Faculty introduction - 黒田　誠 |

黒田　誠

Department / Course Faculty of Health Science Department of Medical Technology

Graduate School of Health Sciences Division of Health Sciences

Job Professor

Selected Publications
Books	Chapter "Genome sequencing and annotation: an overview" in Genomics, Proteomincs　and Clinical Bacteriology. (Co-authored) 2003
Books	Application of Genomic Information to the Diagnosis, Management and Control of Bacterial Infections: Staphylococcus aureus model. Diagnostic Molecular Microbiology 2nd Ed. D. (Co-authored) 2002
Papers	Persistence of Colistin Resistance and mcr-1.1-Positive E. coli in Poultry Despite Colistin Ban in Japan Antibiotics 14 (4),pp.360 (Co-authored) 2025/04/01
Papers	Comparison of the Gut Microbiota of Patients Who Improve with Antibiotic Combination Therapy for Ulcerative Colitis and Those Who Do Not: Investigation by Fecal Metagenomic Analyses Nutrients 16 (20),pp.3500 (Co-authored) 2024/10/16
Papers	Genomic Analysis of Novel Bacterial Species Corynebacterium ramonii ST344 Clone Strains Isolated from Human Skin Ulcer and Rescued Cats in Japan Zoonotic Dis. 4 (4),pp.234-244 (Co-authored) 2024/10/11
Papers	Mitigation of environmental antimicrobial resistance (AMR) load through hospital wastewater treatment.,pp.706-708 (Sole-authored) 2024/07/01
Papers	Changes in the Phenotypes of Salmonella spp. in Japanese Broiler Flocks Food Saf (Tokyo) . 12 (2),pp.25-33 (Co-authored) 2024/05/31
Papers	Complete genome sequence of Selenomonas species strain TAMA-11512, isolated from blood culture of a septic patient Microbiol Resour Announc. 13 (4),pp.e0007024 (Co-authored) 2024/04/11
Papers	Development of a High-Throughput Analytical Method for Antimicrobials in Wastewater Using an Automated Pipetting and Solid-Phase Extraction System Antibiotics (Basel) 13 (4),pp.335 (Co-authored) 2024/04/05
Papers	Rapid response to a COVID-19 outbreak at a nightclub in Kagoshima prefecture, Japan, in the early phase of the COVID-19 pandemic, June and July 2020: A descriptive epidemiological study J Infect Chemother . S1341-321X(24),pp.98-99 (Co-authored) 2024/03/22
Papers	Comparative pathogenomic analysis reveals a highly tetanus toxin-producing clade of Clostridium tetani isolates in Japan mSphere (Co-authored) 2023/11/27
Papers	Whole genome sequencing and pan-genome analysis of Staphylococcus/Mammaliicoccus spp. isolated from diabetic foot ulcers and contralateral healthy skin of Algerian patients BMC Microbiol (Co-authored) 2023/11/17
Papers	Impact of COVID-19 and closed transmission of SARS-CoV-2 during the first wave in Toyama Prefecture, Japan, March 30 to May 18, 2020 Jpn J Infect Dis (Co-authored) 2023/11/01
Papers	Pet Animals Were Infected with SARS-CoV-2 from Their Owners Who Developed COVID-19: Case Series Study Viruses (Co-authored) 2023/10/28
Papers	SARS-CoV-2 Infection in Wrestlers after International Tournaments, April 2021 Emerg Infect Dis (Co-authored) 2023/10/03
Papers	Molecular Evolutionary Analyses of the Spike Protein Gene and Spike Protein in the SARS-CoV-2 Omicron Subvariants Microorganisms (Co-authored) 2023/09/28
Papers	Transmission dynamics variability of lineage 2 Mycobacterium tuberculosis strains in Kobe, Japan, determined using population-based whole-genome sequencing analysis Infect Genet Evol (Co-authored) 2023/08/31
Papers	Genomic analysis of SARS-CoV-2 in forensic autopsy cases of COVID-19 J Med Virol (Co-authored) 2023/08/04
Papers	Rapid identification of bacteria using a multiplex polymerase chain reaction system for acute abdominal infections Front Microbiol (Co-authored) 2023/07/26
Papers	Outbreaks of Campylobacteriosis Caused by Drinking Raw Milk in Japan: Evidence of Relationship Between Milk and Patients by Using Whole Genome Sequencing Foodborne Pathog Dis (Co-authored) 2023/07/20
Papers	Multiplex Hybrid Capture Improves the Deep Detection of Antimicrobial Resistance Genes from Wastewater Treatment Plant Effluents to Assess Environmental Issues Microb Drug Resist (Co-authored) 2023/07/11
Papers	Performance of a Pilot-Scale Continuous Flow Ozone-Based Hospital Wastewater Treatment System Antibiotics (Basel) (Co-authored) 2023/05/27
Papers	Highly sensitive detection of antimicrobial resistance genes in hospital wastewater using the multiplex hybrid capture target enrichment mSphere (Co-authored) 2023/05/24
Papers	SARS-CoV-2 intra-host diversity, antibody response, and disease severity after reinfection by the variant of concern Gamma in Brazil Sci Rep (Co-authored) 2023/05/05
Papers	Complete Genome Sequence of Corynebacterium ulcerans Strain TSU-28, Harboring Two Diphtheria Toxin Genes, Isolated from a Patient with Diphtheria-Like Symptoms Microbiol Resour Announc (Co-authored) 2023/05/03
Papers	Antimicrobial resistance profiles of Campylobacter jejuni and Salmonella spp. isolated from enteritis patients in Japan J Vet Med Sci (Co-authored) 2023/03/06
Papers	Emergence of BS.1 and BS.1.1, highly mutated new SARS-CoV-2 Omicron variants J Med Virol (Co-authored) 2023/02/25
Papers	Comprehensive Genome and Plasmidome Analysis of Antimicrobial Resistant Bacteria in Wastewater Treatment Plant Effluent of Tokyo Antibiotics (Basel) (Co-authored) 2022/10/27
Papers	Independent evolution of multi-dominant viral genome species observed in a hepatitis C virus carrier Biochem Biophys Rep (Co-authored) 2022/09/08
Papers	Metagenomic Analysis of Urban Wastewater Treatment Plant Effluents in Tokyo Infect Drug Resist (Co-authored) 2022/08/30
