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Kawakami C, Yamayoshi S, Akimoto M, Nakamura K, Miura H, Fujisaki S, Pattinson DJ, Shimizu K, Ozawa H, Momoki T, Saikusa M, Yasuhara A, Usuku S, Okubo I, Toyozawa T, Sugita S, Smith DJ, Watanabe S, Kawaoka Y. Genetic and antigenic characterisation of influenza A(H3N2) viruses isolated in Yokohama during the 2016/17 and 2017/18 influenza seasons. ACTA ACUST UNITED AC 2020; 24. [PMID: 30755292 PMCID: PMC6373070 DOI: 10.2807/1560-7917.es.2019.24.6.1800467] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Background: Influenza A(H3N2) virus rapidly evolves to evade human immune responses, resulting in changes in the antigenicity of haemagglutinin (HA). Therefore, continuous genetic and antigenic analyses of A(H3N2) virus are necessary to detect antigenic mutants as quickly as possible. Aim: We attempted to phylogenetically and antigenically capture the epidemic trend of A(H3N2) virus infection in Yokohama, Japan during the 2016/17 and 2017/18 influenza seasons. Methods: We determined the HA sequences of A(H3N2) viruses detected in Yokohama, Japan during the 2016/17 and 2017/18 influenza seasons to identify amino acid substitutions and the loss or gain of potential N-glycosylation sites in HA, both of which potentially affect the antigenicity of HA. We also examined the antigenicity of isolates using ferret antisera obtained from experimentally infected ferrets. Results: Influenza A(H3N2) viruses belonging to six clades (clades 3C.2A1, 3C.2A1a, 3C.2A1b, 3C.2A2, 3C.2A3 and 3C.2A4) were detected during the 2016/17 influenza season, whereas viruses belonging to two clades (clades 3C.2A1b and 3C.2A2) dominated during the 2017/18 influenza season. The isolates in clades 3C.2A1a and 3C.2A3 lost one N-linked glycosylation site in HA relative to other clades. Antigenic analysis revealed antigenic differences among clades, especially clade 3C.2A2 and 3C.2A4 viruses, which showed distinct antigenic differences from each other and from other clades in the antigenic map. Conclusion: Multiple clades, some of which differed antigenically from others, co-circulated in Yokohama, Japan during the 2016/17 and 2017/18 influenza seasons.
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Affiliation(s)
| | - Seiya Yamayoshi
- Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan
| | - Miki Akimoto
- Influenza Virus Research Center, National Institute of Infectious Diseases, Tokyo, Japan
| | - Kazuya Nakamura
- Influenza Virus Research Center, National Institute of Infectious Diseases, Tokyo, Japan
| | - Hideka Miura
- Influenza Virus Research Center, National Institute of Infectious Diseases, Tokyo, Japan
| | - Seiichiro Fujisaki
- Influenza Virus Research Center, National Institute of Infectious Diseases, Tokyo, Japan
| | - David J Pattinson
- Center for Pathogen Evolution, University of Cambridge, Cambridge, UK
| | - Kohei Shimizu
- Yokohama City Institute of Public Health, Yokohama, Japan
| | - Hiroki Ozawa
- Yokohama City Institute of Public Health, Yokohama, Japan
| | - Tomoko Momoki
- Yokohama City Institute of Public Health, Yokohama, Japan
| | - Miwako Saikusa
- Yokohama City Institute of Public Health, Yokohama, Japan
| | - Atsuhiro Yasuhara
- Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan
| | - Shuzo Usuku
- Yokohama City Institute of Public Health, Yokohama, Japan
| | - Ichiro Okubo
- Yokohama City Institute of Public Health, Yokohama, Japan
| | | | - Shigeo Sugita
- Equine Research Institute, Japan Racing Association, Tochigi, Japan
| | - Derek J Smith
- Center for Pathogen Evolution, University of Cambridge, Cambridge, UK
| | - Shinji Watanabe
- Influenza Virus Research Center, National Institute of Infectious Diseases, Tokyo, Japan
| | - Yoshihiro Kawaoka
- Department of Special Pathogens, International Research Center for Infectious Diseases, Institute of Medical Science, University of Tokyo, Tokyo, Japan.,Department of Pathobiological Sciences, School of Veterinary Medicine, University of Wisconsin-Madison, USA.,Division of Virology, Department of Microbiology and Immunology, Institute of Medical Science, University of Tokyo, Tokyo, Japan
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Saikusa M, Nao N, Kawakami C, Usuku S, Sasao T, Toyozawa T, Takeda M, Okubo I. A novel 111-nucleotide duplication in the G gene of human metapneumovirus. Microbiol Immunol 2018; 61:507-512. [PMID: 28960538 DOI: 10.1111/1348-0421.12543] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Revised: 09/14/2017] [Accepted: 09/27/2017] [Indexed: 11/26/2022]
Abstract
In 2017, novel human metapneumovirus (HMPV) A2b subgroup strains with a 111-nucleotide duplication in the G gene was detected by the present team. These strains were related to previously identified HMPV A2b strains with a 180-nucleotide duplication; however, they appeared to be different strains, produced by an independent duplication event. The recent evolution of HMPV suggests that careful monitoring of this virus is required.
