseudomonas aeruginosa at growth rates reported in cystic fibrosis lungs and sputum. Frontiers in Microbiology, 5: 554, 2014.

• Gi M, Chung J, Lee K, Park Y, Lee K, Toyofuku M, *Yoon SS, *Choi JY. A drug-repositioning screening identifies pentetic acid as a potential therapeutic agent for suppressing the elastase-mediated virulence of Pseudomonas aeruginosa. Antimicrobial Agents and Chemotherapy, 58:7205-7214, 2014.

• Hamada M, †Toyofuku M, Miyano T, *Nomura N. cbb3-type cytochrome c oxidases, aerobic respiratory enzymes, impact the anaerobic life of Pseudomonas aeruginosa PAO1. Journal of Bacteriology, 196:3881-9, 2014.

• Wang A, Toyofuku M, Nomura N, *Goto H. Quorum Sensing Materials as New Ligand for Palladium Catalyzed Migita-Kosugi-Stille Polycondensation. International Letters of Chemistry, Physics and Astronomy, 13:62-70, 2014.

• †Ono K, †Oka R, †Toyofuku M, Sakaguchi A, Hamada M, Yoshida S, *Nomura N. cAMP signaling affects irreversible attachment during biofilm formation by Pseudomonas aeruginosa PAO1. Microbes and Environments, 29:104-6, 2014.

• Toyofuku M, Zhou S, Sawada I, Takaya N, Uchiyama H, *Nomura N. Membrane vesicle formation is associated with pyocin production under denitrifying conditions in Pseudomonas aeruginosa PAO1. Environmental Microbiology, 16:2927-38, 2014.

• †Fang H, †Toyofuku M, Kiyokawa T, Ichihashi A, Tateda K, *Nomura N. The impact of anaerobiosis on strain-dependent phenotypic variations in Pseudomonas aeruginosa. Bioscience, Biotechnology, and Biochemistry, 77:1747-52, 2013.

• Zheng YT, Toyofuku M, Nomura N, *Shigeto S. Correlation of carotenoid accumulation with aggregation and biofilm development in Rhodococcus sp. SD-74. Analytical Chemistry, 85:7295-301, 2013.

• Inaba T, Ichihara T, Yawata Y, Toyofuku M, Uchiyama H, *Nomura N. Three-dimensional visualization of mixed species biofilm formation together with its substratum. Microbiology and Immunology, 57:589-93, 2013.

• Zhang W, Huhe, Pan Y, Toyofuku M, Nomura N, Nakajima T, *Uchiyama H. Dechlorination of chloral hydrate is influenced by the biofilm adhesin protein LapA in Pseudomonas putida LF54. Applied and Environmental Microbiology, 79:4166-9, 2013.

•  *Toyofuku M, Roschitzki B, Riedel K, *Eberl L. Identification of proteins associated with the Pseudomonas aeruginosa biofilm extracellular matrix. Journal of Proteome Research, 11:4906-15, 2012.

• Taniyama K, Itoh H, Takuwa A, Sasaki Y, Yajima S, Toyofuku M, Nomura N, and *Takaya N. Group X aldehyde dehydrogenases of Pseudomonas aeruginosa PAO1 degrade hydrazones. Journal of Bacteriology, 194:1447-1456, 2012.

• Tashiro Y, Ichikawa S, Shimizu M, Toyofuku M, Takaya N, Nakajima-Kambe T, Uchiyama H, and *Nomura N. Variation of physiochemical properties and cell association activity of membrane vesicles with growth phase in Pseudomonas aeruginosa. Applied and Environmental Microbiology, 76:3732-3739, 2010.

• Toyofuku M, Nakajima-Kambe T, Uchiyama H, *Nomura N. The effect of a cell-to-cell communication molecule, Pseudomonas quinolone signal (PQS), produced by P. aeruginosa on other bacterial species. Microbes and Environments, 25:1-7, 2010.

• Tashiro Y, Toyofuku M, Nakajima-Kambe T, Uchiyama H, *Nomura N. Bicyclic compounds repress membrane vesicle production and Pseudomonas quinolone signal synthesis in Pseudomonas aeruginosa. FEMS Microbiology Letters, 304:123-130, 2010.