Papers	Detection of SARS-CoV-2 Genome for over 100 Days after COVID-19 Onset Jpn J Infect Dis (Co-authored) 2022/07/31
Papers	Inactivation of Bacteria and Residual Antimicrobials in Hospital Wastewater by Ozone Treatment Antibiotics (Basel) (Co-authored) 2022/07/27
Papers	Singing Is a Risk Factor for Severe Acute Respiratory Syndrome Coronavirus 2 Infection: A Case-Control Study of Karaoke-Related Coronavirus Disease 2019 Outbreaks in 2 Cities in Hokkaido, Japan, Linked by Whole Genome Analysis Open Forum Infect Dis (Co-authored) 2022/05/09
Papers	Recombination between SARS-CoV-2 Omicron BA.1 and BA.2 variants identified in a traveller from Nepal at the airport quarantine facility in Japan J Travel Med (Co-authored) 2022/04/20
Papers	Epidemiology and Genetic Analysis of SARS-CoV-2 in Myanmar during the Community Outbreaks in 2020 Viruses (Co-authored) 2022/02/26
Papers	Correction to: Quick detection of causative bacteria in cases of acute cholangitis and cholecystitis using a multichannel gene autoanalyzer Surg Today (Co-authored) 2022/02/22
Papers	A lethal mouse model for evaluating vaccine-associated enhanced respiratory disease during SARS-CoV-2 infection Sci Adv (Co-authored) 2022/01/07
Papers	Antimicrobial Resistance in Salmonella Isolated from Food Workers and Chicken Products in Japan Antibiotics (Basel) (Co-authored) 2021/12/24
Papers	Corrigendum to: Phylogenetic Analysis Revealed the Dissemination of Closely Related Epidemic Vibrio cholerae O1 Isolates in Laos, Thailand, and Vietnam Open Forum Infect Dis (Co-authored) 2021/12/13
Papers	Genomic Epidemiology Reveals Multiple Introductions of Severe Acute Respiratory Syndrome Coronavirus 2 in Niigata City, Japan, Between February and May 2020 Front Microbiol (Co-authored) 2021/11/15
Papers	Transmission of SARS-CoV-2 during a 2-h domestic flight to Okinawa, Japan, March 2020 Influenza Other Respir Viruses (Co-authored) 2021/10/04
Papers	[SARS-CoV-2 genomics and its application to genome surveillance] Uirusu (Sole-authored) 2021/09/21
Papers	A SARS-CoV-2 antibody broadly neutralizes SARS-related coronaviruses and variants by coordinated recognition of a virus-vulnerable site Immunity (Co-authored) 2021/09/11
Papers	SARS-CoV-2 is localized in cardiomyocytes: a postmortem biopsy case Int J Infect Dis (Co-authored) 2021/08/13
Papers	Whole Genome Analysis Detects the Emergence of a Single Salmonella enterica Serovar Chester Clone in Japan's Kanto Region Front Microbiol (Co-authored) 2021/08/13
Papers	Characterization of FRI carbapenemase-producing Enterobacter spp. isolated from a hospital and the environment in Osaka, Japan J Antimicrob Chemother (Co-authored) 2021/08/12
Papers	A discernable increase in the severe acute respiratory syndrome coronavirus 2 R.1 lineage carrying an E484K spike protein mutation in Japan Infect Genet Evol (Co-authored) 2021/08/05
Papers	High attack rate of SARS-CoV-2 infections during a bus tour in Japan J Travel Med (Co-authored) 2021/08/04
Papers	Identification of a Recently Dominant Sublineage in Salmonella 4,[5],12:i:- Sequence Type 34 Isolated From Food Animals in Japan Front Microbiol (Co-authored) 2021/07/19
Papers	Quick detection of causative bacteria in cases of acute cholangitis and cholecystitis using a multichannel gene autoanalyzer Surg Today (Co-authored) 2021/07/13
Papers	Transmission of extended-spectrum cephalosporin-resistant Salmonella harboring a bla(CMY-2)-carrying IncA/C(2) plasmid chromosomally integrated by ISEcp1 or IS26 in layer breeding chains in Japan J Vet Med Sci (Co-authored) 2021/07/09
Papers	Identification of SYS1 as a Host Factor Required for Shiga Toxin-Mediated Cytotoxicity in Vero Cells Int J Mol Sci (Co-authored) 2021/06/02
Papers	Haplotype Explorer: an infection cluster visualization tool for spatiotemporal dissection of the COVID-19 pandemic G3 (Bethesda) (Co-authored) 2021/04/23
Papers	Vitronectin binding protein, BOM1093, confers serum resistance on Borrelia miyamotoi Sci Rep (Co-authored) 2021/03/22
Papers	Novel SARS-CoV-2 Variant in Travelers from Brazil to Japan Emerg Infect Dis (Co-authored) 2021/02/10
Papers	Emergence of the mcr-1 colistin resistance gene in extended-spectrum β-lactamase-producing Klebsiella pneumoniae in Taiwan J Glob Antimicrob Resist (Co-authored) 2021/01/23
Papers	A Potent anti-Simian Immunodeficiency Virus Neutralizing Antibody Induction Associated with a Germline Immunoglobulin Gene Polymorphism in Rhesus Macaques J Virol (Co-authored) 2021/01/14
Papers	Phylogenetic Analysis Revealed the Dissemination of Closely Related Epidemic Vibrio cholerae O1 Isolates in Laos, Thailand, and Vietnam Open Forum Infect Dis (Co-authored) 2020/11/27
Papers	COVID-19 genome surveillance at international airport quarantine stations in Japan J Travel Med (Co-authored) 2020/11/25
Papers	Dissemination of IncF group F1:A2:B20 plasmid-harbouring multidrug-resistant Escherichia coli ST131 before the acquisition of bla(CTX-M) in Japan J Glob Antimicrob Resist (Co-authored) 2020/11/19
Papers	A Genome Epidemiological Study of SARS-CoV-2 Introduction into Japan mSphere (Co-authored) 2020/11/12
Papers	First case of molecularly identified and genetically characterized human T-cell leukemia virus type 2 infection in a pregnant woman in non-endemic Japan J Virol Methods (Co-authored) 2020/10/25
Papers	Detailed Molecular Interactions of Favipiravir with SARS-CoV-2, SARS-CoV, MERS-CoV, and Influenza Virus Polymerases In Silico Microorganisms (Co-authored) 2020/10/23
