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Research Output 1991 2019

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Article
2012
7 Citations (Scopus)

Detection of pre-mRNA splicing in vitro by an RNA-templated fluorogenic reaction

Tamura, Y., Furukawa, K., Yoshimoto, R., Kawai, Y., Yoshida, M., Tsuneda, S., Ito, Y. & Abe, H., 2012 Dec 1, In : Bioorganic and Medicinal Chemistry Letters. 22, 23, p. 7248-7251 4 p.

Research output: Contribution to journalArticle

RNA Precursors
Fluorescence
RNA
RNA Splicing
Messenger RNA
40 Citations (Scopus)

High-rate denitrification using polyethylene glycol gel carriers entrapping heterotrophic denitrifying bacteria

Isaka, K., Kimura, Y., Osaka, T. & Tsuneda, S., 2012 Oct 15, In : Water Research. 46, 16, p. 4941-4948 8 p.

Research output: Contribution to journalArticle

Nitrogen removal
Denitrification
Polyethylene glycols
denitrification
Bacteria
6 Citations (Scopus)

Inhibition of Both Protease and Helicase Activities of Hepatitis C Virus NS3 by an Ethyl Acetate Extract of Marine Sponge Amphimedon sp

Fujimoto, Y., Salam, K. A., Furuta, A., Matsuda, Y., Fujita, O., Tani, H., Ikeda, M., Kato, N., Sakamoto, N., Maekawa, S., Enomoto, N., de Voogd, N. J., Nakakoshi, M., Tsubuki, M., Sekiguchi, Y., Tsuneda, S., Akimitsu, N., Noda, N., Yamashita, A., Tanaka, J. & 1 others, Moriishi, K., 2012 Nov 7, In : PLoS One. 7, 11, e48685.

Research output: Contribution to journalArticle

Hepatitis C virus
Porifera
Viruses
Hepacivirus
Peptide Hydrolases
23 Citations (Scopus)

Inhibition of hepatitis C virus NS3 helicase by manoalide

Salam, K. A., Furuta, A., Noda, N., Tsuneda, S., Sekiguchi, Y., Yamashita, A., Moriishi, K., Nakakoshi, M., Tsubuki, M., Tani, H., Tanaka, J. & Akimitsu, N., 2012 Apr 27, In : Journal of Natural Products. 75, 4, p. 650-654 5 p.

Research output: Contribution to journalArticle

RNA Helicases
Viruses
Hepacivirus
Adenosine Triphosphatases
Nucleoside-Triphosphatase
11 Citations (Scopus)

Inhibition of hepatitis C virus replication and viral helicase by ethyl acetate extract of the marine feather star Alloeocomatella polycladia

Yamashita, A., Salam, K. A., Furuta, A., Matsuda, Y., Fujita, O., Tani, H., Fujita, Y., Fujimoto, Y., Ikeda, M., Kato, N., Sakamoto, N., Maekawa, S., Enomoto, N., Nakakoshi, M., Tsubuki, M., Sekiguchi, Y., Tsuneda, S., Akimitsu, N., Noda, N., Tanaka, J. & 1 others, Moriishi, K., 2012 Apr, In : Marine Drugs. 10, 4, p. 744-761 18 p.

Research output: Contribution to journalArticle

Feathers
Virus Replication
Hepacivirus
Inhibitory Concentration 50
Aquatic Organisms
5 Citations (Scopus)

Quantitative detection of Cryptosporidium oocyst in water source based on 18S rRNA by alternately binding probe competitive reverse transcription polymerase chain reaction (ABC-RT-PCR)

Kishida, N., Miyata, R., Furuta, A., Izumiyama, S., Tsuneda, S., Sekiguchi, Y., Noda, N. & Akiba, M., 2012 Jan 1, In : Water Research. 46, 1, p. 187-194 8 p.

Research output: Contribution to journalArticle

Polymerase chain reaction
Transcription
polymerase chain reaction
Assays
probe
16 Citations (Scopus)

Rapid start-up of a nitrifying reactor using aerobic granular sludge as seed sludge

Kishida, N., Saeki, G., Tsuneda, S. & Sudo, R., 2012, In : Water Science and Technology. 65, 3, p. 581-588 8 p.