• Tashiro Y, Sakai R, Toyofuku M, Sawada I, Nakajima-Kambe T, Uchiyama H and *Nomura N. Outer membrane machinery and alginate synthesis regulators control membrane vesicle production in Pseudomonas aeruginosa. Journal of Bacteriology, 191:7509-7519, 2009.

• Toyofuku M, *Nomura N, Kuno E, Tashiro Y, Nakajima T, Uchiyama H. Influence of the Pseudomonas quinolone signal on denitrification in Pseudomonas aeruginosa. Journal of Bacteriology, 190:7947-7956, 2008.

• Toyofuku M, *Nomura N, Fujii T, Takaya N, Maseda H, Sawada I, Nakajima T Uchiyama H. Quorum sensing regulates denitrification in Pseudomonas aeruginosa PAO1. Journal of Bacteriology, 189:4969-4972, 2007.

Reviews

•  *Toyofuku M, Nomura N, Eberl L. Membrane vesicles and quantized bacterial signaling. Physical biology (in press).

• Morinaga K, Yoshida K, Takahashi K, Nomura N, *Toyofuku M. Peculiarities of biofilm formation by Paracoccus denitrificans and associated factors. Applied Microbiology and Biotechnology, 104(6):2427-2433. doi: 10.1007/s00253-020-10400-w.

• Nagakubo T, Nomura N, *Toyofuku M. Cracking open bacterial membrane vesicles. Frontiers in Microbiology 10:3026. doi: 10.3389/fmicb.2019.03026, 2020.

• Toyofuku M, Bacterial communication through membrane vesicles, Bioscience, Biotechnology and Biochemistry, 83: 1599-1605 2019. 10.1080/09168451.2019.1608809

• *Toyofuku M, Nomura N, *Eberl L. Types and origins of bacterial membrane vesicles. Nature Reviews Microbiology, 17:13-24, 2019.

•  *Toyofuku M, Nomura N. What will membrane vesicles (MVs) bring to bacterial communication? Microbes and Environments, 32:185-187, 2017.

• Toyofuku M, Tashiro Y, Hasegawa Y, Kurosawa M, *Nomura N. Bacterial membrane vesicles, an overlooked environmental colloid: Biology, environmental perspectives and applications. Advances in Colloid and Interface Science, 226:65-77, 2015.

•  Toyofuku M, Inaba T, Kiyokawa T, Obana N, Yawata Y, *Nomura N. Environmental factors that shape biofilm formation. Bioscience, Biotechnology and Biochemistry, 80:7-12, 2015.

•  †Tashiro Y, †Yawata Y, †Toyofuku M, Uchiyama H, *Nomura N. Interspecies interaction between Pseudomonas aeruginosa and other microorganisms. Microbes and Environments, 28:13-24, 2013.

• Toyofuku M, Uchiyama H., *Nomura N. Social behaviours under anaerobic conditions in Pseudomonas aeruginosa. International Journal of Microbiology, 405191, 2012.

•  *Okabe S, Oshiki M, Kamagata Y, Yamaguchi N, Toyofuku M, Yawata Y, Tashiro Y, Nomura N, Ohta H, Ohkuma M, Hiraishi A, Minamisawa K. A great leap forward in microbial ecology. Microbes and Environments, 25:230-240, 2010.

Book Chapters

• Toyofuku M, Tashiro Y, Nomura N, Eberl L. Functions of MVs in inter-bacterial communication. In: Bacterial Membrane Vesicles-Biogenesis, Functions and Applications, Springer, 2020. p101-118 ISBN 978-3-030-36311-4

• Toyofuku M, *Yoon SS. Nitric oxide, an old molecule with noble functions in Pseudomonas aeruginosa biology. In: Advances in Microbial Physiology, Elsevier, 72:pp 117-145, 2018.

• Toyofuku M, Tashiro Y, Tomohiro I, Nomura N. “Bacterial interactions” In: Encyclopedia of Biocolloid and Biointerface Sciences, Wiley, pp 68-81, 2016.

• Toyofuku M, O’Toole GA, Nomura N. “Anaerobic life of Pseudomonas aeruginosa” In: Pseudomonas Vol. 7, Springer, pp 99-117, 2015.

• Toyofuku M, Nomura N. “Biofilm as a multicellular bacterial system” In: Biodegradative Bacteria, Springer Japan, pp 335-352, 2014.