Laboratories

Molecular Bacteriology

HEAD

SHIBAYAMA Keigo

Professor

Researchers

LAB MEMBER

Faculty Position Researchers
KIMURA Kouji Associate Professor Researchers
KINOSHITA-DAITOKU Ryo Assistant Professor Researchers
KURODA Eisuke Assistant Professor Researchers

OUTLINE

We study on virulence factors and drag-resistance mechanisms of pathogenic bacteria, which cause healthcare-associated and community-acquired infections, such as Staphylococcus sp. including MRSA, Streptococcus sp., Bacillus sp., Enterococcus sp., Enterobacteriaceae sp. (Escherichia, Klebsiella etc.), Glucose non-fermenting sp. (Pseudomonas, Acinetobacter etc.), Haemophilus sp. and so on. We research to improve in diagnosis／prevention／treatment of bacterial infections through our analysis techniques for genome and proteome (LC-MS/MS etc.) besides basic bacteriological methods.

RESEARCH PROJECTS

  1. Mechanisms of drag-resistance and molecular epidemiology in pathogenic bacteria
  2. Virulence factors and their expressions/regulations
  3. Analyses of genome, proteome, and metabolome for regulation of bacterial infections.

BIBLIOGRAPHY

2025
  1. Emiko Rimbara , Sae Aoki , Masato Suzuki , Hirotaka Kobayashi , Taisuke Nakagawa , Yuko Goto-Koshino , Sachiyo Nomura , Wan-Ying Du , Hidenori Matsui , Shigetarou Mori , Keigo Shibayama , Tsuyoshi Kenri , Koichi Ohno Characterization of three novel Helicobacter species infecting stomachs of dogs and cats: Helicobacter gastrocanis sp. nov., Helicobacter gastrofelis sp. nov., and Helicobacter felistomachi sp. Nov. Frontiers in Microbiology 15 2025.1.17.
2024
  1. Tadayoshi Okimoto , Takashi Ando , Makoto Sasaki , Shoko Ono , Intetsu Kobayashi , Keigo Shibayama , Daisuke Chinda , Kengo Tokunaga , Shigemi Nakajima , Takako Osaki , Toshiro Sugiyama , Mototsugu Kato , Kazunari Murakami Antimicrobial-resistant Helicobacter pylori in Japan: Report of nationwide surveillance for 2018-2020. Helicobacter 29(1) e13028 2024
  2. Aki Hirabayashi, Koji Yahara, Keisuke Oka, Toshiki Kajihara, Teruko Ohkura, Yumiko Hosaka, Keigo Shibayama, Motoyuki Sugai, Tetsuya Yagi Comparison of disease and economic burden between MRSA infection and MRSA colonization in a university hospital: a retrospective data integration study. Antimicrobial resistance and infection control 13(1) 27-27 2024.2.29.
  3. Toshiki Kajihara, Koji Yahara, Taro Kamigaki, Aki Hirabayashi, Yumiko Hosaka, Norikazu Kitamura, Reiko Shimbashi, Motoi Suzuki, Motoyuki Sugai, Keigo Shibayama Effects of coronavirus disease 2019 on the spread of respiratory-transmitted human-to-human bacteria. The Journal of infection 89(2) 106201-106201 2024.8.
  4. Pilirani Chisembe, Masato Suzuki, Duc Trung Dao, Gilson Njunga, Joseph Nkhoma, Lecollins Mthilakuwili, Ryo Kinoshita-Daitoku, Eisuke Kuroda, Kouji Kimura, Keigo Shibayama A nationwide survey of antimicrobial resistance of Escherichia coli isolated from broiler chickens in Malawi. JAC-antimicrobial resistance 6(6) dlae200 2024.12.
2023
  1. Masato Suzuki, Yusuke Hashimoto, Aki Hirabayashi, Koji Yahara, Mitsunori Yoshida, Hanako Fukano, Yoshihiko Hoshino, Keigo Shibayama, Haruyoshi Tomita. Genomic Epidemiological Analysis of Antimicrobial-Resistant Bacteria with Nanopore Sequencing. Methods in molecular biology (Clifton, N.J.), 2023 ; 2632 : 227-246 .
  2. Tsuyoshi Kenri , Tsutomu Yamazaki , Hitomi Ohya , Michio Jinnai , Yoichiro Oda , Sadasaburo Asai , Rikako Sato , Nobuhisa Ishiguro , Tomohiro Oishi , Atsuko Horino , Hiroyuki Fujii , Toru Hashimoto , Hiroshi Nakajima , Keigo Shibayama. Genotyping of Mycoplasma pneumoniae strains isolated in Japan during 2019 and 2020: spread of p1 gene type 2c and 2j variant strains. Frontiers in microbiology, 14 1202357-1202357 2023
  3. Toshiki Kajihara, Koji Yahara, Aki Hirabayashi, Yumiko Hosaka, Norikazu Kitamura, Motoyuki Sugai, Keigo Shibayama. Association between the proportion of laparoscopic approaches for digestive surgeries and the incidence of consequent surgical site infections, 2009–2019: A retrospective observational study based on national surveillance data in Japan . PLOS ONE, 2023.2.17; 18(2) : e0281838-e0281838.
  4. Toshinori Sasaki, Mayumi Matsuoka, Kyoko Sawabe, Haruhiko Isawa, Keigo Shibayama, Mutsuo Kobayashi. Detection of Bartonella quintana (Hyphomicrobiales: Bartonellaceae) Among Day Laborers in Osaka, Japan, 2009-2010. Journal of medical entomology, 2023.3.6 ; 60(2) : 408-411.
  5. Masaya Sano, Emiko Rimbara, Masato Suzuki, Hidenori Matsui, Miwa Hirai, Sae Aoki, Tsuyoshi Kenri, Keigo Shibayama, Hidekazu Suzuki. Helicobacter ailurogastricus in Patient with Multiple Refractory Gastric Ulcers, Japan . Emerging Infectious Diseases, 2023.4 ; 29(4) : 833-835.
