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Research Output 1991 2019

2019

Corrigendum: Nitrosomonas europaea mazf specifically recognises the ugg motif and promotes selective RNA degradation(Frontiers in Microbiology (2019) 9 (2386) DOI: 10.3389/fmicb.2018.02386)

Miyamoto, T., Yokota, A., Ota, Y., Tsuruga, M., Aoi, R., Tsuneda, S. & Noda, N., 2019 Jan 1, In : Frontiers in Microbiology. 10, APR, 634.

Research output: Contribution to journalComment/debate

Open Access
Nitrosomonas europaea
RNA Stability
Microbiology
corrigendum
1 Citation (Scopus)

End-Sealed High Aspect Ratio Hollow Nanotubes Encapsulating an Anticancer Drug: Torpedo-Shaped Peptidic Nanocapsules

Ueda, M., Seo, S., Nair, B. G., Müller, S., Takahashi, E., Arai, T., Iyoda, T., Fujii, S. I., Tsuneda, S. & Ito, Y., 2019 Jan 1, (Accepted/In press) In : ACS Nano.

Research output: Contribution to journalArticle

torpedoes
Nanocapsules
encapsulating
high aspect ratio
Nanotubes

Fluorescent nucleic acid probe in droplets for bacterial sorting (FNAP-sort) as a high-throughput screening method for environmental bacteria with various growth rates

Ota, Y., Saito, K., Takagi, T., Matsukura, S., Morita, M., Tsuneda, S. & Noda, N., 2019 Apr 1, In : PloS one. 14, 4, e0214533.

Research output: Contribution to journalArticle

Open Access
Nucleic Acid Probes
High-Throughput Screening Assays
RNA Probes
Fluorescence Resonance Energy Transfer
Sorting
2018
1 Citation (Scopus)

AldB controls persister formation in Escherichia coli depending on environmental stress

Kawai, Y., Matsumoto, S., Ling, Y., Okuda, S. & Tsuneda, S., 2018 Jan 1, (Accepted/In press) In : Microbiology and Immunology.

Research output: Contribution to journalArticle

Escherichia coli
Genes
RNA Sequence Analysis
Amino Acids
Aldehyde Dehydrogenase
7 Citations (Scopus)

Genomic analysis of two phylogenetically distinct Nitrospira species reveals their genomic plasticity and functional diversity

Ushiki, N., Fujitani, H., Shimada, Y., Morohoshi, T., Sekiguchi, Y. & Tsuneda, S., 2018 Jan 9, In : Frontiers in Microbiology. 8, JAN, 2637.

Research output: Contribution to journalArticle

Genome
Clustered Regularly Interspaced Short Palindromic Repeats
Nitrites
Genes
Acyl-Butyrolactones

Heatphos process for recovering phosphorus from bio-P sludge before anaerobic digestion

Takiguchi, N., Kuroda, A., Ohtake, H. & Tsuneda, S., 2018 May 25, Phosphorus Recovery and Recycling. Springer Singapore, p. 515-526 12 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Polyphosphates
Anaerobic digestion
Sewage sludge
Sludge digestion
Phosphorus

Low-temperature culturing improves survival rate of tissue-engineered cardiac cell sheets

Sakaguchi, K., Hinata, Y., Kagawa, Y., Iwasaki, K., Tsuneda, S., Shimizu, T. & Umezu, M., 2018 Jul 1, In : Biochemistry and Biophysics Reports. 14, p. 89-97 9 p.

Research output: Contribution to journalArticle

Tissue
Temperature
Metabolism
Nutrients
Nude Rats

Nitrosomonas europaea MazF specifically recognises the UGG motif and promotes selective RNA degradation

Miyamoto, T., Yokota, A., Ota, Y., Tsuruga, M., Aoi, R., Tsuneda, S. & Noda, N., 2018 Oct 8, In : Frontiers in Microbiology. 9, OCT, 2386.