Papers	Disentangling primer interactions improves SARS-CoV-2 genome sequencing by multiplex tiling PCR PLoS One (Co-authored) 2020/09/18
Papers	Limitations of Ribotyping as Genotyping Method for Corynebacterium ulcerans Emerg Infect Dis (Co-authored) 2020/09/18
Papers	Coinfection with Human Norovirus and Escherichia coli O25:H4 Harboring Two Chromosomal blaCTX-M-14 Genes in a Foodborne Norovirus Outbreak in Shizuoka Prefecture, Japan J Food Prot (Co-authored) 2020/09/01
Papers	Periodic Genotype Shifts in Clinically Prevalent Mycoplasma pneumoniae Strains in Japan Front Cell Infect Microbiol (Co-authored) 2020/08/28
Papers	Chromobacterium haemolyticum Pneumonia Associated with Near-Drowning and River Water, Japan Emerg Infect Dis (Co-authored) 2020/08/21
Papers	Isolation and plasmid characterisation of Salmonella enterica serovar Albany harbouring mcr-5 from retail chicken meat in Japan FEMS Microbiol Lett (Co-authored) 2020/08/07
Papers	Haplotype networks of SARS-CoV-2 infections in the Diamond Princess cruise ship outbreak Proc Natl Acad Sci U S A (Co-authored) 2020/07/30
Papers	SARS-CoV-2 Genome Analysis of Japanese Travelers in Nile River Cruise Front Microbiol (Co-authored) 2020/06/26
Papers	Neurogenic pulmonary edema following febrile status epilepticus in a 22-month-old infant with multiple respiratory virus co-detection: a case report BMC Infect Dis (Co-authored) 2020/06/04
Papers	Meningitis and bacteremia by nonhemolytic Group B Streptococcus strain: A whole genome analysis Microbiol Immunol (Co-authored) 2020/06/03
Papers	Clinicopathologic and Immunohistochemical Findings from Autopsy of Patient with COVID-19, Japan Emerg Infect Dis (Co-authored) 2020/05/16
Papers	Molecular evolution of the capsid (VP1) region in human norovirus genogroup II genotype 3 Heliyon (Co-authored) 2020/05/13
Papers	Comparative Genomic Analysis of Third-Generation-Cephalosporin-Resistant Escherichia coli Harboring the bla(CMY-2)-Positive IncI1 Group, IncB/O/K/Z, and IncC Plasmids Isolated from Healthy Broilers in Japan Antimicrob Agents Chemother (Co-authored) 2020/05/06
Papers	High expression of JC polyomavirus-encoded microRNAs in progressive multifocal leukoencephalopathy tissues and its repressive role in virus replication PLoS Pathog (Co-authored) 2020/04/24
Papers	Bacterial population kinetics in heteroresistant Mycobacterium tuberculosis harbouring rare resistance-conferring mutations in gyrA and rpoB imply an epistatic interaction of mutations in a pre-XDR-TB patient J Antimicrob Chemother (Co-authored) 2020/04/18
Papers	Food Workers as a Reservoir of Extended-Spectrum-Cephalosporin-Resistant Salmonella Strains in Japan Appl Environ Microbiol (Co-authored) 2020/04/12
Papers	Enhanced isolation of SARS-CoV-2 by TMPRSS2-expressing cells Proc Natl Acad Sci U S A (Co-authored) 2020/03/14
Papers	A prolonged multispecies outbreak of IMP-6 carbapenemase-producing Enterobacterales due to horizontal transmission of the IncN plasmid Sci Rep (Co-authored) 2020/03/07
Papers	Characterization of the IncFII-IncFIB(pB171) Plasmid Carrying bla (NDM-5) in Escherichia coli ST405 Clinical Isolate in Japan Infect Drug Resist (Co-authored) 2020/02/29
Papers	Truncated Class 1 Integron Gene Cassette Arrays Contribute to Antimicrobial Resistance of Diarrheagenic Escherichia coli Biomed Res Int (Co-authored) 2020/02/25
Papers	Molecular Evolution of the Protease Region in Norovirus Genogroup II Front Microbiol (Co-authored) 2020/01/30
Papers	Candidatus Mycoplasma haemohominis in Human, Japan Emerg Infect Dis (Co-authored) 2019/12/20
Papers	Flagellum expression and swimming activity by the zoonotic pathogen Escherichia albertii Environ Microbiol Rep (Co-authored) 2019/12/18
Papers	High-throughput genotyping of a full voltage-gated sodium channel gene via genomic DNA using target capture sequencing and analytical pipeline MoNaS to discover novel insecticide resistance mutations (Co-authored) 2019/11/19
Papers	Complete genome and bimodal genomic structure of the amoebal symbiont Neochlamydia strain S13 revealed by ultra-long reads obtained from MinION J Hum Genet (Co-authored) 2019/11/15
Papers	Identification of a mecA/mecC-positive MRSA ST1-t127 isolate from a racehorse in Japan J Antimicrob Chemother (Co-authored) 2019/11/07
Papers	IMP-68, a Novel IMP-Type Metallo-β-Lactamase in Imipenem-Susceptible Klebsiella pneumoniae mSphere (Co-authored) 2019/11/01
Papers	Evolutionary Analysis of the VP1 and RNA-Dependent RNA Polymerase Regions of Human Norovirus GII.P17-GII.17 in 2013-2017 Front Microbiol (Co-authored) 2019/10/16
Papers	Epidemiological Aspects of Escherichia albertii Outbreaks in Japan and Genetic Characteristics of the Causative Pathogen Foodborne Pathog Dis (Co-authored) 2019/10/12
Papers	Clade II Candida auris possess genomic structural variations related to an ancestral strain PLoS One (Co-authored) 2019/10/10
Papers	Complete Genome Sequence of an Enterohemorrhagic Escherichia coli O111:H8 Strain Recovered from a Large Outbreak in Japan Associated with Consumption of Raw Beef Microbiol Resour Announc (Co-authored) 2019/10/05
Papers	Aseptic meningitis caused by torque teno virus in an infant: a case report J Med Case Rep (Co-authored) 2019/09/25
Papers	Whole-genome sequencing-based epidemiological analysis of anti-tuberculosis drug resistance genes in Japan in 2007: Application of the Genome Research for Asian Tuberculosis (GReAT) database Sci Rep (Co-authored) 2019/09/08