  6. Noriko Sakamoto , Warawut Laolerd , Yukihiro Akeda , Yo Sugawara , Daisuke Motooka , Norihisa Yamamoto , Dan Takeuchi , Rathina Kumar Shanmugakani , Isao Nishi , Masato Suzuki , Keigo Shibayama , Tetsuya Iida , Pitak Santanirand , Kazunori Tomono , Shigeyuki Hamada Temporal shifts in the predominant carbapenemase gene types among carbapenemase-producing Klebsiella pneumoniae isolated in Bangkok, Thailand, during 2013-2016
  7. Journal of Medical Microbiology 2023 Jun;72(6). 2023.6.9
  8. Ryo Fukaura, Chiaki Terashima-Murase, Mai Ota, Haruka Noda, Keisuke Oka, Yuka Ishihara, Keigo Shibayama, Masashi Akiyama Methicillin-resistant Staphylococcus aureus-induced staphylococcal scalded skin syndrome in a preterm infant, and subsequent toxigenic analysis. The Journal of dermatology 50(12) e422-e423 2023.8.22
  9. Hidenori Matsui, Masato Suzuki, Sae Aoki, Keigo Shibayama, Kengo Tokunaga, Hidekazu Suzuki, Katsuhiro Mabe, Tsuyoshi Kenri, Emiko Rimbara Protocol for detecting Helicobacter suis infection in gastric biopsies and serum by PCR and ELISA. STAR Protocols 4(4) 102556-102556 2023.12.
2022
  1. Trung Duc Dao, Ikuro Kasuga, Aki Hirabayashi, Dong Tu Nguyen, Hien Thi Tran, Hieu Vu, Linh Tuyet Ngoc Pham, Thi My Hanh Vu, Futoshi Hasebe, Ha Thanh Nguyen, Trang Le Thi, Hoang Huy Tran, Keigo Shibayama, Taichiro Takemura, Masato Suzuki.Emergence of mobile tigecycline resistance gene tet(X4)–harboring Shewanella xiamenensis in a water environment .Journal of Global Antimicrobial Resistance,2023.3;28:140-142.
  2. Yuji Wakimoto, Nao Otsuka, Yasuaki Yanagawa, Kentaro Koide, Kazunari Kamachi, Keigo Shibayama, Katsuji Teruya, Yoshimi Kikuchi, Shinichi Oka. The First Reported Case of Bordetella pertussis Bacteremia in a Patient With Human Immunodeficiency Virus Infection. Open forum infectious diseases,2022 Feb 7;9(3):ofac020.
  3. Kenji Yokota, Takako Osaki, Shunji Hayashi, Shin-Ichi Yokota, Hiroaki Takeuchi, Emiko Rimbara, Hinako Ojima, Toyotaka Sato, Hideo Yonezawa, Keigo Shibayama, Kengo Tokunaga, Shigeru Kamiya, Kazunari Murakami, Mototsugu Kato, Toshiro Sugiyama. Establishment of a reference panel of Helicobacter pylori strains for antimicrobial susceptibility testing. Helicobacter 2022.3.7;27(3) e12874
  4. Ryuichiro Abe, Yukihiro Akeda, Dan Takeuchi, Noriko Sakamoto, Yo Sugawara, Norihisa Yamamoto, Anusak Kerdsin, Yuki Matsumoto, Daisuke Motooka, Warawut Leolerd, Pitak Santanirand, Masato Suzuki, Keigo Shibayama, Kazunori Tomono, Tetsuya Iida, Shigeyuki Hamada. Clonal dissemination of carbapenem-resistant Klebsiella pneumoniae ST16 co-producing NDM-1 and OXA-232 in Thailand. JAC-Antimicrobial Resistance, 2022.8.16;4(4) dlac084
  5. Trung Duc Dao, Taichiro Takemura, Ikuro Kasuga, Aki Hirabayashi, Nguyen Thi Nga, Pham Hong Quynh Anh, Nguyen Dong Tu, Le Thi Trang, Hoang Huy Tran, Keigo Shibayama, Futoshi Hasebe, Masato Suzuki. Emergence of plasmid-mediated RND-type efflux pump gene cluster tmexCD-toprJ in Shewanella xiamenensis in a water environment . bioRxiv 2022.9.15;DOI : 10.1101/2022.09.15.508154.
  6. Trung Duc Dao, Hirokazu Yano, Taichiro Takemura, Aki Hirabayashi, Le Thi Trang, Hoang Huy Tran, Keigo Shibayama, Futoshi Hasebe, Ikuro Kasuga, Masato Suzuki. Strand-biased circularizing integrative elements spread tmexCD-toprJ gene clusters encoding RND-type multidrug efflux pumps by repeated transpositions bioRxiv2022.9.22;DOI : 10.1101/2022.09.22.508988.
  7. Hidenori Matsui, Emiko Rimbara, Masato Suzuki, Kengo Tokunaga, Hidekazu Suzuki, Masaya Sano, Takashi Ueda, Hitoshi Tsugawa, Sohachi Nanjo, Akira Takeda, Makoto Sasaki, Shuichi Terao, Tsuyoshi Suda, Sae Aoki, Keigo Shibayama, Hiroyoshi Ota, Katsuhiro Mabe. Development of a serological assay to simultaneously identify Helicobacter suis and Helicobacter pylori infection. iScience,2022.10.11;26(4) 106522-106522.
  8. Sae Aoki, Shigetarou Mori, Hidenori Matsui, Keigo Shibayama, Tsuyoshi Kenri, Emiko Rimbara. Characterization of HcaA, a novel autotransporter protein in Helicobacter cinaedi, and its role in host cell adhesion . bioRxiv, 2022;DOI : 10.1101/2022.11.18.517170.
  9. Ryuichiro Abe, Yukihiro Akeda, Noriko Sakamoto, Dan Takeuchi, Yo Sugawara, Norihisa Yamamoto, Anusak Kerdsin, Yuki Matsumoto, Daisuke Motooka, Warawut Laolerd, Pitak Santanirand, Masato Suzuki, Keigo Shibayama, Kazunori Tomono, Tetsuya Iida, Shigeyuki Hamada. A Nationwide Plasmidome Surveillance in Thailand Reveals a Limited Variety of New Delhi Metallo-β-Lactamase-Producing Carbapenem-Resistant Enterobacteriaceae Clones and Spreading Plasmids. Journal of Clinical Microbiology, 2022.11.29;60(12) e0108022.
2021
  1. Toshiki Kajihara, Koji Yahara, Aki Hirabayashi, Hitomi Kurosu, Motoyuki Sugai, Keigo Shibayama. Association between the frequency of surgeries for video-assisted thoracic surgery and the incidence of consequent surgical site infections: a retrospective observational study based on national surveillance data. BMC infectious diseases, 2021;21(1): 363-363.
  2. Takashi Hamabata, Mitsutoshi Senoh, Masaaki Iwaki, Ayae Nishiyama, Akihiko Yamamoto, Keigo Shibayama. Induction and Resuscitation of Viable but Nonculturable Corynebacterium diphtheriae. Microorganisms,2021.4.26; 9(5) .