Research output: Contribution to journalArticle

Nitrosomonas europaea
Antitoxins
RNA Stability
Endoribonucleases
hydroxylamine dehydrogenase
3 Citations (Scopus)

Phosphorus Recovery and Recycling

Ohtake, H. & Tsuneda, S., 2018 May 25, Springer Singapore. 526 p.

Research output: Book/ReportBook

Phosphorus
Recycling
recycling
phosphorus
Recovery

Preface

Ohtake, H. & Tsuneda, S., 2018 May 25, Phosphorus Recovery and Recycling. Springer Singapore, p. xi-xii

Research output: Chapter in Book/Report/Conference proceedingForeword/postscript

1 Citation (Scopus)

Skewed megakaryopoiesis in human induced pluripotent stem cell-derived haematopoietic progenitor cells harbouring calreticulin mutations

Takei, H., Edahiro, Y., Mano, S., Masubuchi, N., Mizukami, Y., Imai, M., Morishita, S., Misawa, K., Ochiai, T., Tsuneda, S., Endo, H., Nakamura, S., Eto, K., Ohsaka, A., Araki, M. & Komatsu, N., 2018 Jan 1, (Accepted/In press) In : British Journal of Haematology.

Research output: Contribution to journalArticle

Calreticulin
Induced Pluripotent Stem Cells
Hematopoietic Stem Cells
Mutation
Essential Thrombocythemia
3 Citations (Scopus)

Stochastic expression of lactate dehydrogenase A induces Escherichia coli persister formation

Yamamoto, N., Isshiki, R., Kawai, Y., Tanaka, D., Sekiguchi, T., Matsumoto, S. & Tsuneda, S., 2018 Jan 1, (Accepted/In press) In : Journal of Bioscience and Bioengineering.

Research output: Contribution to journalArticle

L-Lactate Dehydrogenase
Escherichia coli
Genes
Gene expression
Antibiotics
3 Citations (Scopus)

“All-in-one” in vitro selection of collagen-binding vascular endothelial growth factor

Park, S. H., Uzawa, T., Hattori, F., Ogino, S., Morimoto, N., Tsuneda, S. & Ito, Y., 2018 Apr 1, In : Biomaterials. 161, p. 270-278 9 p.

Research output: Contribution to journalArticle

Collagen
Vascular Endothelial Growth Factor A
Skin
Vascular Endothelial Growth Factors
Proteins
2017
5 Citations (Scopus)

A rapid collection of yet unknown ammonia oxidizers in pure culture from activated sludge

Abe, T., Ushiki, N., Fujitani, H. & Tsuneda, S., 2017 Jan 1, In : Water Research. 108, p. 169-178 10 p.

Research output: Contribution to journalArticle

activated sludge
Ammonia
ammonia
Bacteria
Nitrogen removal
1 Citation (Scopus)

Characterization of a Deinococcus radiodurans MazF: A UACA-specific RNA endoribonuclease

Miyamoto, T., Ota, Y., Yokota, A., Suyama, T., Tsuneda, S. & Noda, N., 2017, (Accepted/In press) In : MicrobiologyOpen.

Research output: Contribution to journalArticle

Deinococcus
Endoribonucleases
Antitoxins
RNA
High-Throughput Nucleotide Sequencing
6 Citations (Scopus)

Enrichment and physiological characterization of a coldadapted nitrite-oxidizing Nitrotoga sp. from an eelgrass sediment

Ishii, K., Fujitani, H., Soh, K., Nakagawa, T., Takahashi, R. & Tsuneda, S., 2017 Jul 1, In : Applied and Environmental Microbiology. 83, 14, e00549-17.

Research output: Contribution to journalArticle

Zostera marina
Nitrites
nitrites
nitrite
sediments
8 Citations (Scopus)

First full-scale nitritation-anammox plant using gel entrapment technology for ammonia plant effluent

Isaka, K., Kimura, Y., Matsuura, M., Osaka, T. & Tsuneda, S., 2017 Jun 15, In : Biochemical Engineering Journal. 122, p. 115-122 8 p.