Research output: Contribution to journalArticle

Seed
Ammonia
ammonia
sludge
seed
16 Citations (Scopus)

Temperature dependence for anammox bacteria enriched from freshwater sediments

Osaka, T., Kimura, Y., Otsubo, Y., Suwa, Y., Tsuneda, S. & Isaka, K., 2012 Oct, In : Journal of Bioscience and Bioengineering. 114, 4, p. 429-434 6 p.

Research output: Contribution to journalArticle

Fresh Water
Ammonium Compounds
Bacteria
Sediments
Oxidation
47 Citations (Scopus)

The effect of surface charge property on Escherichia coli initial adhesion and subsequent biofilm formation

Terada, A., Okuyama, K., Nishikawa, M., Tsuneda, S. & Hosomi, M., 2012 Jul, In : Biotechnology and Bioengineering. 109, 7, p. 1745-1754 10 p.

Research output: Contribution to journalArticle

Surface Properties
Biofilms
Surface charge
Escherichia coli
Adhesion
2011
8 Citations (Scopus)

Alternately binding probe competitive PCR as a simple, cost-effective, and accurate quantification method for JAK2V617F allele burden in myeloproliferative neoplasms

Morishita, S., Komatsu, N., Kirito, K., Koda, A. H., Sekiguchi, Y., Tsuneda, S. & Noda, N., 2011 Dec, In : Leukemia Research. 35, 12, p. 1632-1636 5 p.

Research output: Contribution to journalArticle

Competitive Binding
Alleles
Costs and Cost Analysis
Polymerase Chain Reaction
Neoplasms
2 Citations (Scopus)

Application of nitrifying granules to improvement of nitrification activity in activated sludge process

Kishida, N., Totsuka, R., Kono, A., Kurasawa, M., Ogiwara, M. & Tsuneda, S., 2011, In : International Journal of Environment and Waste Management. 7, 1-2, p. 103-111 9 p.

Research output: Contribution to journalArticle

Activated sludge process
Nitrification
activated sludge
nitrification
inoculation
48 Citations (Scopus)

Development of osteogenic cell sheets for bone tissue engineering applications

Pirraco, R. P., Obokata, H., Iwata, T., Marques, A. P., Tsuneda, S., Yamato, M., Reis, R. L. & Okano, T., 2011 Jun 1, In : Tissue Engineering - Part A. 17, 11-12, p. 1507-1515 9 p.

Research output: Contribution to journalArticle

Tissue Engineering
Tissue engineering
Bone
Cell Engineering
Bone and Bones
23 Citations (Scopus)

Fluorescence detection of intron lariat RNA with reduction-triggered fluorescent probes

Furukawa, K., Abe, H., Tamura, Y., Yoshimoto, R., Yoshida, M., Tsuneda, S. & Ito, Y., 2011 Dec 9, In : Angewandte Chemie - International Edition. 50, 50, p. 12020-12023 4 p.

Research output: Contribution to journalArticle

Fluorescein
RNA
Fluorescent Dyes
Introns
Bearings (structural)
29 Citations (Scopus)

Reproducible subcutaneous transplantation of cell sheets into recipient mice

Obokata, H., Yamato, M., Tsuneda, S. & Okano, T., 2011 Jun, In : Nature Protocols. 6, 7, p. 1053-1059 7 p.

Research output: Contribution to journalArticle

Transplantation (surgical)
Transplants
Cell Transplantation
Tissue
Regenerative Medicine
26 Citations (Scopus)

Synthesis, structure, and biological activity of dumbbell-shaped nanocircular RNAs for RNA interference

Abe, N., Abe, H., Nagai, C., Harada, M., Hatakeyama, H., Harashima, H., Ohshiro, T., Nishihara, M., Furukawa, K., Maeda, M., Tsuneda, S. & Ito, Y., 2011 Oct 19, In : Bioconjugate Chemistry. 22, 10, p. 2082-2092 11 p.