  3. Daisuke Nakane, Kohki Murata, Tsuyoshi Kenri, Keigo Shibayama, Takayuki Nishizaka. Molecular ruler of the attachment organelle in Mycoplasma pneumoniae. PLoS pathogens, 2021.6;17(6): e1009621.
  4. Shinya Tsuzuki, Nobuaki Matsunaga, Koji Yahara, Keigo Shibayama, Motoyuki Sugai, Norio Ohmagari. Disease burden of bloodstream infections caused by antimicrobial-resistant bacteria: A population-level study, Japan, 2015-2018. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases, 2021.7;108 119-124.
  5. Aki Hirabayashi, Trung Duc Dao, Taichiro Takemura, Futoshi Hasebe, Le Thi Trang, Nguyen Ha Thanh, Hoang Huy Tran, Keigo Shibayama, Ikuro Kasuga, Masato Suzuki. A Transferable IncC-IncX3 Hybrid Plasmid Cocarrying blaNDM-4, tet(X), and tmexCD3-toprJ3 Confers Resistance to Carbapenem and Tigecycline. mSphere 2021,8.25;6(4): e0059221.
  6. Hai Anh Tran, Thi Ngoc Bich Vu, Son Tung Trinh, Dieu Linh Tran, Ha My Pham, Thi Hong Hanh Ngo, Minh Thao Nguyen, Nhu Duong Tran, Duy Thai Pham, Duc Anh Dang, Keigo Shibayama, Masato Suzuki, Lay-Myint Yoshida, Hong Son Trinh, Viet Thanh Le, Phuong Thom Vu, Thi Vu Nga Luu, Anne-Laure Bañuls, Khanh Linh Trinh, Van Anh Tran, Huy Hoang Tran, H Rogier van Doorn.Resistance mechanisms and genetic relatedness among carbapenem-resistant Pseudomonas aeruginosa isolates from three major hospitals in Hanoi, Vietnam (2011-15). JAC-antimicrobial resistance, 2021.9;3(3) dlab103.
  7. Aki Hirabayashi, Toshiki Kajihara, Koji Yahara, Keigo Shibayama, Motoyuki Sugai. Impact of the COVID-19 pandemic on the surveillance of antimicrobial resistance. The Journal of hospital infection, 2021.9.22.v117;147-156.
  8. Tran Dieu Linh, Nguyen Hoai Thu, Keigo Shibayama, Masato Suzuki, LayMint Yoshida, Pham Duy Thai, Dang Duc Anh, Tran Nhu Duong, Hong Son Trinh, Vu Phuong Thom, Luu Thi Vu Nga, Nguyen Thi Kim Phuong, Bui Thanh Thuyet, Timothy R Walsh, Le Viet Thanh, Anne-Laure Bañuls, H Rogier van Doorn, Tran Van Anh, Tran Huy Hoang. Expansion of KPC–producing Enterobacterales in four large hospitals in Hanoi, Vietnam . Journal of Global Antimicrobial Resistance, 2021.10;27:200-211.
  9. Van Thi Thu Ha, Linh Dieu Tran, Nguyen Thi Tuyet Mai, Aki Hirabayashi, Son Thai Nguyen, Hoang Huy Tran, Keigo Shibayama, Masato Suzuki. Potential spread of mcr-9-carrying IncHI2 plasmids in Enterobacter hormaechei in Vietnam. Journal of global antimicrobial resistance, 2021.11.18. 27;332-334.
  10. Ken-Ichi Oinuma, Masato Suzuki, Arata Sakiyama, Taishi Tsubouchi, Kozo Saeki, Kanako Sato, Mamiko Niki, Koichi Yamada, Keigo Shibayama, Hiroshi Kakeya, Yukihiro Kaneko. Genomic characterization of triple-carbapenemase-producing Acinetobacter baumannii . JAC-Antimicrobial Resistance, 2021.12.18;3(4):dlab191
2019
  1. Moroi H, Kimura K, Kotani T, Tsuda H, Banno H, Jin W, Wachino J, Yamada K,Mitsui T, Yamashita M,Kikkawa F,Arakawa Y.Isolation of group B Streptococcus with reduced beta-lactam susceptibility from pregnant women.EMERGING MICROBES&INFECTIONS,2019;8(1):2-7.
  2. Yi A, Kim C-K, Kimura K, Arakawa Y, Hur M, Yun YM, Moon HW. First Case in Korea of Group B Streptococcus With Reduced Penicillin Susceptibility Harboring Amino Acid Substitutions in Penicillin-Binding Protein 2X.ANNALS OF LABORATORY MEDICINE,2019;39(4):414-416.
  3. Koide S, Hayashi W, Taniguchi Y, Tanaka H, Kimura K, Nagano Y, Arakawa Y, Nagano N. Potential effect of selective pressure with different beta-lactam molecules on the emergence of reduced susceptibility to beta-lactams in group B Streptococci.MICROBIOLOGY AND IMMUNOLOGY,2019;63(2):65-76
  4. Kawamura K,Kitaoka K, Kimura K,Wachino J,Kondo T,Iinuma Y,Murakami N,Fujimoto S,Arakawa Y. Spread of seb-Positive Methicillin-Resistant Staphylococcus aureus SCCmec Type II-ST764 Among Elderly Japanese in Nonacute Care Settings.MICROBIAL DRUG RESISTANCE,2019;25(6):915-924
  5. Kitamura M,Kimura K,Ido A,Seki T,Banno H,Jin WC,Wachino J,Yamada K,Arakawa Y.Relatively high rates of cefotaxime- and ceftriaxone-non-susceptible isolates among group B streptococci with reduced penicillin susceptibility (PRGBS) in Japan .JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY,2019;74(4):931-934
  6. Wachino J,Jin WC,Kimura K,Arakawa Y.Intercellular Transfer of Chromosomal Antimicrobial Resistance Genes between Acinetobacter baumannii Strains Mediated by Prophages.ANTIMICROBIAL AGENTS AND CHEMOTHERAPY,2019;63(8)
  7. Wachino J,Kanechi R,Nishino E,Mochizuki M,Jin WC,Kimura K,Kurosaki H,Arakawa Y.4-Amino-2-Sulfanylbenzoic Acid as a Potent Subclass B3 Metallo-beta-Lactamase-Specific Inhibitor Applicable for Distinguishing Metallo-beta-Lactamase Subclasses.ANTIMICROBIAL AGENTS AND CHEMOTHERAPY,2019;63(10)