Research output: Contribution to journalArticle

Nitrogen removal
Ammonia
Effluents
Nitrogen
Gels
3 Citations (Scopus)

Four aromatic sulfates with an inhibitory effect against HCV NS3 helicase from the crinoid alloeocomatella polycladia

Hermawan, I., Furuta, A., Higashi, M., Fujita, Y., Akimitsu, N., Yamashita, A., Moriishi, K., Tsuneda, S., Tani, H., Nakakoshi, M., Tsubuki, M., Sekiguchi, Y., Noda, N. & Tanaka, J., 2017 Apr 1, In : Marine Drugs. 15, 4, 117.

Research output: Contribution to journalArticle

Sulfates
Biological Assay
Inhibitory Concentration 50
Theoretical Models
cholesteryl sulfate
3 Citations (Scopus)

High-rate nitrification of electronic industry wastewater by using nitrifying granules

Hasebe, Y., Meguro, H., Kanai, Y., Eguchi, M., Osaka, T. & Tsuneda, S., 2017 Dec 1, In : Water science and technology : a journal of the International Association on Water Pollution Research. 76, 11-12, p. 3171-3180 10 p.

Research output: Contribution to journalArticle

electronics industry
Nitrification
Electronics industry
nitrification
Bacteria
11 Citations (Scopus)

Meta-analysis of fecal microbiota and metabolites in experimental colitic mice during the inflammatory and healing phases

Osaka, T., Moriyama, E., Arai, S., Date, Y., Yagi, J., Kikuchi, J. & Tsuneda, S., 2017 Dec 6, In : Nutrients. 9, 12, 1329.

Research output: Contribution to journalArticle

Microbiota
meta-analysis
Meta-Analysis
digestive system
intestinal microorganisms
3 Citations (Scopus)

Unique transcriptional profile of native persisters in Escherichia coli

Matsumoto, S., Kawai, Y., Miyagawa, S., Iwamoto, Y., Okuda, S., Sánchez-Gorostiaga, A., Vicente, M. & Tsuneda, S., 2017, (Accepted/In press) In : Journal of Bioscience and Bioengineering.

Research output: Contribution to journalArticle

Ofloxacin
Escherichia coli
Guanosine Tetraphosphate
ATP-Binding Cassette Transporters
Dimethyl sulfoxide
2016
6 Citations (Scopus)

AAU-specific RNA cleavage mediated by MazF toxin endoribonuclease conserved in Nitrosomonas Europaea

Miyamoto, T., Yokota, A., Tsuneda, S. & Noda, N., 2016 Jun 1, In : Toxins. 8, 6, 174.

Research output: Contribution to journalArticle

Nitrosomonas europaea
Endoribonucleases
RNA Cleavage
Antitoxins
RNA
5 Citations (Scopus)

Characterization of mazF-mediated sequence-specific RNA cleavage in pseudomonas putida using massive parallel sequencing

Miyamoto, T., Kato, Y., Sekiguchi, Y., Tsuneda, S. & Noda, N., 2016 Feb 1, In : PLoS One. 11, 2, e0149494.

Research output: Contribution to journalArticle

RNA Cleavage
Pseudomonas putida
RNA
Endoribonucleases
endoribonucleases
4 Citations (Scopus)

Ecophysiology and comparative genomics of nitrosomonas mobilis ms1 isolated from autotrophic nitrifying granules of wastewater treatment bioreactor

Thandar, S. M., Ushiki, N., Fujitani, H., Sekiguchi, Y. & Tsuneda, S., 2016 Nov 22, In : Frontiers in Microbiology. 7, NOV, 1869.

Research output: Contribution to journalArticle

Nitrosomonas
Bioreactors
Waste Water
Genomics
Ammonia
14 Citations (Scopus)

Effect of Lipopolysaccharide on the Progression of Non-Alcoholic Fatty Liver Disease in High Caloric Diet-Fed Mice

Matsushita, N., Osaka, T., Haruta, I., Ueshiba, H., Yanagisawa, N., Omori-Miyake, M., Hashimoto, E., Shibata, N., Tokushige, K., Saito, K., Tsuneda, S. & Yagi, J., 2016 Feb 1, In : Scandinavian Journal of Immunology. 83, 2, p. 109-118 10 p.