Research output: Contribution to journalArticle

RNA Interference
Bioactivity
RNA
Small Interfering RNA
Nanostructures
18 Citations (Scopus)

The potential of stem cells in adult tissues representative of the three germ layers

Obokata, H., Kojima, K., Westerman, K., Yamato, M., Okano, T., Tsuneda, S. & Vacanti, C. A., 2011 Mar 1, In : Tissue Engineering - Part A. 17, 5-6, p. 607-615 9 p.

Research output: Contribution to journalArticle

Germ Layers
Adult Stem Cells
Stem cells
Tissue
Embryonic Stem Cells
2010
76 Citations (Scopus)

Behavior of polymeric substrates in an aerobic granular sludge system

de Kreuk, M. K., Kishida, N., Tsuneda, S. & van Loosdrecht, M. C. M., 2010 Dec, In : Water Research. 44, 20, p. 5929-5938 10 p.

Research output: Contribution to journalArticle

Starch
starch
sludge
substrate
Substrates
6 Citations (Scopus)

Direct cloning and expression of putative esterase genes from environmental DNA

Terahara, T., Yamada, K., Kurata, S., Yokomaku, T., Tsuneda, S. & Harayama, S., 2010 Jul, In : Enzyme and Microbial Technology. 47, 1-2, p. 17-23 7 p.

Research output: Contribution to journalArticle

Cloning
Esterases
Organism Cloning
DNA
Enzymes
83 Citations (Scopus)

Microbial community structure in autotrophic nitrifying granules characterized by experimental and simulation analyses

Matsumoto, S., Katoku, M., Saeki, G., Terada, A., Aoi, Y., Tsuneda, S., Picioreanu, C. & Van Loosdrecht, M. C. M., 2010 Jan, In : Environmental Microbiology. 12, 1, p. 192-206 15 p.

Research output: Contribution to journalArticle

microbial communities
microbial community
granules
community structure
Bacteria
15 Citations (Scopus)

Microbial population dynamics and community structure during the formation of nitrifying granules to treat ammonia-rich inorganic wastewater

Matsumoto, S., Ishikawa, D., Saeki, G., Aoi, Y. & Tsuneda, S., 2010, In : Microbes and Environments. 25, 3, p. 164-170 7 p.

Research output: Contribution to journalArticle

wastewater
granules
population dynamics
community structure
ammonia
30 Citations (Scopus)

New monitoring approach for metabolic dynamics in microbial ecosystems using stable-isotope-labeling technologies

Date, Y., Nakanishi, Y., Fukuda, S., Kato, T., Tsuneda, S., Ohno, H. & Kikuchi, J., 2010 Jul, In : Journal of Bioscience and Bioengineering. 110, 1, p. 87-93 7 p.

Research output: Contribution to journalArticle

Isotope Labeling
Isotopes
Ecosystems
Labeling
Ecosystem
17 Citations (Scopus)

Photoactivatable fluorescein derivatives with azidomethyl caging groups for tracing oligonucleotides in living human cells

Furukawa, K., Abe, H., Tsuneda, S. & Ito, Y., 2010, In : Organic and Biomolecular Chemistry. 8, 10, p. 2309-2311 3 p.

Research output: Contribution to journalArticle

oligonucleotides
tracing
Fluorescein
Oligonucleotides
Cells
5 Citations (Scopus)

Quantitative detection of chloroethene-reductive bacteria Dehalococcoides spp. using alternately binding probe competitive polymerase chain reaction

Miyata, R., Adachi, K., Tani, H., Kurata, S., Nakamura, K., Tsuneda, S., Sekiguchi, Y. & Noda, N., 2010 Jun, In : Molecular and Cellular Probes. 24, 3, p. 131-137 7 p.

Research output: Contribution to journalArticle

Competitive Binding
Bacteria
Polymerase Chain Reaction
Environmental Biodegradation
rRNA Genes
22 Citations (Scopus)

Real-time monitoring of RNA helicase activity using fluorescence resonance energy transfer in vitro

Tani, H., Fujita, O., Furuta, A., Matsuda, Y., Miyata, R., Akimitsu, N., Tanaka, J., Tsuneda, S., Sekiguchi, Y. & Noda, N., 2010 Feb 26, In : Biochemical and Biophysical Research Communications. 393, 1, p. 131-136 6 p.