Papers	IS256-Mediated Overexpression of the WalKR Two-Component System Regulon Contributes to Reduced Vancomycin Susceptibility in a Staphylococcus aureus Clinical Isolate Front Microbiol (Co-authored) 2019/09/03
Papers	Rapid and affordable size-selected PacBio single-molecule real-time sequencing template library construction using the bead-beating DNA extraction method J Biol Methods (Co-authored) 2019/08/28
Papers	Characterization of NDM-5- and CTX-M-55-coproducing Escherichia coli GSH8M-2 isolated from the effluent of a wastewater treatment plant in Tokyo Bay Infect Drug Resist (Co-authored) 2019/08/16
Papers	The genome sequence of Streptomyces rochei 7434AN4, which carries a linear chromosome and three characteristic linear plasmids Sci Rep (Co-authored) 2019/07/31
Papers	Enterohaemorrhagic Escherichia coli O121:H19 acquired an extended-spectrum β-lactamase gene during the development of an outbreak in two nurseries Microb Genom (Co-authored) 2019/06/20
Papers	Salmonella Genomic Island 3 Is an Integrative and Conjugative Element and Contributes to Copper and Arsenic Tolerance of Salmonella enterica Antimicrob Agents Chemother (Co-authored) 2019/06/19
Papers	The R2TP complex regulates paramyxovirus RNA synthesis PLoS Pathog (Co-authored) 2019/05/24
Papers	A CRISPR Screen Using Subtilase Cytotoxin Identifies SLC39A9 as a Glycan-Regulating Factor iScience (Co-authored) 2019/05/21
Papers	Potential KPC-2 carbapenemase reservoir of environmental Aeromonas hydrophila and Aeromonas caviae isolates from the effluent of an urban wastewater treatment plant in Japan Environ Microbiol Rep (Co-authored) 2019/05/21
Papers	Overcoming the pitfalls of automatic interpretation of whole genome sequencing data by online tools for the prediction of pyrazinamide resistance in Mycobacterium tuberculosis PLoS One (Co-authored) 2019/03/01
Papers	A CRISPR Screen Identifies LAPTM4A and TM9SF Proteins as Glycolipid-Regulating Factors iScience (Co-authored) 2019/01/21
Papers	Molecular Evolutionary Analyses of the RNA-Dependent RNA Polymerase Region in Norovirus Genogroup II Front Microbiol (Co-authored) 2019/01/09
Papers	The plasmid-encoded transcription factor ArdK contributes to the repression of the IMP-6 metallo-β-lactamase gene blaIMP-6, leading to a carbapenem-susceptible phenotype in the blaIMP-6-positive Escherichia coli strain A56-1S PLoS One (Co-authored) 2018/12/12
Papers	Complete Genome Sequence of bla (IMP-6)-Positive Metakosakonia sp. MRY16-398 Isolate From the Ascites of a Diverticulitis Patient Front Microbiol (Co-authored) 2018/12/08
Papers	Complete Genome Sequence and Characterization of Linezolid-Resistant Enterococcus faecalis Clinical Isolate KUB3006 Carrying a cfr(B)-Transposon on Its Chromosome and optrA-Plasmid Front Microbiol (Co-authored) 2018/11/10
Papers	Genome-wide association study of cervical cancer suggests a role for ARRDC3 gene in human papillomavirus infection Hum Mol Genet (Co-authored) 2018/11/10
Papers	Study on the Outbreak of Human Rhinovirus Species C Infection in a Welfare Facility in Fukuoka Prefecture, Japan Jpn J Infect Dis (Co-authored) 2018/11/02
Papers	IncFII plasmid carrying antimicrobial resistance genes in Shigella flexneri: Vehicle for dissemination J Glob Antimicrob Resist (Co-authored) 2018/10/22
Papers	Emergence of an Escherichia coli strain co-harbouring mcr-1 and bla(NDM-9) from a urinary tract infection in Taiwan J Glob Antimicrob Resist (Co-authored) 2018/10/13
Papers	Insight into the draft whole-genome sequence of the dermatophyte Arthroderma vanbreuseghemii Sci Rep (Co-authored) 2018/10/13
Papers	Complete Genome Sequence of a bla(KPC-2)-Positive Klebsiella pneumoniae Strain Isolated from the Effluent of an Urban Sewage Treatment Plant in Japan mSphere (Co-authored) 2018/09/21
Papers	Conventional culture methods with commercially available media unveil the presence of novel culturable bacteria Gut Microbes (Co-authored) 2018/08/18
Papers	Next-generation DNA sequencing analysis of two Streptococcus suis ST28 isolates associated with human infective endocarditis and meningitis in Gunma, Japan: a case report Infect Dis (Lond) (Co-authored) 2018/08/17
Papers	FRI-4 carbapenemase-producing Enterobacter cloacae complex isolated in Tokyo, Japan J Antimicrob Chemother (Co-authored) 2018/07/31
Papers	Infection of Epstein⁻Barr Virus in Type III Latency Modulates Biogenesis of Exosomes and the Expression Profile of Exosomal miRNAs in the Burkitt Lymphoma Mutu Cell Lines Cancers (Basel) (Co-authored) 2018/07/22
Papers	Prevention of aerosol isolation of nontuberculous mycobacterium from the patient's bathroom ERJ Open Res (Co-authored) 2018/07/07
Papers	Erratum: AIG1 affects in vitro and in vivo virulence in clinical isolates of Entamoeba histolytica PLoS Pathog (Co-authored) 2018/06/01
Papers	Critical knowledge gaps and research needs related to the environmental dimensions of antibiotic resistance Environ Int (Co-authored) 2018/05/11
Papers	Decrease in the prevalence of extended-spectrum cephalosporin-resistant Salmonella following cessation of ceftiofur use by the Japanese poultry industry Int J Food Microbiol (Co-authored) 2018/04/08
Papers	AIG1 affects in vitro and in vivo virulence in clinical isolates of Entamoeba histolytica PLoS Pathog (Co-authored) 2018/03/20