Research output: Contribution to journalArticle

Fatty Liver
Lipopolysaccharides
Diet
Bacteroidaceae
Freund's Adjuvant
1 Citation (Scopus)

Erratum: Reproducible subcutaneous transplantation of cell sheets into recipient mice (Nature Protocols (2011) 6 (1053-1059))

Obokata, H., Yamato, M., Tsuneda, S. & Okano, T., 2016 Mar 1, In : Nature Protocols. 11, 3, p. 616 1 p.

Research output: Contribution to journalArticle

Cell Transplantation
24 Citations (Scopus)

Nitrite oxidation kinetics of two Nitrospira strains: The quest for competition and ecological niche differentiation

Ushiki, N., Jinno, M., Fujitani, H., Suenaga, T., Terada, A. & Tsuneda, S., 2016 Nov 28, (Accepted/In press) In : Journal of Bioscience and Bioengineering.

Research output: Contribution to journalArticle

Nitrites
Wastewater treatment
Ammonia
Bacteria
Kinetic parameters
1 Citation (Scopus)

PH-Gradient ion-exchange microbial cell chromatography as a simple method for microbial separation

Aoi, Y., Kaneko, Y. & Tsuneda, S., 2016 Aug 16, (Accepted/In press) In : Journal of Bioscience and Bioengineering.

Research output: Contribution to journalArticle

Ion Exchange
Chromatography
Ion exchange
Proton-Motive Force
Microorganisms
8 Citations (Scopus)

Physical enrichment of uncultured Accumulibacter and Nitrospira from activated sludge by unlabeled cell sorting technique

Irie, K., Fujitani, H. & Tsuneda, S., 2016 Feb 9, (Accepted/In press) In : Journal of Bioscience and Bioengineering.

Research output: Contribution to journalArticle

Sewage
Sorting
Cells
Scattering
Physiology
2 Citations (Scopus)
Microelectrodes
Optical tomography
Tissue
Oxygen
Engineering technology

Retraction: Reproducible subcutaneous transplantation of cell sheets into recipient mice

Yamato, M., Tsuneda, S. & Okano, T., 2016 Mar 1, In : Nature Protocols. 11, 3, 1 p.

Research output: Contribution to journalComment/debate

Retraction: Reproducible subcutaneous transplantation of cell sheets into recipient mice

Yamato, M., Tsuneda, S. & Okano, T., 2016 Mar 1, In : Nature Protocols. 11, 3, p. 616 1 p.

Research output: Contribution to journalComment/debate

Cell Transplantation
2015
2 Citations (Scopus)

A fluorescence-based screening assay for identification of hepatitis C virus NS3 helicase inhibitors and characterization of their inhibitory mechanism

Furuta, A., Salam, K. A., Tani, H., Tsuneda, S., Sekiguchi, Y., Akimitsu, N. & Noda, N., 2015, In : Methods in Molecular Biology. 1259, p. 211-228 18 p.

Research output: Contribution to journalArticle

Hepacivirus
Fluorescence
Double-Stranded RNA
Nucleic Acids
Proteins
1 Citation (Scopus)

A fluorescence-based screening assay for identification of hepatitis C Virus NS3 helicase inhibitors and characterization of their inhibitory mechanism

Furuta, A., Salam, K. A., Tani, H., Tsuneda, S., Sekiguchi, Y., Akimitsu, N. & Noda, N., 2015 Jan 12, RNA Remodeling Proteins: Methods and Protocols. Springer New York, p. 211-228 18 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Viruses
Hepacivirus
Assays
Screening
Fluorescence
10 Citations (Scopus)

Bacterial metabolites directly modulate farnesoid X receptor activity

Zhang, X., Osaka, T. & Tsuneda, S., 2015 Nov 24, In : Nutrition and Metabolism. 12, 1, 48.