  8. Moroi H,Kimura K,Ido A,Banno H,Jin WC,Wachino J,Yamada K,Kikkawa F,Park YJ,Arakawa Y.Erythromycin-Susceptible but Clindamycin-Resistant Phenotype of Clinical ermB-PCR-Positive Group B Streptococci Isolates with IS1216E-Inserted ermB. Japanese Journal of Infectious Diseases,2019;72(6):420-422.
  9. Tanaka H,Hayashi W,Iimura M,Taniguchi Y,Soga E,Matsuo N,Kawamura K,Arakawa Y,Nagano Y,Nagano N.Wastewater as a Probable Environmental Reservoir of Extended-Spectrum-β-Lactamase Genes: Detection of Chimeric β-Lactamases CTX-M-64 and CTX-M-123. Applied and Environmental Microbiology,2019.
  10. Hayashi W,Tanaka H,Taniguchi Y,Iimura M,Soga E,Kubo R,Matsuo N,Kawamura K,Arakawa Y,Nagano Y,Nagano N.Acquisition of mcr-1 and Cocarriage of Virulence Genes in Avian Pathogenic Escherichia coli Isolates from Municipal Wastewater Influents in Japan. Applied and Environmental Microbiology,2019.
  11. Taniguchi Y,Koide S,Maeyama Y,Tamai K,Hayashi W,Tanaka H,Iimura M,Suzuki M,Nagano Y,Arakawa Y,Nagano N.Predominance of methicillin-resistant Staphylococcus aureus SCCmec type II-CC5 and SCCmec type IV-CC1/CC8 among companion animal clinical isolates in Japan; findings from phylogenetic comparison with human clinical isolates.Journal of Global Antimicrobial Resistance,2019.
  12. Suzuki M,Doi Y,Arakawa Y.ORF-based binarized structure network analysis of plasmids (OSNAp), a novel approach to core gene-independent plasmid phylogeny. Plasmid,2020;108.
2018
  1. Norizuki C, Kawamura K, Wachino J, Suzuki M, Nagano N, Kondo T, Arakawa Y. Detection of Escherichia coli Producing CTX-M-1-Group Extended-Spectrum β-Lactamases from Pigs in Aichi Prefecture, Japan, between 2015 and 2016. Jpn J Infect Dis, 2018 23;71(1):33-38.
  2. Oodate M, Kimura K, Banno H, Yokoyama S, Jin W, Wachino J, Hasegawa Y, Arakawa Y. Predominance of Serogroup 19 CC320/271 among Penicillin-Nonsusceptible Streptococcus pneumoniae Isolates after Introduction of the PCV7 Vaccine in Several Regions of Japan. Jpn J Infect Dis, 2018 Jan 23;71(1):14-20.
  3. Osaka S, Okuzumi K, Koide S, Tamai K, Sato T, Tanimoto K, Tomita H, Suzuki M, Nagano Y, Shibayama K, Arakawa Y, Nagano N. Genetic shifts in methicillin-resistant Staphylococcus aureus epidemic clones and toxin gene profiles in Japan: comparative analysis among pre-epidemic, epidemic and post-epidemic phases. J Med Microbiol, 2018 ;67(3):392-399.
  4. Maeyama Y, Taniguchi Y, Hayashi W, Ohsaki Y, Osaka S, Koide S, Tamai K, Nagano Y, Arakawa Y, Nagano N. Prevalence of ESBL/AmpC genes and specific clones among the third-generation cephalosporin-resistant Enterobacteriaceae from canine and feline clinical specimens in Japan.Vet Microbiol, 2018 Mar;216:183-189.
  5. Banno H, Kimura K, Seki T, Jin W, Wachino J, Yamada K, Nagano N, Arakawa Y. High isolation rate and multidrug resistance tendency of penicillin-susceptible group B Streptococcus with reduced ceftibuten susceptibility in Japan. Eur J Clin Microbiol Infect Dis, 2018 May 17.
  6. Kitaoka K, Kimura K, Kitanaka H, Banno H, Jin W, Wachino J, Arakawa Y. Carbapenem-non-Susceptible Haemophilus influenzae with Penicillin-Binding Protein 3 containing Amino Acid Insertion. Antimicrob Agents Chemother,2018 May 21.
  7. Kawamura K, Hayashi K, Matsuo N, Kitaoka K, Kimura K, Wachino J, Kondo T, Iinuma Y, Murakami N, Fujimoto S, Arakawa Y.Prevalence of CTX-M-Type Extended-Spectrum β-Lactamase-Producing Escherichia coli B2-O25-ST131 H30R Among Residents in Nonacute Care Facilities in Japan. Microb Drug Resist, 2018 May 23.
  8. Hayashi W,Ohsaki Y,Taniguchi Y,Koide S,Kawamura K,Suzuki M,Kimura K,Wachino J,Nagano Y,Arakawa Y,Nagano N.High prevalence of bla(CTX-M-14) among genetically diverse Escherichia coli recovered from retail raw chicken meat portions in Japan .INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY2018;284:98-104.
2017
  1. Norizuki C, Wachino J, Suzuki M, Kawamura K, Nagano N, Kimura K, Arakawa Y.Specific blaCTX-M-8/IncI1 Plasmid Transfer among Genetically Diverse Escherichia coli Isolates between Humans and Chickens. Antimicrob Agents Chemother,2017 ;61(6). pii: e00663-17.
  2. Banno H, Kimura K, Tanaka Y, Sekizuka T, Kuroda M, Jin W, Wachino J, Yamada K, Shibayama K, Arakawa Y.　Analysis of multidrug resistant group B streptococci with reduced penicillin susceptibility forming small, less hemolytic colonies.PLoS One, 2017 Aug 17;12(8):e0183453.
  3. Kato K, Mizumoto H, Matsubara K, Hata A, Wachino J, Arakawa Y, Hata D. Recurrence of Escherichia coli meningitis in a preterm infant and co-infection of echovirus 18. IDCases, 2017 Nov 10;10:135-137.
  4. Saito S, Koori Y, Ohsaki Y, Osaka S,Oana K,Nagano Y,Arakawa Y,Nagano N. Third-Generation Cephalosporin-Resistant Non-Typhoidal Salmonella Isolated from Human Feces in Japan.Japanese Journal of Infectious Diseases,2017 May ;70(3):301-304
  5. Jin W, Wachino J, Yamaguchi Y, Kimura K, Kumar A, Yamada M, Morinaka A, Sakamaki Y, Yonezawa M, Kurosaki H, Arakawa Y.Structural Insights into the TLA-3 Extended-Spectrum beta-Lactamase and Its Inhibition by Avibactarn and OP0595. Antimicrobial Agents and Chemotherapy, 2017; 61(10).