Research output: Contribution to journalArticle

RNA Helicases
Fluorescence Resonance Energy Transfer
Assays
Hepacivirus
Double-Stranded RNA
37 Citations (Scopus)

Transitions in oral and intestinal microflora composition and innate immune receptor-dependent stimulation during mouse development

Hasegawa, M., Osaka, T., Tawaratsumida, K., Yamazaki, T., Tada, H., Chen, G. Y., Tsuneda, S., Núñez, G. & Inohara, N., 2010 Feb, In : Infection and Immunity. 78, 2, p. 639-650 12 p.

Research output: Contribution to journalArticle

Toll-Like Receptor 4
Pattern Recognition Receptors
Aptitude
Homeostasis
Bacteria
2009
6 Citations (Scopus)

Affinity capillary electrophoresis with magnetic beads for multiplex quantitative analysis of bacterial 16S rRNA

Adachi, K., Yamaguchi, M., Nakashige, M., Kanagawa, T., Torimura, M., Tsuneda, S., Sekiguchi, Y. & Noda, N., 2009 Jun, In : Journal of Bioscience and Bioengineering. 107, 6, p. 662-667 6 p.

Research output: Contribution to journalArticle

Capillary electrophoresis
Capillary Electrophoresis
RNA
Chemical analysis
Fluorescent Dyes
9 Citations (Scopus)

Fibrous support stabilizes nitrification performance of a membrane-aerated biofilm: The effect of liquid flow perturbation

Terada, A., Ito, J., Matsumoto, S. & Tsuneda, S., 2009 Aug 20, In : Journal of Chemical Engineering of Japan. 42, 8, p. 607-615 9 p.

Research output: Contribution to journalArticle

Nitrification
Biofilms
Membranes
Liquids
Silicones
18 Citations (Scopus)

High-throughput screening assay of hepatitis C virus helicase inhibitors using fluorescence-quenching phenomenon

Tani, H., Akimitsu, N., Fujita, O., Matsuda, Y., Miyata, R., Tsuneda, S., Igarashi, M., Sekiguchi, Y. & Noda, N., 2009 Feb 20, In : Biochemical and Biophysical Research Communications. 379, 4, p. 1054-1059 6 p.

Research output: Contribution to journalArticle

High-Throughput Screening Assays
Guanine
Viruses
Hepacivirus
Quenching
53 Citations (Scopus)

Hollow-fiber membrane chamber as a device for in situ environmental cultivation

Aoi, Y., Kinoshita, T., Hata, T., Ohta, H., Obokata, H. & Tsuneda, S., 2009 Jun, In : Applied and Environmental Microbiology. 75, 11, p. 3826-3833 8 p.

Research output: Contribution to journalArticle

agar
membrane
microorganisms
injectors
Equipment and Supplies
33 Citations (Scopus)

Microbial diversity of anammox bacteria enriched from different types of seed sludge in an anaerobic continuous-feeding cultivation reactor

Date, Y., Isaka, K., Ikuta, H., Sumino, T., Kaneko, N., Yoshie, S., Tsuneda, S. & Inamori, Y., 2009 Mar, In : Journal of Bioscience and Bioengineering. 107, 3, p. 281-286 6 p.

Research output: Contribution to journalArticle

Sewage sludge
Sewage
Seed
Seeds
Bacteria
33 Citations (Scopus)

Molecular diversity of bacterial chitinases in arable soils and the effects of environmental factors on the chitinolytic bacterial community

Terahara, T., Ikeda, S., Noritake, C., Minamisawa, K., Ando, K., Tsuneda, S. & Harayama, S., 2009 Mar, In : Soil Biology and Biochemistry. 41, 3, p. 473-480 8 p.

Research output: Contribution to journalArticle

Chitinases
chitinase
arable soils
bacterial communities
environmental factor
2 Citations (Scopus)

Protein detection using oligonucleotide probes.

Shibata, A., Abe, H., Furukawa, K., Tsuneda, S. & Ito, Y., 2009, In : Nucleic acids symposium series (2004). 53, p. 157-158 2 p.