Research output: Contribution to journalArticle

Obese Mice
Liver
Weight Gain
Intestines
Obesity
6 Citations (Scopus)

Direct measurement of local dissolved oxygen concentration spatial profiles in a cell culture environment

Kagawa, Y., Matsuura, K., Shimizu, T. & Tsuneda, S., 2015 Jun 1, In : Biotechnology and Bioengineering. 112, 6, p. 1263-1274 12 p.

Research output: Contribution to journalArticle

Dissolved oxygen
Cell culture
Cell Culture Techniques
Oxygen
Microelectrodes
8 Citations (Scopus)

Identification of hydroxyanthraquinones as novel inhibitors of hepatitis C Virus NS3 helicase

Furuta, A., Tsubuki, M., Endoh, M., Miyamoto, T., Tanaka, J., Salam, K. A., Akimitsu, N., Tani, H., Yamashita, A., Moriishi, K., Nakakoshi, M., Sekiguchi, Y., Tsuneda, S. & Noda, N., 2015 Aug 7, In : International Journal of Molecular Sciences. 16, 8, p. 18439-18453 15 p.

Research output: Contribution to journalArticle

hepatitis
viruses
Viruses
Hepacivirus
inhibitors
6 Citations (Scopus)

Mathematical modeling of dormant cell formation in growing biofilm

Chihara, K., Matsumoto, S., Kagawa, Y. & Tsuneda, S., 2015, In : Frontiers in Microbiology. 6, MAY, 534.

Research output: Contribution to journalArticle

Biofilms
Bacteria
Stochastic Processes
Pseudomonas aeruginosa
Extracellular Matrix
2 Citations (Scopus)

Melting curve analysis after T allele enrichment (MelcaTle) as a highly sensitive and reliable method for detecting the JAK2V617F mutation

Morishita, S., Takahashi, K., Araki, M., Hironaka, Y., Sunami, Y., Edahiro, Y., Tsutsui, M., Ohsaka, A., Tsuneda, S. & Komatsu, N., 2015 Mar 20, In : PLoS One. 10, 3, e0122003.

Research output: Contribution to journalArticle

melting
Freezing
Assays
Melting
Alleles
21 Citations (Scopus)

Modeling the nutrient removal process in aerobic granular sludge system by coupling the reactor- and granule-scale models

Kagawa, Y., Tahata, J., Kishida, N., Matsumoto, S., Picioreanu, C., van Loosdrecht, M. C. M. & Tsuneda, S., 2015 Jan 1, In : Biotechnology and Bioengineering. 112, 1, p. 53-64 12 p.

Research output: Contribution to journalArticle

Sewage
Nutrients
Food
Oxygen
Population Dynamics
6 Citations (Scopus)

Phosphorylated 5-ethynyl-2′-deoxyuridine for advanced DNA labeling

Seo, S., Onizuka, K., Nishioka, C., Takahashi, E., Tsuneda, S., Abe, H. & Ito, Y., 2015 Apr 21, In : Organic and Biomolecular Chemistry. 13, 15, p. 4589-4595 7 p.

Research output: Contribution to journalArticle

Labeling
marking
deoxyribonucleic acid
DNA
Poisons
6 Citations (Scopus)

Selective isolation of ammonia-oxidizing bacteria from autotrophic nitrifying granules by applying cell-sorting and sub-culturing of microcolonies

Fujitani, H., Kumagai, A., Ushiki, N., Momiuchi, K. & Tsuneda, S., 2015, In : Frontiers in Microbiology. 6, OCT, 1159.

Research output: Contribution to journalArticle

Ammonia
Bacteria
Nitrites
Waste Water
Nitrosomonas
53 Citations (Scopus)

Strengthening of the intestinal epithelial tight junction by Bifidobacterium bifidum

Hsieh, C. Y., Osaka, T., Moriyama, E., Date, Y., Kikuchi, J. & Tsuneda, S., 2015, In : Physiological Reports. 3, 3, e12327.