Papers	Phylogenetic Characterization of Salmonella enterica Serovar Typhimurium and Its Monophasic Variant Isolated from Food Animals in Japan Revealed Replacement of Major Epidemic Clones in the Last 4 Decades J Clin Microbiol (Co-authored) 2018/03/02
Papers	Detailed genetic analyses of the HN gene in human respirovirus 3 detected in children with acute respiratory illness in the Iwate Prefecture, Japan Infect Genet Evol (Co-authored) 2018/02/07
Papers	Genetic Analysis of Human Norovirus Strains in Japan in 2016-2017 Front Microbiol (Co-authored) 2018/02/07
Papers	A summary of the imported cases of Chikungunya fever in Japan from 2006 to June 2016 J Travel Med (Co-authored) 2018/02/03
Papers	Novel endogenous simian retroviral integrations in Vero cells: implications for quality control of a human vaccine cell substrate Sci Rep (Co-authored) 2018/01/14
Papers	Isolation and Complete Genome Sequencing of Zika Virus Imported from the Dominican Republic to Japan Jpn J Infect Dis (Co-authored) 2017/12/28
Papers	Molecular Evolution of the VP1 Gene in Human Norovirus GII.4 Variants in 1974-2015 Front Microbiol (Co-authored) 2017/12/21
Papers	Phylogeny and Immunoreactivity of Norovirus GII.P16-GII.2, Japan, Winter 2016-17 Emerg Infect Dis (Co-authored) 2017/12/21
Papers	Streptococcal toxic shock syndrome caused by the dissemination of an invasive emm3/ST15 strain of Streptococcus pyogenes BMC Infect Dis (Co-authored) 2017/12/20
Papers	Characterization of Fusobacterium varium Fv113-g1 isolated from a patient with ulcerative colitis based on complete genome sequence and transcriptome analysis (Co-authored) 2017/12/08
Papers	Interleukin-6-dependent growth in a newly established plasmablastic lymphoma cell line and its therapeutic targets Sci Rep (Co-authored) 2017/09/02
Papers	Analysis of multidrug resistant group B streptococci with reduced penicillin susceptibility forming small, less hemolytic colonies PLoS One (Co-authored) 2017/08/18
Papers	Proviral Features of Human T Cell Leukemia Virus Type 1 in Carriers with Indeterminate Western Blot Analysis Results J Clin Microbiol (Co-authored) 2017/07/14
Papers	Complete Genome Sequences of the p1 Gene Type 2b and 2c Strains Mycoplasma pneumoniae KCH-402 and KCH-405 Genome Announc (Co-authored) 2017/06/17
Papers	A Geographically Widespread Outbreak Investigation and Development of a Rapid Screening Method Using Whole Genome Sequences of Enterohemorrhagic Escherichia coli O121 Front Microbiol (Co-authored) 2017/05/06
Papers	Comprehensive Diagnosis of Bacterial Infection Associated with Acute Cholecystitis Using Metagenomic Approach Front Microbiol (Co-authored) 2017/05/06
Papers	Effects of Flavonoids and Triterpene Analogues from Leaves of Eleutherococcus sieboldianus (Makino) Koidz. 'Himeukogi' in 3T3-L1 Preadipocytes Molecules (Co-authored) 2017/04/27
Papers	Elucidation of quantitative structural diversity of remarkable rearrangement regions, shufflons, in IncI2 plasmids Sci Rep (Co-authored) 2017/04/21
Papers	Molecular evolution of the fusion protein (F) gene in human respiratory syncytial virus subgroup B Infect Genet Evol (Co-authored) 2017/04/18
Papers	Comprehensive pathogen detection associated with four recurrent episodes of Kawasaki disease in a patient during a single year using next-generation sequencing JMM Case Rep (Co-authored) 2017/03/29
Papers	Genetic analyses of the fusion protein genes in human parainfluenza virus types 1 and 3 among patients with acute respiratory infections in Eastern Japan from 2011 to 2015 J Med Microbiol (Co-authored) 2017/03/08
Papers	Comparative genome analysis of VSP-II and SNPs reveals heterogenic variation in contemporary strains of Vibrio cholerae O1 isolated from cholera patients in Kolkata, India PLoS Negl Trop Dis (Co-authored) 2017/02/14
Papers	Next-generation sequencing of miRNAs in clinical samples of Epstein-Barr virus-associated B-cell lymphomas Cancer Med (Co-authored) 2017/02/10
Papers	Utilizing the Carba NP test as an indicator of expression level of carbapenemase genes in Enterobacteriaceae (Co-authored) 2016/12/24
Papers	Characterization of the Pathogenicity of Streptococcus intermedius TYG1620 Isolated from a Human Brain Abscess Based on the Complete Genome Sequence with Transcriptome Analysis and Transposon Mutagenesis in a Murine Subcutaneous Abscess Model Infect Immun (Co-authored) 2016/11/30
Papers	Prevalence of Colistin Resistance Gene mcr-1 and Absence of mcr-2 in Escherichia coli Isolated from Healthy Food-Producing Animals in Japan Antimicrob Agents Chemother (Co-authored) 2016/11/18
Papers	Deep-Sequence Identification and Role in Virus Replication of a JC Virus Quasispecies in Patients with Progressive Multifocal Leukoencephalopathy J Virol (Co-authored) 2016/11/01
Papers	Profile of Exosomal and Intracellular microRNA in Gamma-Herpesvirus-Infected Lymphoma Cell Lines PLoS One (Co-authored) 2016/09/10
Papers	Establishing and characterizing a new primary effusion lymphoma cell line harboring Kaposi's sarcoma-associated herpesvirus Infect Agent Cancer (Co-authored) 2016/08/19
Papers	Correction for Rimbara et al., Draft Genome Sequence of Helicobacter fennelliae Strain MRY12-0050, Isolated from a Bacteremia Patient Genome Announc (Co-authored) 2016/07/23
Papers	Pathogen profiles and molecular epidemiology of respiratory viruses in Japanese inpatients with community-acquired pneumonia Respir Investig (Co-authored) 2016/07/19
Papers	Molecular evolution of the capsid gene in human norovirus genogroup II Sci Rep (Co-authored) 2016/07/08