Research output: Contribution to journalArticle

Oligonucleotide Probes
Fluorescence
Proteins
Peptides
Protein Sorting Signals
10 Citations (Scopus)

Real-time reverse transcription loop-mediated isothermal amplification for rapid and simple quantification of WT1 mRNA

Morishita, S., Tani, H., Kurata, S., Nakamura, K., Tsuneda, S., Sekiguchi, Y. & Noda, N., 2009 Apr, In : Clinical Biochemistry. 42, 6, p. 515-520 6 p.

Research output: Contribution to journalArticle

Transcription
Reverse Transcription
Amplification
Messenger RNA
Assays
5 Citations (Scopus)

Reduction-triggered fluorescence probe for peptide-templated reactions

Shibata, A., Abe, H., Furukawa, K., Tsuneda, S. & Ito, Y., 2009 Nov, In : Chemical and Pharmaceutical Bulletin. 57, 11, p. 1223-1226 4 p.

Research output: Contribution to journalArticle

Fluorescence
Peptides
Proteins
Fluorescein
Oligonucleotides
62 Citations (Scopus)

Reduction-triggered fluorescent amplification probe for the detection of endogenous RNAs in living human cells

Furukawa, K., Abe, H., Hibino, K., Sako, Y., Tsuneda, S. & Ito, Y., 2009 May 20, In : Bioconjugate Chemistry. 20, 5, p. 1026-1036 11 p.

Research output: Contribution to journalArticle

RNA
Fluorescent Dyes
Amplification
Fluorescence
Cells
36 Citations (Scopus)

Reduction-triggered red fluorescent probes for dual-color detection of oligonucleotide sequences

Furukawa, K., Abe, H., Wang, J., Uda, M., Koshino, H., Tsuneda, S. & Ito, Y., 2009, In : Organic and Biomolecular Chemistry. 7, 4, p. 671-677 7 p.

Research output: Contribution to journalArticle

oligonucleotides
Fluorescent Dyes
Oligonucleotides
reagents
Color
40 Citations (Scopus)

Simultaneous nitrogen and phosphorus removal from high-strength industrial wastewater using aerobic granular sludge

Kishida, N., Tsuneda, S., Kim, J. H. & Sudo, R., 2009, In : Journal of Environmental Engineering. 135, 3, p. 153-158 6 p.

Research output: Contribution to journalArticle

Agriculture
Phosphorus
Wastewater
Nitrogen
sludge
2 Citations (Scopus)

Synthetic nanocircular RNA for controlling of gene expression.

Abe, H., Abe, N., Uda, M., Tsuneda, S. & Ito, Y., 2009, In : Nucleic acids symposium series (2004). 53, p. 65-66 2 p.

Research output: Contribution to journalArticle

RNA Interference
RNA
Gene Expression
Ribonuclease III
Double-Stranded RNA
22 Citations (Scopus)

Universal quenching probe system: Flexible, specific, and cost-effective real-time polymerase chain reaction method

Tani, H., Miyata, R., Ichikawa, K., Morishita, S., Kurata, S., Nakamura, K., Tsuneda, S., Sekiguchi, Y. & Noda, N., 2009 Jul 15, In : Analytical Chemistry. 81, 14, p. 5678-5685 8 p.

Research output: Contribution to journalArticle

Polymerase chain reaction
Quenching
Costs
Coloring Agents
Bearings (structural)
2008
53 Citations (Scopus)

Anaerobic ammonium oxidation (anammox) irreversibly inhibited by methanol

Isaka, K., Suwa, Y., Kimura, Y., Yamagishi, T., Sumino, T. & Tsuneda, S., 2008 Nov, In : Applied Microbiology and Biotechnology. 81, 2, p. 379-385 7 p.

Research output: Contribution to journalArticle

Ammonium Compounds
Methanol
Gels
Waste Water
Sewage
77 Citations (Scopus)

A reduction-triggered fluorescence probe for sensing nucleic acids

Abe, H., Wang, J., Furukawa, K., Oki, K., Uda, M., Tsuneda, S. & Ito, Y., 2008 Jun, In : Bioconjugate Chemistry. 19, 6, p. 1219-1226 8 p.