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Affiliation(s)
- Miwako Saikusa
- Yokohama City Institute of Public Health, Yokohama 236-0051, Kanagawa, Japan
| | - Naganori Nao
- Department of Virology 3, National Institute of Infectious Diseases, Musashimurayama, 208-0011, Tokyo, Japan
| | - Chiharu Kawakami
- Yokohama City Institute of Public Health, Yokohama 236-0051, Kanagawa, Japan
| | - Shuzo Usuku
- Yokohama City Institute of Public Health, Yokohama 236-0051, Kanagawa, Japan
| | - Tadayoshi Sasao
- Yokohama City Institute of Public Health, Yokohama 236-0051, Kanagawa, Japan
| | - Takahiro Toyozawa
- Yokohama City Public Health Center, Yokohama 231-0017, Kanagawa, Japan
| | - Makoto Takeda
- Department of Virology 3, National Institute of Infectious Diseases, Musashimurayama, 208-0011, Tokyo, Japan
| | - Ichiro Okubo
- Yokohama City Institute of Public Health, Yokohama 236-0051, Kanagawa, Japan
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Yahata Y, Ohshima N, Odaira F, Nakamura N, Ichikawa H, Ichikawa H, Matsuno K, Shuri J, Toyozawa T, Terajima J, Watanabe H, Nakashima K, Sunagawa T, Taniguchi K, Okabe N. Web survey-based selection of controls for epidemiological analyses of a multi-prefectural outbreak of enterohaemorrhagic Escherichia coli O157 in Japan associated with consumption of self-grilled beef hanging tender. Epidemiol Infect 2018; 146:450-457. [PMID: 29397049 PMCID: PMC9134521 DOI: 10.1017/s0950268817003132] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2017] [Revised: 12/03/2017] [Accepted: 12/08/2017] [Indexed: 11/06/2022] Open
Abstract
An outbreak of enterohaemorrhagic Escherichia coli O157 occurred in multiple prefectures of Japan in November 2009. We conducted two case-control studies with trace-back and trace-forward investigations to determine the source. The case definition was met by 21 individuals; 14 (66.7%) were hospitalised, but no haemolytic uraemic syndrome, acute encephalopathy or deaths occurred. Median age was 23 (range 12-48) years and 14 cases were male (66.7%). No significant associations with food were found in a case-control study by local public health centres, but our matched case-control study using Internet surveys found that beef hanging tender (or hanger steak), derived from the diaphragm of the cattle, was significantly associated with illness (odds ratio = 15.77; 95% confidence interval, 2.00-124.11). Pulsed-field gel electrophoresis analysis of isolates from patients and the suspected food showed five different patterns: two in faecal and food samples, and another three in patient faecal samples only, although there were epidemiological links to the meat consumed at the restaurants. Trace-back investigation implicated a common food processing company from outside Japan. Examination of the logistics of the meat processing company suggested that contamination did not occur in Japan. We concluded that the source of the outbreak was imported hanging tender. This investigation revealed that Internet surveys could be useful for outbreak investigations.
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Affiliation(s)
- Y. Yahata
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
| | - N. Ohshima
- Public Health Center, Medical Care Bureau, City of Yokohama, Kanagawa 231-0015, Japan
| | - F. Odaira
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
- Osaka Psychiatric Medical Center, Osaka 573-0022, Japan
| | - N. Nakamura
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
- Medical Corporations ARCWELL, Kanagawa 213-0001, Japan
| | - H. Ichikawa
- Public Health Center, Medical Care Bureau, City of Yokohama, Kanagawa 231-0015, Japan
| | - H. Ichikawa
- Public Health Center, Medical Care Bureau, City of Yokohama, Kanagawa 231-0015, Japan
| | - K. Matsuno
- Public Health Center, Medical Care Bureau, City of Yokohama, Kanagawa 231-0015, Japan
| | - J. Shuri
- Public Health Center, Medical Care Bureau, City of Yokohama, Kanagawa 231-0015, Japan
| | - T. Toyozawa
- Public Health Center, Medical Care Bureau, City of Yokohama, Kanagawa 231-0015, Japan
| | - J. Terajima
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
- Iwate University, Iwate 020-8550, Japan
| | - H. Watanabe
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
- International University of Health and Welfare, Akasaka, Tokyo 107-8402, Japan
| | - K. Nakashima
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
- Daito Bunka University, Saitama 355-0054, Japan
| | - T. Sunagawa
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
| | - K. Taniguchi
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
- National Hospital Organization Mie National Hospital, Mie 514-0125, Japan
| | - N. Okabe
