- index
Publication list "present - 2016th"
2026
- Inhibition of Targeted Bacterial Growth Using MazF-Expressing Phagemids: A Novel Therapeutic Approach Based on Endoribonuclease Toxin Molecules
- H. Hasegawa, T. Miyamoto, R. Isshiki, T. Kaneko, K. Takasugi, N. Noda, S. Tsuneda
- Microbiology and Immunology. April 2026
2025
- Novel Escherichia coli phages representing a distinct genus within the subfamily Stephanstirmvirinae: genome and host range characteristics
- T. Kaneko, J. Uchiyama, T. Osaka, S. Tsuneda
- Archives of Virology. December 2025
- Phage cocktails: state-of-the-art technologies and strategies for effective design
- T. Kaneko, K. Nakatsuka, S. Tsuneda
- FEMS Microbiology Reviews. December 2025
- From phenotype to receptor: validating physiological clustering of Escherichia coli phages through comprehensive receptor analysis
- T. Kaneko, T. Osaka, M. Inagaki, K. Habe, T. Okabe, S. Tsuneda
- Journal of Virology. September 2025
- Isolation and characterization of novel bacteriophages targeting Stenotrophomonas maltophilia
- W. Yamashita, Y. Sato, M. Imanaka, M. Kataoka, T. Suzuki, A. H. Azam, S. Ojima, K. Hayakawa, S. Saito, Y. Moriyama, N. Ohmagari, M. Kurokawa, K. Mezaki, A. Tamura, L. Cui, J. Fujiki, H. Iwano, Y. Takahashi, K. Watashi, S. Tsuneda, K. Kiga
- Scientific Reports. 15, 29743. August 2025
- Phage engineering to overcome bacterial Tmn immunity
- W. Yamashita, K. Chihara, A. H. Azam, K. Kondo, S. Ojima, A. Tamura, M. Imanaka, F.L. Nobrega, Y. Takahashi, K. Watashi, S. Tsuneda, K. Kiga
- Communications Biology. 8, 290. February 2025
- Novel Escherichia coli Phages Representing a Distinct Genus within Stephanstirmvirinae: Genome and Host Range Characteristics
- T. Kaneko, J. Uchiyama, T. Osaka, S. Tsuneda
- bioRxiv, February 2025
- A Phage Collection Propagated in Escherichia coli K-12 Shows Broad Lytic Activity Against a Diverse Panel of Multidrug-Resistant Isolates
- T. Kaneko, Y. Aiba, K. Miyanaga, L. Cui, S. Tsuneda
- PHAGE : Therapy, Applications, and Research. 6:3. February 2025
2024
- Harnessing a T1 Phage-Derived Spanin for Developing Phage-Based Antimicrobial Development
- W. Yamashita, S. Ojima, A. Tamura, A. H. Azam, K. Kondo, Z. Yuancheng, L. Cui, M. Shintani, M. Suzuki, Y. Takahashi, K. Watashi, S. Tsuneda, K. Kiga
- BioDesign Research, 6, 0028. March 2024
- Variation in growth rates between cultures hinders the cultivation of ammonia-oxidizing bacteria
- R. Isshiki, H. Fujitani, S. Tsuneda
- FEMS Microbiology Letters 371 (2024): fnae013. March 2024
- Arg-73 of the RNA endonuclease MazF in Salmonella enterica subsp. arizonae contributes to guanine and uracil recognition in the cleavage sequence
- T. Okabe, R. Aoi, A. Yokota, H. Tamiya-Ishitsuka, Y. Jiang, A. Sasaki, S. Tsuneda, N. Noda
- Journal of Biological Chemistry 300.2 (2024). February 2024
2023
- Effects of Co-existing Heterotrophs on Physiology of and Nitrogen Metabolism in Autotrophic Nitrite-oxidizing Candidatus Nitrotoga
- H. Ide, K. Ishii, Y. Takahashi, H. Fujitani, S. Tsuneda