  6. Kawamura K, Sugawara T, Matsuo N, Hayashi K, Norizuki C, Tamai K, Kondo T, Arakawa Y. Spread of CTX-Type Extended-Spectrum beta-Lactamase-Producing Escherichia coli Isolates of Epidemic Clone B2-O25-ST131 Among Dogs and Cats in Japan. Microbial Drug Resistance, 2017;23(8):1059-1066.
  7. Hiramatsu Y, Miyaji Y, Otsuka N, Arakawa Y, Shibayama K, Kamachi K. Significant Decrease in Pertactin-Deficient Bordetella pertussis Isolates, Japan. Emerging Infectious Diseases, 2017; 23(4):699-701.
  8. Hayashi M, Kawamura K, Matsui M, Suzuki M, Suzuki S, Shibayama K, Arakawa Y. Reduction in chlorhexidine efficacy against multi-drugresistant Acinetobacter baumannii international clone II. Journal of Hospital Infection, 2017;95(3):318-323.
  9. Cao XL, Shen H, Xu YY, Xu XJ, Zhang ZF, Cheng L, Chen JH, Arakawa Y. High prevalence of fosfomycin resistance gene fosA3 in bla(CTX)-M-harbouring Escherichia coli from urine in a Chinese tertiary hospital during 2010-2014. Epidemiology and Infection, 2017; 145(4): 818-824.
  10. Ohsaki Y, Hayashi W, Saito S, Osaska S, Taniguchi Y, Koide S, Kawamura K, Nagano Y, Arakawa Y, Nagano N. First Detection of an Escherichia coli Strain Harboring the mcr-1 Gene in Retail Domestic Chicken Meat in Japan. Japanese Journal of Infectious Diseases,2017;70(5):590-592.
  11. Taniguchi Y, Maeyama Y, Ohsaki Y, Hayashi W, Osaka S, Koide S, Tamai K, Nagano Y, Arakawa Y, Nagano N. Co-resistance to colistin and tigecycline by disrupting mgrB and ramR with IS insertions in a canine Klebsiella pneumoniae ST37 isolate producing SHV-12, DHA-1 and FosA3. International journal of Antimicrobial Agents, 2017.
  12. Taniguchi R, Kimura K, Miyazaki A, Banno H, Jin W, Yamada K, Wachino J, Arakawa Y. High rate of slowly-killed-by-ampicillin phenotype among group B streptococci with reduced penicillin susceptibility. Journal of Antimicrobial Chemotherapy, 2017;72(3):941-942.
2016
  1. Cao XL, Shen H, Xu YY, Xu XJ, Zhang ZF, Cheng L, Chen JH, Arakawa Y.High prevalence of fosfomycin resistance gene fosA3 in bla CTX-M-harbouring Escherichia coli from urine in a Chinese tertiary hospital during 2010-2014. Epidemiol Infect, 2016; 12:1-7.
  2. Ohno H, J. Wachino,. Saito R, Jin W, Yamada K, Kimura K, Arakawa Y.A highly macrolide-resistant Campylobacter jejuni strain with rare A2074T mutations in 23S rRNA genes. Antimicrob Agents Chemother, 2016; 60(4):2580-2581.
  3. Nakane K, Kawamura K, Goto K, Arakawa Y.Long-term colonization of blaCTX-M-harboring Escherichia coli found in ordinary Japanese people engaged in food handling in community. Appl Environ.Microbiol, 2016; 82(6):1818-1827.
  4. Fukigai S¶, Morimoto M¶, Kimura K, Doyama Y, Miyazaki A, Kamiya C, Banno H, Morishima E, Onoda T, Nagano N, Jin W, Wachino J, Yamada K, Arakawa Y.Effectual detection of group B streptococci with reduced penicillin susceptibility (PRGBS) by commercially available methicillin-resistant-Staphylococcus aureus (MRSA)-selective agar. Diagn Microbiol Infect Dis, 2016; 85(3):309-312.¶ Equally contribution Taniguchi R, Kimura K*, Miyazaki A, Banno, H Jin W, Yamada K., Wachino J, Arakawa Y.
  5. High rate of slowly-killed-by-ampicillin phenotype among group B streptococci with reduced penicillin susceptibility (PRGBS).
  6. Antimicrob Agents Chemother in press.
  7. Inaba M, Matsuda N, Banno H, Jin W, Wachino J, Yamada K, Kimura K, Y. Arakawa .In vitro reduction of antibacterial activity of tigecycline against multidrug-resistant Acinetobacter baumannii with host stress hormone norepinephrine.Int J Antimicrob Agents 2016 ;48(6):680-689.
  8. Wachino J,Yamaguchi Y, Mori S , Jin W,Kimura K, Kurosaki H, Y. Arakawa Structural insights into recognition of hydrolyzed carbapenems and inhibitors by subclass B3 metallo-β-lactamase SMB-1. Antimicrob Agents Chemother 2016; 60(7): 4274-4282
2015
  1. Fujita A,Kimura K,Yokoyama S,Jin W,Wachino J,Yamada K, Suematsu H,Yamagishi Y,Mikamo H,Arakawa Y. Characterization of piperacillin/tazobactam-resistant Klebsiella oxytoca recovered from a nosocomial outbreak. PLOS ONE, 2015;10(11):e0142366.
  2. Seki T, Kimura K, Reid M.E, Miyazaki A, Banno H, Jin W, Wachino J, Yamada K, Arakawa Y.High isolation rate of multi-drug resistant group B streptococci with reduced penicillin susceptibility in Japan. Antimicrob Agents Chemother 2015;70(10):2725-2728.
  3. Kasama T, Ikami M, Jin W, Yamada K, Kaji N, Atsumi Y. Mizutani M, Okamoto A, Namikawa T, Ohta M, Tokeshi M, Baba Y.Rapid, highly sensitive, and simultaneous detection of staphylococcal enterotoxins in milk by using immuno-pillar devices. Anal Methods, 2015; 82(4):269-273.
  4. Kimura K, Nagano N, Arakawa Y.Classification of Group B Streptococci with Reduced β-Lactam Susceptibility (GBS-RBS) Based on the Amino Acid Substitutions in Penicillin-binding Proteins (PBPs). Antimicrob Agents Chemother,2015; 70(6):1601-1603.