- National Institute of Infectious Diseases, 1-23-1 Toyama, Shinjuku-ku, Tokyo 162-8640, Japan
- Kawasaki City Institute for Public Health, Kanagawa 201-0821, Japan
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Saikusa M, Kawakami C, Nao N, Takeda M, Usuku S, Sasao T, Nishimoto K, Toyozawa T. 180-Nucleotide Duplication in the G Gene of Human metapneumovirus A2b Subgroup Strains Circulating in Yokohama City, Japan, since 2014. Front Microbiol 2017; 8:402. [PMID: 28352258 PMCID: PMC5348506 DOI: 10.3389/fmicb.2017.00402] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2016] [Accepted: 02/27/2017] [Indexed: 12/03/2022] Open
Abstract
Human metapneumovirus (HMPV), a member of the family Paramyxoviridae, was first isolated in 2001. Seroepidemiological studies have shown that HMPV has been a major etiological agent of acute respiratory infections in humans for more than 50 years. Molecular epidemiological, genetic, and antigenetic evolutionary studies of HMPV will strengthen our understanding of the epidemic behavior of the virus and provide valuable insight for the control of HMPV and the development of vaccines and antiviral drugs against HMPV infection. In this study, the nucleotide sequence of and genetic variations in the G gene were analyzed in HMPV strains prevalent in Yokohama City, in the Kanto area, Japan, between January 2013 and June 2016. As a part of the National Epidemiological Surveillance of Infectious Diseases, Japan, 1308 clinical specimens (throat swabs, nasal swabs, nasal secretions, and nasal aspirate fluids) collected at 24 hospitals or clinics in Yokohama City were screened for 15 major respiratory viruses with a multiplex reverse transcription–PCR assay. HMPV was detected in 91 specimens, accounting for 7.0% of the total specimens, and the nucleotide sequences of the G genes of 84 HMPV strains were determined. Among these 84 strains, 6, 43, 10, and 25 strains were classified into subgroups A2a, A2b, B1, and B2, respectively. Approximately half the HMPV A2b subgroup strains detected since 2014 had a 180-nucleotide duplication (180nt-dup) in the G gene and clustered on a phylogenic tree with four classical 180nt-dup-lacking HMPV A2b strains prevalent between 2014 and 2015. The 180nt-dup causes a 60-amino-acid duplication (60aa-dup) in the G protein, creating 23–25 additional potential acceptor sites for O-linked sugars. Our data suggest that 180nt-dup occurred between 2011 and 2013 and that HMPV A2b strains with 180nt-dup (A2b180nt-dup HMPV) became major epidemic strains within 3 years. The detailed mechanism by which the A2b180nt-dup HMPV strains gained an advantage that allowed their efficient spread in the community and the effects of 60aa-dup on HMPV virulence must be clarified.
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Affiliation(s)
- Miwako Saikusa
- Yokohama City Institute of Public Health Yokohama, Japan
| | | | - Naganori Nao
- Department of Virology III, National Institute of Infectious Diseases Musashimurayama, Japan
| | - Makoto Takeda
- Department of Virology III, National Institute of Infectious Diseases Musashimurayama, Japan
| | - Shuzo Usuku
- Yokohama City Institute of Public Health Yokohama, Japan
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Yoshida M, Toyozawa T. [Recurrence of tuberculosis in the City of Yokohama between 2004 and 2008]. Kekkaku 2009; 84:774-776. [PMID: 20196273] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
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Kawakami C, Obuchi M, Saikusa M, Noguchi Y, Ujike M, Odagiri T, Iwata M, Toyozawa T, Tashiro M. Isolation of Oseltamivir-Resistant Influenza A/H1N1 Virus of Different Origins in Yokohama City, Japan, during the 2007-2008 Influenza Season. Jpn J Infect Dis 2009. [DOI: 10.7883/yoken.jjid.2009.83] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2023]
Affiliation(s)
| | - Masatsugu Obuchi
- Department of Virology III, National Institute of Infectious Diseases, Japan
| | | | | | - Makoto Ujike
- Department of Virology III, National Institute of Infectious Diseases, Japan
| | - Takato Odagiri
- Department of Virology III, National Institute of Infectious Diseases, Japan
| | - Mami Iwata
- Yokohama City Institute of Health, Japan
| | | | - Masato Tashiro
- Department of Virology III, National Institute of Infectious Diseases, Japan
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Kawakami C, Obuchi M, Saikusa M, Noguchi Y, Ujike M, Odagiri T, Iwata M, Toyozawa T, Tashiro M. Isolation of oseltamivir-resistant influenza A/H1N1 virus of different origins in Yokohama City, Japan, during the 2007-2008 influenza season. Jpn J Infect Dis 2009; 62:83-86. [PMID: 19168972] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
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