- Microbes and Environments 38.4 (2023): ME23076. December 2023
- Water-in-oil droplet-mediated method for detecting and isolating infectious bacteriophage particles via fluorescent staining
- M. Hoshino, Y. Ota, T. Suyama, Y. Morishita, S. Tsuneda, N. Noda
- Frontiers in Microbiology 14 (2023): 1282372. December 2023
- Tailoring effective phage cocktails for long-term lysis of Escherichia coli based on physiological properties of constituent phages
- T. Kaneko, T. Osaka, S. Tsuneda
- PHAGE : Therapy, Applications, and Research. 4:3. September 2023
- Characterisation of bacteria representing a novel Nitrosomonas clade: Physiology, genomics and distribution of missing ammonia oxidizer
- S. Kikuchi, H. Fujitani, K. Ishii, R. Isshiki, Y. Sekiguchi, S. Tsuneda
- Environmental Microbiology Reports. 15. August 2023
- Establishment of isogenic induced pluripotent stem cells with or without pathogenic mutation for understanding the pathogenesis of myeloproliferative neoplasms
- C. Liu, M. Imai, Y. Edahiro, S. Mano, H. Takei, M. Nudejima, A. Kurose, S. Morishita, M. Ando, S. Tsuneda, M. Araki, N. Komatsu
- Experimental Hematology. 118. February 2023
2022
- Relationship between Phage Lytic Spectra and Sequence Types in Extended-Spectrum β-lactamase-Producing Escherichia coli isolated in Japan
- S. Yamamura, K. Kitaoka, Y. Yamasaki, K. Fudeshima, K. Miyanaga, Y. Tanji, S. Tuneda
- Japanese Journal of Infectious Diseases. 75(6). November 2022
- Nitrite Production by Nitrifying Bacteria in Urban Groundwater Used in a Chlorinated Public Bath System in Japan
- Y. Takahashi, K. Ishii, Y. Kikkawa, K. Horikiri, S. Tsuneda
- Microbes and Environments. 37(1). October 2022
- ldhA-induced persister in Escherichia coli is formed through accidental SOS response via intracellular metabolic perturbation
- N. Yamamoto, Y. Ohno, S. Tsuneda
- Medical Microbiology and Immunology. 66(225). May 2022
- Long-term limitation effects of Se(VI), Zn(II), and Ni(II) on start-up of the anammox process using gel carrier
- K. Isaka, S. Nitta, D. Sugawara, H. Yamazaki, Y. Kimura, T. Osaka, S. Tsuneda
- Frontiers in Bioengineering and Biotechnology. 10(1). March 2022
- Effect of inorganic carbon limitation on the nitrogen removal performance of the single-stage reactor containing anammox and nitritation gel carriers
- K. Isaka, S. Nitta, T. Osaka, S. Tsuneda
- Journal of Bioscience and Bioengineering. 133(70). January 2022
2021
- 高温条件がアナモックスプロセスにおよぼす影響
- 井坂和一，豊田透花，大前周平，高橋悠，大坂利文，常田聡
- 化学工学論文集. 47(217). December 2021
- Microdroplet-based system for culturing of environmental microorganisms using FNAP-sort
- K. Saito, Y. Ota, D. M. Tourlousse, S. Matsukura, H. Fujitani, M. Morita, S. Tsuneda, N. Noda
- Scientific Reports. 11(1). May 2021
- Global identification of RsmA/N binding sites in Pseudomonas aeruginosa by in vivo UV CLIP-seq
- K. Chihara, L. Barquist, K. Takasugi, N. Noda, S. Tsuneda
- RNA Biology. April 2021
- EB3L1 overexpression as a potential diagnostic marker of Philadelphia chromosome–negative myeloproliferative neoplasms