Papers	DGV: Dengue Genographic Viewer Front Microbiol (Co-authored) 2016/07/05
Papers	Repeated fecal microbiota transplantation in a child with ulcerative colitis Pediatr Int (Co-authored) 2016/06/22
Papers	Molecular evolution of the fusion protein gene in human respiratory syncytial virus subgroup A Infect Genet Evol (Co-authored) 2016/06/14
Papers	Two different dengue virus strains in the Japanese epidemics of 2014 Virus Genes (Co-authored) 2016/05/28
Papers	Possible Case of Novel Spotted Fever Group Rickettsiosis in Traveler Returning to Japan from India Emerg Infect Dis (Co-authored) 2016/05/19
Papers	Evaluation of Vero-cell-derived simian endogenous retrovirus infection in humans by detection of viral genome in clinicopathological samples and commercialized vaccines and by serology of Japanese general population Vaccine (Co-authored) 2016/04/27
Papers	tRNA-Dependent Aminoacylation of an Amino Sugar Intermediate in the Biosynthesis of a Streptothricin-Related Antibiotic Appl Environ Microbiol (Co-authored) 2016/04/17
Papers	Acute encephalopathy in an immunocompromised boy with astrovirus-MLB1 infection detected by next generation sequencing J Clin Virol (Co-authored) 2016/03/19
Papers	Distribution and Relationships of Antimicrobial Resistance Determinants among Extended-Spectrum-Cephalosporin-Resistant or Carbapenem-Resistant Escherichia coli Isolates from Rivers and Sewage Treatment Plants in India Antimicrob Agents Chemother (Co-authored) 2016/03/09
Papers	VirusTAP: Viral Genome-Targeted Assembly Pipeline Front Microbiol (Co-authored) 2016/02/13
Papers	Investigation of a plasmid genome database for colistin-resistance gene mcr-1 Lancet Infect Dis (Co-authored) 2016/01/18
Papers	TGS-TB: Total Genotyping Solution for Mycobacterium tuberculosis Using Short-Read Whole-Genome Sequencing PLoS One (Co-authored) 2015/11/14
Papers	Molecular evolution of the hypervariable region of the attachment glycoprotein gene in human respiratory syncytial virus subgroup B genotypes BA9 and BA10 Infect Genet Evol (Co-authored) 2015/09/27
Papers	Molecular Evolution of the Capsid Gene in Norovirus Genogroup I Sci Rep (Co-authored) 2015/09/05
Papers	Characterization of the gut microbiota of Kawasaki disease patients by metagenomic analysis Front Microbiol (Co-authored) 2015/09/01
Papers	Capsule Switching and Antimicrobial Resistance Acquired during Repeated Streptococcus pneumoniae Pneumonia Episodes J Clin Microbiol (Co-authored) 2015/08/14
Papers	Identification of ribonucleotide reductase mutation causing temperature-sensitivity of herpes simplex virus isolates from whitlow by deep sequencing Clin Case Rep (Co-authored) 2015/07/18
Papers	The Mitochondrial Genomes of a Myxozoan Genus Kudoa Are Extremely Divergent in Metazoa PLoS One (Co-authored) 2015/07/07
Papers	Molecular evolution of haemagglutinin (H) gene in measles virus Sci Rep (Co-authored) 2015/07/02
Papers	GcoGSA-BA: a global core genome SNP analysis for Bacillus anthracis Health Secur (Co-authored) 2015/03/28
Papers	Extensive amplification of GI-VII-6, a multidrug resistance genomic island of Salmonella enterica serovar Typhimurium, increases resistance to extended-spectrum cephalosporins Front Microbiol (Co-authored) 2015/02/26
Papers	Complete Genome Sequence of a Novel GV.2 Sapovirus Strain, NGY-1, Detected from a Suspected Foodborne Gastroenteritis Outbreak Genome Announc (Co-authored) 2015/02/14
Papers	A mutant H3N2 influenza virus uses an alternative activation mechanism in TMPRSS2 knockout mice by loss of an oligosaccharide in the hemagglutinin stalk region J Virol (Co-authored) 2015/02/13
Papers	New validated rapid screening methods for identifying Kudoa septempunctata in olive flounder (Paralichthys olivaceus) Jpn J Infect Dis (Co-authored) 2015/02/13
Papers	Molecular evolution of the VP1, VP2, and VP3 genes in human rhinovirus species C Sci Rep (Co-authored) 2015/02/03
Papers	Outbreak of henipavirus infection, Philippines, 2014 Emerg Infect Dis (Co-authored) 2015/01/28
Papers	Complete genome sequence and comparative genomic analysis of Mycobacterium massiliense JCM 15300 in the Mycobacterium abscessus group reveal a conserved genomic island MmGI-1 related to putative lipid metabolism PLoS One (Co-authored) 2014/12/16
Papers	Characterization of Antimicrobial Resistance Dissemination across Plasmid Communities Classified by Network Analysis Pathogens (Co-authored) 2014/12/02
Papers	Isolation and characterization of an Huh.7.5.1-derived cell clone highly permissive to hepatitis C virus Jpn J Infect Dis (Co-authored) 2014/11/26
Papers	Draft Genome Sequence of Rhodococcus erythropolis JCM 6824, an Aurachin RE Antibiotic Producer Genome Announc (Co-authored) 2014/10/11
Papers	Molecular evolution of human respiratory syncytial virus attachment glycoprotein (G) gene of new genotype ON1 and ancestor NA1 Infect Genet Evol (Co-authored) 2014/10/07
Papers	The genome landscape of the african green monkey kidney-derived vero cell line DNA Res (Co-authored) 2014/10/01
Papers	Characterization of blaTEM-52-carrying plasmids of extended-spectrum-β-lactamase-producing Salmonella enterica isolates from chicken meat with a common supplier in Japan Antimicrob Agents Chemother (Co-authored) 2014/09/24
Papers	Detection of trichodysplasia spinulosa-associated polyomavirus in a fatal case of myocarditis in a seven-month-old girl Int J Clin Exp Pathol (Co-authored) 2014/09/09