Research output: Contribution to journalArticle

Bifidobacterium
Tight Junctions
Acetates
Electric Impedance
Caco-2 Cells
1 Citation (Scopus)

System for measuring oxygen consumption rates of mammalian cells in static culture under hypoxic conditions

Kagawa, Y., Miyahara, H., Ota, Y. & Tsuneda, S., 2015, (Accepted/In press) In : Biotechnology Progress.

Research output: Contribution to journalArticle

Oxygen Consumption
Oxygen
Somatostatin-Secreting Cells
Partial Pressure
Hep G2 Cells
2014
7 Citations (Scopus)

Cholesterol sulfate as a potential inhibitor of hepatitis C virus NS3 helicase

Furuta, A., Salam, K. A., Akimitsu, N., Tanaka, J., Tani, H., Yamashita, A., Moriishi, K., Nakakoshi, M., Tsubuki, M., Sekiguchi, Y., Tsuneda, S. & Noda, N., 2014, In : Journal of Enzyme Inhibition and Medicinal Chemistry. 29, 2, p. 223-229 7 p.

Research output: Contribution to journalArticle

Hepacivirus
Proteins
Allosteric Site
Aquatic Organisms
RNA-Binding Proteins
5 Citations (Scopus)

Detection of MPLW515L/K mutations and determination of allele frequencies with a single-tube PCR assay

Takei, H., Morishita, S., Araki, M., Edahiro, Y., Sunami, Y., Hironaka, Y., Noda, N., Sekiguchi, Y., Tsuneda, S., Ohsaka, A. & Komatsu, N., 2014, In : PLoS One. 9, 8, p. e104958

Research output: Contribution to journalArticle

Viruses
Gene Frequency
gene frequency
Assays
leukemia
10 Citations (Scopus)

Identification and biochemical characterization of halisulfate 3 and suvanine as novel inhibitors of hepatitis C virus NS3 helicase from a marine sponge

Furuta, A., Salam, K. A., Hermawan, I., Akimitsu, N., Tanaka, J., Tani, H., Yamashita, A., Moriishi, K., Nakakoshi, M., Tsubuki, M., Peng, P. W., Suzuki, Y., Yamamoto, N., Sekiguchi, Y., Tsuneda, S. & Noda, N., 2014 Jan, In : Marine Drugs. 12, 1, p. 462-476 15 p.

Research output: Contribution to journalArticle

Porifera
Hepacivirus
Proteins
Inhibitory Concentration 50
Adenosine Triphosphatases
19 Citations (Scopus)

Isolation of sublineage I Nitrospira by a novel cultivation strategy

Fujitani, H., Ushiki, N., Tsuneda, S. & Aoi, Y., 2014 Oct 1, In : Environmental Microbiology. 16, 10, p. 3030-3040 11 p.

Research output: Contribution to journalArticle

Nitrification
nitrification
Nitrogen Cycle
nitrogen cycle
organisms
21 Citations (Scopus)

JAK2V617F mutation status and allele burden in classical Ph-negative myeloproliferative neoplasms in Japan

Edahiro, Y., Morishita, S., Takahashi, K., Hironaka, Y., Yahata, Y., Sunami, Y., Shirane, S., Tsutsui, M., Noguchi, M., Koike, M., Imai, K., Kirito, K., Noda, N., Sekiguchi, Y., Tsuneda, S., Ohsaka, A., Araki, M. & Komatsu, N., 2014, In : International Journal of Hematology. 99, 5, p. 625-634 10 p.

Research output: Contribution to journalArticle

Polycythemia Vera
Japan
Alleles
Mutation
Neoplasms
2 Citations (Scopus)

Mathematical modelling of spatio-temporal cell dynamics in colonic crypts following irradiation

Murano, T., Kagawa, Y. & Tsuneda, S., 2014, In : Cell Proliferation. 47, 4, p. 347-355 9 p.

Research output: Contribution to journalArticle

Apoptosis
Theoretical Models
Reproduction
Neoplasms
Stem Cells