- S. Morishita, H. Yasuda, S. Yamawaki, H. Kawaji, M. Itoh, Y. Edahiro, M. Imai, Y. Kogo, S. Tsuneda, A. Ohsaka, Y. Hayashizaki, M. Ito, M. Araki, N. Komatsu
- Cancer Science. 112(2). February 2021
- Methanol tolerance and acclimation in the anammox process using a gel carrier
- K. Isaka, T. Osaka, Y. Kimura, N. Iwasaki, S. Tsuneda
- Biochemical Engineering Journal. 165. January 2021
2020
- Nitrogen and Oxygen Isotope Signatures of Nitrogen Compounds during Anammox in the Laboratory and a Wastewater Treatment Plant
- S. Kotajima, K. Koba, D. Ikeda, A. Terada, K. Isaka, K. Nishina, Y. Kimura, A. Makabe, M. Yano, H. Fujitani, N. Ushiki, S. Tsuneda, M. Yoh
- Microbes and Environments. 35(4). November 2020
- Genomic and Physiological Characteristics of a Novel Nitrite-Oxidizing Nitrospira Strain Isolated from a Drinking Water Treatment Plant
- H. Fujitani, K. Momiuchi, K. Ishii, M. Nomachi, S. Kikuchi, N. Ushiki, Y. Sekiguchi, S. Tsuneda
- Frontiers in Microbiology. 11(545190). September 2020
- Global identification of RsmA/N binding sites in Pseudomonas aeruginosa by in vivo UV CLIP-seq
- K. Chihara, L. Barquist, K. Takasugi, N. Noda, S. Tsuneda
- bioRxiv. August 2020
- Enrichment of Comammox and Nitrite-Oxidizing Nitrospira From Acidic Soils
- Y. Takahashi, H. Fujitani, Y. Hirono, K. Tago, Y. Wang, M. Hayatsu, S. Tsuneda
- Frontiers in Microbiology. 11(1737). July 2020
- Physiological and genomic characterization of a new ‘Candidatus Nitrotoga’ isolate
- K. Ishii, H. Fujitani, Y. Sekiguchi, S. Tsuneda
- Environmental Microbiology 22(6) 2365 - 2382. June 2020
- Transcriptome Analysis of the Ammonia-Oxidizing Bacterium Nitrosomonas mobilis Ms1 Reveals Division of Labor between Aggregates and Free-living Cells
- R. Isshiki, H. Fujitani, S. Tsuneda
- Microbes and Environments 35(2) 1 - 9. June 2020
- Quantification of native mRNA dynamics in living neurons using fluorescence correlation spectroscopy and reduction-triggered fluorescent probes
- H. Fujita, R. Oikawa, M. Hayakawa, F. Tomoike, Y. Kimura, H. Okuno, Y. Hatashita, C. Oliveros, H. Bito, T. Ohshima, S. Tsuneda, H. Abe, T. Inoue
- Journal of Biological Chemistry 295(23). April 2020
- MazF Endoribonucleolytic Toxin Conserved in Nitrospira Specifically Cleaves the AACU, AACG, and AAUU Motifs
- R. Aoi, T. Miyamoto, A. Yokota, Y. Ota, H. Fujitani, S. Tsuneda, N. Noda
- Toxins 12(5). April 2020
- Successful enrichment of low-abundant comammox Nitrospira from nitrifying granules under ammonia-limited conditions
- H. Fujitani, M. Nomachi, Y. Takahashi, Y. Hasebe, M. Eguchi, S. Tsuneda
- FEMS Microbiology Letters. 367(1), fnaa025. March 2020
2019
- Conditional Hfq Association with Small Noncoding RNAs in Pseudomonas aeruginosa Revealed through Comparative UV Cross-Linking Immunoprecipitation Followed by High-Throughput Sequencing
- K. Chihara, T. Bischler, L. Barquist, V. Monzon, N. Noda, J. Vogel, S. Tsuneda
- mSystems. 2019
- Draft Genome Sequence of Acidovorax sp. Strain NB1, Isolated from a Nitrite-Oxidizing Enrichment Culture