Research output: Contribution to journalArticle

Nucleic Acid Probes
Nucleic acids
Nucleic Acids
Fluorescence
Oligonucleotides
11 Citations (Scopus)

DNA microarray mediated transcriptional profiling of Nitrosomonas europaea in response to linear alkylbenzene sulfonates

Urakawa, H., Matsumoto, J., Inaba, K. & Tsuneda, S., 2008 May, In : FEMS Microbiology Letters. 282, 2, p. 166-173 8 p.

Research output: Contribution to journalArticle

Nitrosomonas europaea
Oligonucleotide Array Sequence Analysis
Genes
Microarray Analysis
Ammonia
90 Citations (Scopus)

Effects of carbon source on denitrification efficiency and microbial community structure in a saline wastewater treatment process

Osaka, T., Shirotani, K., Yoshie, S. & Tsuneda, S., 2008 Aug, In : Water Research. 42, 14, p. 3709-3718 10 p.

Research output: Contribution to journalArticle

Denitrification
Wastewater treatment
methanol
denitrification
microbial community
7 Citations (Scopus)

Estimation of single-nucleotide polymorphism allele frequency by alternately binding probe competitive polymerase chain reaction

Noda, N., Tani, H., Morita, N., Kurata, S., Nakamura, K., Kanagawa, T., Tsuneda, S. & Sekiguchi, Y., 2008 Feb 11, In : Analytica Chimica Acta. 608, 2, p. 211-216 6 p.

Research output: Contribution to journalArticle

Competitive Binding
Polymerase chain reaction
Polymorphism
Gene Frequency
polymerase chain reaction
8 Citations (Scopus)

Fluorescence generation from tandem repeats of a malachite green RNA aptamer using rolling circle transcription

Furukawa, K., Abe, H., Abe, N., Harada, M., Tsuneda, S. & Ito, Y., 2008 Aug 15, In : Bioorganic and Medicinal Chemistry Letters. 18, 16, p. 4562-4565 4 p.

Research output: Contribution to journalArticle

Tandem Repeat Sequences
Transcription
Fluorescence
Circular DNA
DNA-Directed RNA Polymerases

Fluorogenic probe triggered by reduction for nucleic acids sensing.

Furukawa, K., Abe, H., Wang, J., Oki, K., Uda, M., Tsuneda, S. & Ito, Y., 2008, In : Nucleic acids symposium series (2004). 52, p. 353-354 2 p.

Research output: Contribution to journalArticle

Nucleic Acids
Azides
Fluorescence
Oligonucleotides
Bacterial RNA
41 Citations (Scopus)

Identification of the bacterial community involved in methane-dependent denitrification in activated sludge using DNA stable-isotope probing

Osaka, T., Ebie, Y., Tsuneda, S. & Inamori, Y., 2008 Jun, In : FEMS Microbiology Ecology. 64, 3, p. 494-506 13 p.

Research output: Contribution to journalArticle

Denitrification
Methane
Sewage
Isotopes
activated sludge
96 Citations (Scopus)

Low temperature decreases the phylogenetic diversity of ammonia-oxidizing archaea and bacteria in aquarium biofiltration systems

Urakawa, H., Tajima, Y., Numata, Y. & Tsuneda, S., 2008 Feb, In : Applied and Environmental Microbiology. 74, 3, p. 894-900 7 p.

Research output: Contribution to journalArticle

biofiltration
Archaea
aquarium
aquariums
Ammonia
17 Citations (Scopus)

Modeling and experimental study on the anaerobic/aerobic/anoxic process for simultaneous nitrogen and phosphorus removal: The effect of acetate addition

Soejima, K., Matsumoto, S., Ohgushi, S., Naraki, K., Terada, A., Tsuneda, S. & Hirata, A., 2008 Jun, In : Process Biochemistry. 43, 6, p. 605-614 10 p.

Research output: Contribution to journalArticle

Phosphorus
Polyphosphates
Phosphates
Acetates
Nitrogen
2 Citations (Scopus)

Nanocircular RNAs for RNA interference.

Abe, H., Abe, N., Harada, M., Tsuneda, S. & Ito, Y., 2008, In : Nucleic acids symposium series (2004). 52, p. 505-506 2 p.

Research output: Contribution to journalArticle

RNA Interference
RNA
Ribonuclease III
Double-Stranded RNA
Base Pairing