  5. Jin W, Wachino J, Kimura K, Yamada K, Arakawa Y.New plasmid-mediated aminoglycoside 6'-N-acetyltransferase, AAC(6')-Ian, and extended-spectrum β-lactamase, TLA-3, from Serratia marcescens clinical isolate.J Antimicrob Chemother,2015;70(5):1331-1337.
  6. Yamada R, Kimura K, Nagano N, Nagano Y, Suzuki S, Jin W, Wachino J, Yamada K, Shibayama K, Arakawa Y. Comparative Analysis of Penicillin-Susceptible and Non-Susceptible Isolates in Group B Streptococci by Multilocus Sequence Typing. Jpn J Infect Dis, 2015; 68(4):326-329.
  7. Yamaguchi Y, Matsueda S, Matsunaga K, Takashio N, Toma-Fukai S, Yamagata Y, Shibata N, Wachino J, Shibayama K, Arakawa Y, Kurosaki H.Crystal structure of IMP-2 metallo-β-lactamase from Acinetobacter spp.: Comparison of active-Site loop structures between IMP-1 and IMP-2. Biol Pharm Bull, 2015; 38(1):96-101,.
  8. Suzuki T, Kimura K, Suzuki H, Banno H, Jin W, Wachino J, Yamada K, Arakawa Y.Have group A streptococci with reduced penicillin susceptibility emerged?J Antimicrob Chemother, 2015; 70(4):1258-1259.
  9. Nagasaka Y, Kimura K, Yamada K, Wachino J, Jin W, Notake S, Yanagisawa H, Arakawa Y.Genetic profiles of fluoroquinolone-nonsusceptible Klebsiella pneumoniae among cephalosporin-resistant K. pneumoniae.Microb Drug Resist ,2015;(2):224-233.
  10. Ito R, Shindo Y, Kobayashi D, Ando M, Jin W, Wachino J, Yamada K, Kimura K, Yagi T, Hasegawa Y, Arakawa Y.Molecular Epidemiological Characteristics of Klebsiella pneumoniae Associated with Bacteremia among Patients with Pneumonia.J Clin Microbiol, 2015; 53(3):879-886.
  11. Umene YD, Wong LK, Satoh T,Yamane K,Matsui M,Riley LW, Arakawa Y,Suzuki S.Molecular epidemiological characterization of uropathogenic Escherichia coli from an outpatient urology clinic in rural Japan.J Clin Microbiol,2015; 3(2):681-683.
  12. Asai K,Yamada K,Yagi T,Baba H,Kawamura I,Ohta M.Effect of incubation atmosphere on the production and composition of staphylococcal. biofilms J Infect Chemother, 2015 21(1):55–61,
2014
  1. Nagasawa M, Kaku M, Kamachi K, Shibayama K, Arakawa Y, Yamaguchi K, Ishii Y.Loop-mediated isothermal amplification assay for 16S rRNA methylase genes in Gram-negative bacteria.J Infect Chemother, 2014;20:635-638,.
  2. Mori S, Kim H, Rimbara E, Arakawa Y, Shibayama K.Roles of Ala-149 in the catalytic activity of diadenosine tetraphosphate phosphorylase from Mycobacterium tuberculosis H37Rv.Biosci Biotechnol Biochem, 2014; 28:1-3,.
  3. Wachino J, Kimura K, Yamada K, Jin W, Arakawa Y.Evaluation of disk potentiation test using KB disks containing high dosage fosfomycin and glucose-6-phosphate to detect the production of glutathione S-transferase responsible for fosfomycin resistance.J Clin Microbiol, 2014;(10):3827-3828,.
  4. Kitanaka H, Sasano M, Yokoyama S, Suzuki M, Jin W, Inayoshi M, Hori M, Wachino J, Kimura K, Yamada K, Arakawa Y.Carbapenem-resistant Acinetobacter soli as a newly emerging invasive pathogen.Emerg Infect Dis. 2014 ;20(9):1574-1576.
  5. Nakamura G, Wachino J, Sato N, Kimura K, Yamada K, Jin W, Shibayama K, Yagi T , Kawamura K, Arakawa Y. Practical agar-based disk potentiation test to detect fosfomycin−non-susceptible Escherichia coli clinical isolates producing glutathione S-transferases.J Clin Microbiol, 2014; 52(9):3175-3179.
  6. Nagano N, Nagano Y, Toyama M, Kimura K, Shibayama K, Arakawa Y.Penicillin-susceptible group B streptococcal clinical isolates with reduced cephalosporin susceptibility. J Clin Microbial, 2014;52(9):3406-3410.
  7. Suzuki M, Hosoba E, Matsui M, Arakawa Y.New PCR-based genotyping method for easy, rapid and reliable identification of Acinetobacter baumannii international epidemic clones without performing MLST.J. Clin. Microbiol, 2014; 58(8):2925-2932.
  8. Kitanaka H, Wachino J, Jin W, Yokoyama S, Sasano M, Hori M, Yamada K, Kimura K, Arakawa Y.Novel integron-mediated fosfomycin-resistance genetic determinant, fosK.Antimicrob Agents Chemother, 2014;58(8):4978-4979.
  9. Okamoto A, Lee H, Yabutani M, Yamada K, Ohta M. Draft genome sequence of a Legionella pneumophila serogroup 4 strain causing legionellosis. Genome Announc, 2014;2(3):602-614.
  10. Banno H, Kimura K, Tanaka Y, Kitanaka H, Jin W, Wachino J, Yamada K, Shibayama K, Arakawa Y.Characterization of multi-drug-resistant group b streptococci with reduced penicillin susceptibility (PRGBS) forming small non-β-hemolytic colonies on sheep blood agar plates.J Clin Microbiol, 2014;52(6):2169-2171.
  11. Matsui M, Suzuki S, Yamane K, Suzuki M, Konda T, Arakawa Y, Shibayama K.Distribution of carbapenem resistance determinants among epidemic and non-epidemic types of Acinetobacter species in Japan.J Med Microbiol, 2014;63(pt 6):870-877.