- H. Ide, K. Ishii, H. Fujitani, S. Tsuneda
- Microbiology Resource Announcements. 8(33), e0054719-19. August 2019
- Fluorescent Nucleic Acid Probe in Droplets for Bacterial Sorting (FNAP-Sort) as a High-Throughput Screening Method for Environmental Bacteria with Various Growth Rates
- Y. Ota, K. Saito, T. Takagi, S. Matsukura, M. Morita, S. Tsuneda, N. Noda
- PLoS ONE. 14(4), e0214533. April 2019
- End-Sealed High Aspect Ratio Hollow Nanotubes Encapsulating an Anticancer Drug: Torpedo-Shaped Peptidic Nanocapsules
- M. Ueda, S. Seo, B. G. Nair, S. Müller, E. Takahashi, T. Arai, T. Iyoda, S. Fujii, S. Tsuneda, Y. Ito
- ACS Nano. 13(1). 305-312. January 2019
2018
- Nitrosomonas europaea MazF Specifically Recognises the UGG Motif and Promotes Selective RNA Degradation
- T. Miyamoto, A. Yokota, Y. Ota, M. Tsuruga, R. Aoi, S. Tsuneda, N. Noda
- Frontiers in Microbiology. 9(2386). 1-10. October 2018
- Stochastic expression of lactate dehydrogenase A induces Escherichia coli persister formation
- N. Yamamoto, R. Isshiki, Y. Kawai, D. Tanaka, T. Sekiguchi, S. Matsumoto, S. Tsuneda
- J. Biosci. Bioeng. 126(1). 30-37. July 2018
- Skewed megakaryopoiesis in human induced pluripotent stem cell-derived haematopoietic progenitor cells harbouring calreticulin mutations
- H. Takei, Y. Edahiro, S. Mano, N. Masubuchi, Y. Mizukami, M. Imai, S. Morishita, S. Tsuneda, H. Endo, S. Nakamura, K. Eto, A. Ohsaka, M. Araki, N. Komatsu
- British Journal of Haematology. 181(6). 791-802. June 2018
- Low-temperature Culturing Improves Survival Rate of Tissue-engineered Cardiac Cell Sheets
- K. Sakaguchi, Y. Hinata, Y. Kagawa, K. Iwasaki, S. Tsuneda, T. Shimizu, M. Umezu
- Biochem. Biophys. Rep. 14. 89-97. July 2018
- AldB controls persister formation in Escherichia coli depending on environmental stress
- Y. Kawai, S. Matsumoto, Y. Ling, S. Okuda, S. Tsuneda
- Microbiol. Immunol. 62(5). 299-304. May 2018
- “All-in-one” in vitro selection of collagen-binding vascular endothelial growth factor
- S.-H. Park, T. Uzawa, F. Hattori, S. Ogino, N. Morimoto, S. Tsuneda, Y. Ito
- Biomaterials. 161. 270-278. February 2018
- Genomic Analysis of Two Phylogenetically Distinct Nitrospira Species Reveals Their Genomic Plasticity and Functional Diversity
- N. Ushiki, H. Fujitani, Y. Shimada, T. Morohoshi, Y. Sekiguchi, S. Tsuneda
- Frontiers in Microbiology. 8(2637). 1-12. January 2018
- Unique Transcriptional Profile of Native Persisters in Escherichia coli
- S. Matsumoto, Y. Kawai, S. Miyagawa, Y. Iwamoto, S. Okuda, A. Sanchez-Gorostiaga, M. Vicente, S. Tsuneda
- J. Biosci. Bioeng. 125(1). 15-22. January 2018
2017
- Characterization of a Deinococcus radiodurans MazF: A UACA-specific RNA endoribonuclease
- Tatsuki Miyamoto, Yuri Ota, Akiko Yokota, Tetsushi Suyama, Satoshi Tsuneda, Naohiro Noda
- MicrobiologyOpen e501. July 2017
- Enrichment and Physiological Characterization of a Cold-Adapted Nitrite Oxidizer Nitrotoga sp. from Eelgrass Sediment