Papers	Genetic characterization and comparison of Clostridium botulinum isolates from botulism cases in Japan between 2006 and 2011 Appl Environ Microbiol (Co-authored) 2014/09/07
Papers	Whole-Genome Sequence of CMY-2 β-Lactamase-Producing Salmonella enterica Serovar Typhimurium Strain L-3553 Genome Announc (Co-authored) 2014/07/26
Papers	An outbreak of acute respiratory infections due to human respiratory syncytial virus in a nursing home for the elderly in Ibaraki, Japan, 2014 Jpn J Infect Dis (Co-authored) 2014/07/25
Papers	A food-borne outbreak of gastroenteritis due to genotype G1P[8] rotavirus among adolescents in Japan Microbiol Immunol (Co-authored) 2014/07/22
Papers	Amoebal endosymbiont Neochlamydia genome sequence illuminates the bacterial role in the defense of the host amoebae against Legionella pneumophila PLoS One (Co-authored) 2014/04/22
Papers	Role of pathogenicity determinant protein C (PdpC) in determining the virulence of the Francisella tularensis subspecies tularensis SCHU PLoS One (Co-authored) 2014/02/22
Papers	MePIC, metagenomic pathogen identification for clinical specimens Jpn J Infect Dis (Co-authored) 2014/01/24
Papers	The V protein of canine distemper virus is required for virus replication in human epithelial cells PLoS One (Co-authored) 2013/12/21
Papers	Genetic variation of human papillomavirus type 16 in individual clinical specimens revealed by deep sequencing PLoS One (Co-authored) 2013/11/16
Papers	Discrimination of Mycobacterium abscessus subsp. massiliense from Mycobacterium abscessus subsp. abscessus in clinical isolates by multiplex PCR J Clin Microbiol (Co-authored) 2013/11/08
Papers	Draft Genome Sequence of Helicobacter fennelliae Strain MRY12-0050, Isolated from a Bacteremia Patient Genome Announc (Co-authored) 2013/08/10
Papers	Epidemic myalgia associated with human parechovirus type 3 infection among adults occurs during an outbreak among children: findings from Yamagata, Japan, in 2011 J Clin Virol (Co-authored) 2013/06/25
Papers	Genetic analysis of attachment glycoprotein (G) gene in new genotype ON1 of human respiratory syncytial virus detected in Japan Microbiol Immunol (Co-authored) 2013/06/12
Papers	Molecular evolution of attachment glycoprotein (G) gene in human respiratory syncytial virus detected in Japan 2008-2011 Infect Genet Evol (Co-authored) 2013/05/28
Papers	Protochlamydia induces apoptosis of human HEp-2 cells through mitochondrial dysfunction mediated by chlamydial protease-like activity factor PLoS One (Co-authored) 2013/02/15
Papers	Molecular evolution of hemagglutinin (H) gene in measles virus genotypes D3, D5, D9, and H1 PLoS One (Co-authored) 2012/12/05
Papers	Canine distemper virus with the intact C protein has the potential to replicate in human epithelial cells by using human nectin4 as a receptor Virology (Co-authored) 2012/11/24
Papers	Genetic analysis of non-hydrogen sulfide-producing Salmonella enterica serovar typhimurium and S. enterica serovar infantis isolates in Japan J Clin Microbiol (Co-authored) 2012/11/09
Papers	Epidemic myalgia in adults associated with human parechovirus type 3 infection, Yamagata, Japan, 2008 Emerg Infect Dis (Co-authored) 2012/10/26
Papers	Pathogenic characterization of a cervical lymph node derived from a patient with Kawasaki disease Int J Clin Exp Pathol (Co-authored) 2012/10/17
Papers	Corynebacterium ulcerans 0102 carries the gene encoding diphtheria toxin on a prophage different from the C. diphtheriae NCTC 13129 prophage BMC Microbiol (Co-authored) 2012/05/16
Papers	Detection of a possible bioterrorism agent, Francisella sp., in a clinical specimen by use of next-generation direct DNA sequencing J Clin Microbiol (Co-authored) 2012/02/17
Papers	Identification of Kudoa septempunctata as the causative agent of novel food poisoning outbreaks in Japan by consumption of Paralichthys olivaceus in raw fish Clin Infect Dis (Co-authored) 2012/01/28
Papers	Complete sequencing of the bla(NDM-1)-positive IncA/C plasmid from Escherichia coli ST38 isolate suggests a possible origin from plant pathogens PLoS One (Co-authored) 2011/10/04
Papers	Characterization of Salmonella enterica serovar Typhimurium isolates harboring a chromosomally encoded CMY-2 beta-lactamase gene located on a multidrug resistance genomic island Antimicrob Agents Chemother (Co-authored) 2011/06/29
Papers	The impact of Saffold cardiovirus in patients with acute respiratory infections in Yamagata, Japan Scand J Infect Dis (Co-authored) 2011/03/25
Papers	Crystal structure of the functional region of Uro-adherence factor A from Staphylococcus saprophyticus reveals participation of the B domain in ligand binding Protein Sci (Co-authored) 2011/02/01
Papers	Inhibition of Streptococcus mutans biofilm formation by Streptococcus salivarius FruA Appl Environ Microbiol (Co-authored) 2011/01/18
Papers	Whole-genome analysis of Salmonella enterica serovar Typhimurium T000240 reveals the acquisition of a genomic island involved in multidrug resistance via IS1 derivatives on the chromosome Antimicrob Agents Chemother (Co-authored) 2010/11/25
Papers	Genome-wide single nucleotide polymorphism typing method for identification of Bacillus anthracis species and strains among B. cereus group species J Clin Microbiol (Co-authored) 2010/06/18
Papers	Characterization of quasispecies of pandemic 2009 influenza A virus (A/H1N1/2009) by de novo sequencing using a next-generation DNA sequencer PLoS One (Co-authored) 2010/04/30