  12. Bart MJ, Harris SR, Advani A, Arakawa Y, Bottero D, Bouchez V, Cassiday PK, Chiang CS, Dalby T, Fry NK, Gaillard ME, van Gent M, Guiso N, Hallander HO, Harvill ET, He Q, van der Heide HG, Heuvelman K, Hozbor DF, Kamachi K, Karataev GI, Lan R, LutyR,ev A, Maharjan RP, Mertsola J, Miyamura T, Octavia S, Preston A, Quail MA, Sintchenko V, Stefanelli P, Tondella ML, Tsang RS, Xu Y, Yao SM, Zhang S, Parkhill J, Mooi FR.Global population structure and evolution of Bordetella pertussis and their relationship with vaccination.MBio, 2014;5(2):e01074.
  13. Kawamura K, Goto K, Nakane K, Arakawa Y.Molecular epidemiology of extended-spectrum β-lactamases and Escherichia coli iso lated from retail foods including chicken meat in Japan.Foodborne Pathog Dis. 2014;11(2):104-110.
2013
  1. Matsui M, Suzuki S, Suzuki M, Arakawa Y, Shibayama K.Rapid discrimination of Acinetobacter baumannii international clone II lineage by pyrosequencing SNP analyses of bla(OXA-51-like) genes.J Microbiol Methods, 2013;94(2):121-124.
  2. Ato M, Takahashi Y, Fujii H, Hashimoto S, Kaji T, Itamura S, Horiuchi Y, Arakawa Y, Tashiro M,Takemori T.Influenza A whole virion vaccine induces a rapid reduction of peripheral blood leukocytes via interferon-α-dependent apoptosis.Vaccine,2013; 31(17):2184-2190.
  3. Kimura K, Yanagisawa H, Wachino J, Shibayama K, Arakawa Y.Rapid and reliable loop-mediated isothermal amplification method for detecting Streptococcus agalactiae.Jpn J Infect Dis, 2013; 66(6): 546-548.
  4. Nagano N, Endoh Y, Nagano Y, Toyama M, Matsui M, Shibayama K, Arakawa Y.First report of oxa-48 carbapenemase-producing Klebsiella pneumoniae and Escherichia coli in Japan from a patient returned from Southeast Asia.Jpn J Infect Dis, 2013; 201; 66:79-81.
  5. Matsuoka M, Sasaki T, Seki N, Kobayashi M, Sawabe K, Sasaki Y, Shibayama K, Sasaki T, Arakawa Y.Hemin-binding proteins as potent marker for serological diagnosis of infections with Bartonella quintana.Clin Vaccine Immunol, 2013; 20(4):620-626.
  6. Wachino J, Yamaguchi Y, Mori S, Kurosaki H, Arakawa Y, Shibayama K.Structural insights into the subclass B3 metallo-β-lactamase SMB-1 and the mode of inhibition by the common metallo-β-lactamase inhibitor mercaptoacetate.Antimicrob Agents Chemother, 2013; 57:101-109.
  7. Jin W, Yamada K, Ikami M, Kaji N, Tokeshi M, Atsumi Y, Mizutani M, Murai A, Okamoto A, Namikawa T, Baba Y, Ohta M. Application of IgY to sandwich enzyme-linked immunosorbent assays, lateral flow devices, and immunopillar chips for detecting staphylococcal enterotoxins in milk and dairy products. J Microbiol Methods, 2013; 92:323–331.
  8. Kimura K, Wachino J, Kurokawa H, Matsui M, Suzuki S, Yamane K, Nagano N, Shibayama K, Arakawa Y.High cephalosporin resistance due to amino acid substitutions in PBP1A and PBP2X in a clinical isolate of group B streptococcus.J Antimicrob Chemother , 2013; 68(7):1533-1536.
  9. Kimura K, Nishiyama Y, Shimizu S, Wachino J, Matsui M, Suzuki S, Yamane K, Shibayama K, Arakawa Y.Screening for group B streptococci with reduced penicillin. susceptibility in clinical isolates obtained between 1977 and 2005. Jpn J Infect Dis, 2013; 66(3):222-225.
  10. Kimura K, Matsubara K, Yamamoto G, Shibayama K, Arakawa Y.Active screening of group B streptococci with reduced penicillin susceptibility and altered serotype distribution, isolated from pregnant women in Kobe, Japan. Jpn J Infect Dis,2013; 66(2):158-160.
  11. Kimura K, Nagano N, Nagano Y, Wachino J, Shibayama K, Arakawa Y.Ability of the VITEK® 2 system to detect group B streptococci with reduced penicillin susceptibility. J Antimicrob Chemother, 2013; 68(6):1442-1444.
  12. Yamada K, Jin W, Ohkura T, Murai A, Hayakawa R, Kinoshita K, Mizutani M, Okamoto A, Namikawa T, Ohta M. Detection of methicillin-resistant Staphylococcus aureus using specific anti-pbp2a chicken igY antibody. Jpn J Infect Dis, 2013; 66(2):103-108.
  13. Kimura K, Nagano N, Nagano Y,Suzuki S, Wachino J, Shibayama K, Arakawa Y.High frequency of fluoroquinolone- and macrolide-resistant streptococci among clinically isolated group B streptococci with reduced penicillin susceptibility.J Antimicrob Chemother , 2013; 68(3): 539-542.
2012
  1. Nomura T, Tanimoto K, Shibayama K, Arakawa Y, Fujimoto S, Ike Y, Tomita H.Identification of VanN-type vancomycin resistance in an Enterococcus faecium isolate from chicken meat in Japan.Antimicrob Agents Chemother, 2012; 56: 6389-6392.
  2. Wachino J, Arakawa Y.Exogenously acquired 16S rRNA methyltransferases found in aminoglycoside-resistant pathogenic Gram-negative bacteria:an update.Drug Resist Updat, 2012; 15:133-148.
  3. Wachino J, Yamaguchi Y, Mori S, Yamagata Y, Arakawa Y, Shibayama K.Crystallization and preliminary X-ray analysis of the subclass B3 metallo-β-lactamase SMB-1 that confers carbapenem resistance.Acta Crystallogr Sect F Struct Biol Cryst Commun, 2012; 68: 343-346.
  4. Otsuka N, Han HJ, Toyoizumi-Ajisaka H, Nakamura Y, Arakawa Y, Shibayama K, Kamachi K.Prevalence and genetic characterization of pertactin-deficient Bordetella pertussis in Japan.PLoS One, 2012; 7(2):e31985.