- K. Ishii, H. Fujitani, K. Soh, T. Nakagawa, R. Takahashi, S. Tsuneda
- Appl. Environ. Microbiol. 83(14). e00549-17. July 2017
- First Full-Scale Nitritation-Anammox Plant Using Gel Entrapment Technology for Ammonia Plant Effluent
- K. Isaka, Y. Kimura, M. Matsuura, T. Osaka, S. Tsuneda
- Biochem. Eng. J. 122. 115-122. June 2017
- Real-Time Quantitation of Internal Metabolic Activity of Three-Dimensional Engineered Tissues Using an Oxygen Microelectrode and Optical Coherence Tomography
- Y. Kagawa, Y. Haraguchi, S. Tsuneda, T. Shimizu
- Journal of Biomedical Materials Research: Part B. 105(4). 855-864. May 2017
- Nitrite Oxidation Kinetics of Two Nitrospira Strains: the Quest for Competition and Ecological Niche Differentiation
- N. Ushiki, M. Jinno, H. Fujitani, T. Suenaga, A. Terada, S. Tsuneda
- J. Biosci. Bioeng. 123(5). 581-589. May 2017
- Four Aromatic Sulfates with an Inhibitory Effect against HCV NS3 Helicase from the Crinoid Alloeocomatella polycladia
- I. Hermawan, A. Furuta, M. Higashi, Y. Fujita, N. Akimitsu, A. Yamashita, K. Moriishi, S. Tsuneda, H. Tani, M. Nakakoshi, M. Tsubuki, Y. Sekiguchi, N. Noda, J. Tanaka
- Marine Drugs. 15(117). 1-10. April 2017
- pH-Gradient Ion-exchange Microbial Cell Chromatography as a Simple Method for Microbial Separation
- Y. Aoi, Y. Kaneko, S. Tsuneda
- J. Biosci. Bioeng. 123(4). 431-436. April 2017
2016
- A Rapid Collection of Yet Unknown Ammonia Oxidizers in Pure Culture from Activated Sludge
- T. Abe, N. Ushiki, H. Fujitani, S. Tsuneda
- Water Res. 108(1). 169-178. December 2016
- Ecophysiology and Comparative Genomics of Nitrosomonas mobilis Ms1 Isolated from Autotrophic Nitrifying Granules of Wastewater Treatment Bioreactor
- S. M. Thandar, N. Ushiki, H. Fujitani, Y. Sekiguchi, S. Tsuneda
- Frontiers in Microbiology. 7(1869). 1-14. November 2016
- Physical Enrichment of Uncultured Accumulibacter and Nitrospira from Activated Sludge by Unlabeled Cell Sorting Technique
- K. Irie, H. Fujitani, S. Tsuneda
- J. Biosci. Bioeng. 122(4). 475-481. October 2016
- AAU-specific RNA cleavage mediated by MazF toxin endoribonuclease conserved in Nitrosomonas europaea
- T. Miyamoto, Y. Kato, Y. Sekiguchi, S. Tsuneda, N. Noda
- Toxins. 8(6). n° 174. June 2016
- Characterization of MazF-mediated Sequence-specific RNA Cleavage in Pseudomonas putida using Massive Parallel Sequencing
- T. Miyamoto, Y. Kato, Y. Sekiguchi, S. Tsuneda, N. Noda
- PLoS ONE. 11(2). e0149494. February 2016
- System for Measuring Oxygen Consumption Rates of Mammalian Cells in Static Culture Under Hypoxic Conditions
- Y. Kagawa, H. Miyahara, Y. Ota, S. Tsuneda
- Biotechnol Prog. 32(1). 189-197. February 2016
- Effect of Lipopolysaccharide on the Progression of Non-Alcoholic Fatty Liver Disease in High Caloric Diet-Fed Mice
- N. Matsushita, T. Osaka, I. Haruta, H. Ueshiba, N. Yanagisawa, M. Omori-Miyake, E. Hashimoto, N. Shibata, K. Tokushige, K. Saito, S. Tsuneda, J. Yagi
- Scand. J. Immunol. 83. 109-118. January 2016
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