Papers	Genomewide screening for novel genetic variations associated with ciprofloxacin resistance in Bacillus anthracis Antimicrob Agents Chemother (Co-authored) 2010/04/14
Papers	The first autopsy case of pandemic influenza (A/H1N1pdm) virus infection in Japan: detection of a high copy number of the virus in type II alveolar epithelial cells by pathological and virological examination Jpn J Infect Dis (Co-authored) 2010/01/23
Papers	Phylogenetic typing of Bacillus anthracis isolated in Japan by multiple locus variable-number tandem repeats and the comprehensive single nucleotide polymorphism J Vet Med Sci (Co-authored) 2009/11/17
Papers	Novel virus discovery in field-collected mosquito larvae using an improved system for rapid determination of viral RNA sequences (RDV ver4.0) Arch Virol (Co-authored) 2008/12/18
Papers	Staphylococcus aureus surface protein SasG contributes to intercellular autoaggregation of Staphylococcus aureus Biochem Biophys Res Commun (Co-authored) 2008/11/06
Papers	Electron microscopy and computational studies of Ebh, a giant cell-wall-associated protein from Staphylococcus aureus Biochem Biophys Res Commun (Co-authored) 2008/09/06
Papers	Structural basis for multimeric heme complexation through a specific protein-heme interaction: the case of the third neat domain of IsdH from Staphylococcus aureus J Biol Chem (Co-authored) 2008/08/01
Papers	Staphylococcus aureus giant protein Ebh is involved in tolerance to transient hyperosmotic pressure Biochem Biophys Res Commun (Co-authored) 2008/07/22
Papers	Expression, purification, crystallization and preliminary diffraction analysis of CapF, a capsular polysaccharide-synthesis enzyme from Staphylococcus aureus Acta Crystallogr Sect F Struct Biol Cryst Commun (Co-authored) 2008/06/10
Papers	Methicillin-resistant Staphylococcus saprophyticus isolates carrying staphylococcal cassette chromosome mec have emerged in urogenital tract infections Antimicrob Agents Chemother (Co-authored) 2008/03/26
Papers	A helical string of alternately connected three-helix bundles for the cell wall-associated adhesion protein Ebh from Staphylococcus aureus Structure (Co-authored) 2008/03/13
Papers	Crystal structure analysis reveals a novel forkhead-associated domain of ESAT-6 secretion system C protein in Staphylococcus aureus Proteins (Co-authored) 2007/08/08
Papers	Sesquiterpene farnesol as a competitive inhibitor of lipase activity of Staphylococcus aureus FEMS Microbiol Lett (Co-authored) 2007/06/15
Papers	[Looking back one year after the start of "the model project on potentially therapeutic death" situation as a pathologist and organizer of Aichi area] Nihon Geka Gakkai Zasshi (Sole-authored) 2007/02/20
Papers	Subinhibitory concentrations of beta-lactam induce haemolytic activity in Staphylococcus aureus through the SaeRS two-component system FEMS Microbiol Lett (Co-authored) 2007/02/01
Papers	Sesquiterpene farnesol inhibits recycling of the C55 lipid carrier of the murein monomer precursor contributing to increased susceptibility to beta-lactams in methicillin-resistant Staphylococcus aureus J Antimicrob Chemother (Co-authored) 2007/01/24
Papers	[Whole genome sequence analysis reveals staphylococcal pathogenesis and antimicrobial resistance] Nihon Saikingaku Zasshi (Sole-authored) 2006/06/20
Papers	Evaluation of a cefoxitin disk diffusion test for the detection of mecA-positive methicillin-resistant Staphylococcus saprophyticus Int J Antimicrob Agents (Co-authored) 2006/05/16
Papers	Whole-genome sequencing of staphylococcus haemolyticus uncovers the extreme plasticity of its genome and the evolution of human-colonizing staphylococcal species J Bacteriol (Co-authored) 2005/10/21
Papers	Whole genome sequence of Staphylococcus saprophyticus reveals the pathogenesis of uncomplicated urinary tract infection Proc Natl Acad Sci U S A (Co-authored) 2005/09/02
Papers	Genome sequencing and annotation: an overview Methods Mol Biol (Co-authored) 2004/05/19
Papers	Nucleotide substitutions in Staphylococcus aureus strains, Mu50, Mu3, and N315 DNA Res (Co-authored) 2004/05/15
Papers	Two-component system VraSR positively modulates the regulation of cell-wall biosynthesis pathway in Staphylococcus aureus Mol Microbiol (Co-authored) 2003/07/17
Papers	Genome and virulence determinants of high virulence community-acquired MRSA Lancet (Co-authored) 2002/06/05
Papers	Whole genome sequencing of meticillin-resistant Staphylococcus aureus Lancet (Co-authored) 2001/06/22
Papers	Chromosome-determined zinc-responsible operon czr in Staphylococcus aureus strain 912 Microbiol Immunol (Co-authored) 1999/05/06
Papers	The hsp operons are repressed by the hrc37 of the hsp70 operon in Staphylococcus aureus Microbiol Immunol (Co-authored) 1999/04/01
Papers	Atomic force microscopy proposes a novel model for stem-loop structure that binds a heat shock protein in the Staphylococcus aureus HSP70 operon Biochem Biophys Res Commun (Co-authored) 1996/09/24
Papers	Isolation and the gene cloning of an alkaline shock protein in methicillin resistant Staphylococcus aureus Biochem Biophys Res Commun (Co-authored) 1995/02/27
Papers	Molecular cloning of two new heat shock genes related to the hsp70 genes in Staphylococcus aureus J Bacteriol (Co-authored) 1994/08/01
Papers	Molecular characterization of the gene operon of heat shock proteins HSP60 and HSP10 in methicillin-resistant Staphylococcus aureus Biochem Biophys Res Commun (Co-authored) 1993/06/15