  5. Nagano N, Nagano Y, Toyama M, Kimura K, Tamura T, Shibayama K, Arakawa Y.Nosocomial spread of multidrug-resistant group B streptococci with reduced penicillin susceptibility belonging to clonal complex 1.J Antimicrob Chemother, 2012; 67:849-856.
  6. Lee SY, Park YJ, Yu JK, Jung S, Kim Y, Jeong SH, Arakawa Y,Prevalence of acquired fosfomycin resistance among extended-spectrum β-lactamase-producing Escherichia coli and Klebsiella pneumoniae clinical isolates in Korea and IS26-composite transposon surrounding fosA3.J Antimicrob Chemother, 2012; 67:2843-2847.
  7. Takeno A, Okamoto A, Torii K, Oshima K, Hirakawa H, Toh H, Agata N, Yamada K, Ogasawara N, Hayashi T, Shimizu T, Kuhara S, Hattori M, and Ohta M, complete genome sequence of Bacillus cereus NC7401, which produces high levels of the emetic toxin cereulide. J Bacteriol, 2012;194(17):4767-4768.
2011
  1. Sekizuka T, Matsui M, Yamane K, Takeuchi F, Ohnishi M, Hishinuma A, Arakawa Y, Kuroda M,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, 2011; 6(9):e25334.
  2. Mori S, Shibayama K, Wachino J, Arakawa Y.Structural insights into the novel diadenosine 5',5‴-P¹,P⁴-tetraphosphate phosphorylase from Mycobacterium tuberculosis H37Rv.J Mol Biol, 2011; 410:93-104.
  3. Han HJ, Kuwae A, Abe A, Arakawa Y, Kamachi K,Differential expression of type III effector BteA protein due to IS481 insertion in Bordetella pertussis.PLoS One, 2011; 6(3):e17797.
  4. Shibayama K, Takeuchi H, Wachino J, Mori S, Arakawa Y.Biochemical and pathophysiological characterization of Helicobacter pylori asparaginase.Microbiol Immunol, 2011; 55:408-417.
  5. Okamoto A, Yamada K.Proteome driven re-evaluation and functional annotation of the Streptococcus pyogenes SF370 genome. BMC Microbiol,2011;11:249.
  6. Okamoto A, Hasegawa T, Yamada K, and Ohta M. Application of both high-performance liquid chromatography combined with tandem mass spectrometry shotgun and 2-D polyacrylamide gel electrophoresis for streptococcal exoproteins gave reliable proteomic data. Microbiol Immunol, 2011; 55(2):84-94.
  7. Tomita Y, Ohta M, Yamada K, Okamoto A, Yagi T, and Hasegawa Y. A new microarray system to detect Streptococcus pneumoniae serotypes. J Biomed Biotech, 2011; 352736.
  8. Kimura K, Nagano N, Nagano Y, Wachino J, Suzuki S, Shibayama K, Arakawa Y.Predominance of sequence type 1group with serotype VI among group B streptococci with reduced penicillin susceptibility identified in Japan.J Antimicrob Chemother, 2011; 66:2460-2464.
  9. Wachino J, Yoshida H, Yamane K, Suzuki S, Matsui M, Yamagishi T, Tsutsui A, Konda T, Shibayama K, Arakawa Y.SMB-1, a novel subclass B3metallo-β-lactamase, associated with ISCR1 and a class 1 integron,from a carbapenem-resistant Serratia marcescens clinical isolate. Antimicrob Agents Chemother, 2011; 55:5143-5149.
  10. Wachino J, Yamane K, Arakawa Y. Practical disk-based method for detection of Escherichia coli clinical isolates producing the fluoroquinolon e-modifying enzyme AAC(6')-Ib-cr. J Clin Microbiol, 2011; 49:2378-2379.
  11. Tsutsui A ,Suzuki S, Yamane K ,Matsui M , Konda T, Marui E, Takahashi K , Arakawa Y. Genotypes and infection sites in an outbreak of multidrug-resistant Pseudomonas aeruginosa. J Hosp Infect, 2011; 78:317-322.
  12. Yamaguchi Y, Imamura K,Sasao A, Murakami E,Arakawa Y, Kurosaki H. Metal Preference of Zn(II)and Co(II) for DinuclearMetal Binding Site of IMP-1Metallo-β-lactamase and spectroscopic.properties of Co(II)-substituted IMP-1 with Mercaptoacetic acid.Med Chem Commun, 2011; 2:720-725.
  13. Yamaguchi Y, Ding S, Murakami E, Imamura K, Fuchigami S, Hashiguchi R, Yutani K, Mori H, Suzuki S, Arakawa Y, Kurosaki H . A demetallation method for imp-1metallo-β-lactamase that has restored enzymatic activity upon addition of metal Ion(s). ChemBioChem, 2011; 12:1979-1983.

MESSAGE

Call for graduate students

※ We welcome passionate graduate students who are interested in the mechanisms of infectious diseases and antibiotic resistance. In our laboratory, there are students with a background in biology, graduating from a medical, pharmacological or agricultural department etc, though the background is not strictly asked to enter the lab. After completing the course, they work as clinicians, pharmacists, nurses, clinical laboratory technicians, national/local government officers, or university faculties etc.

We also welcome undergraduate students who are interested in basic research. Students continue and develop their research after finishing the course for medical student (''KISOIGAKU seminor''), and they have opportunities of conference presentations inside and outside the country. Since the study on infectious diseases is closely linked to clinical practice, the knowledge and technique obtained through research experience in this laboratory will be greatly valuable for the career in future.

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