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Cao L, Lu Y, Xie C, Chen Y, Liang L, Zhou T, Zeng Z, Wen C, Di B, Li B, Li K, Zhang Z. Emerging triple-reassortant influenza C virus with household-associated infection during an influenza A(H3N2) outbreak, China, 2022. Emerg Microbes Infect 2023; 12:2175593. [PMID: 36881645 PMCID: PMC10013421 DOI: 10.1080/22221751.2023.2175593] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/09/2023]
Abstract
Recent research have shown that influenza C virus (ICV) has a possible higher clinical impact than previously thought. But knowledge about ICV is limited compared with influenza A and B viruses, due to poor systematic surveillance and inability to propagate. Herein, a case infected with triple reassortant ICV was identified during an influenza A(H3N2) outbreak, which was the first report of ICV infection in mainland China. Phylogenetic analysis showed that this ICV was triple reassortant. Serological evidence revealed that the index case might be related to family-clustering infection. Therefore, it is essential to heighten surveillance for the prevalence and variation of ICV in China, during the COVID-19 pandemic.
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Affiliation(s)
- Lan Cao
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Ying Lu
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Chaojun Xie
- Huadu District Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Yiyun Chen
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Lijun Liang
- Guangdong Provincial Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Tengfei Zhou
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Ziyi Zeng
- Huadu District Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Chen Wen
- Huadu District Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Biao Di
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Baisheng Li
- Guangdong Provincial Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Kuibiao Li
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, People's Republic of China
| | - Zhoubin Zhang
- Institute of Public Health, Guangzhou Medical University and Guangzhou Center for Disease Control and Prevention, Guangzhou, People's Republic of China
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2
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Sreenivasan CC, Liu R, Gao R, Guo Y, Hause BM, Thomas M, Naveed A, Clement T, Rausch D, Christopher-Hennings J, Nelson E, Druce J, Zhao M, Kaushik RS, Li Q, Sheng Z, Wang D, Li F. Influenza C and D Viruses Demonstrated a Differential Respiratory Tissue Tropism in a Comparative Pathogenesis Study in Guinea Pigs. J Virol 2023; 97:e0035623. [PMID: 37199648 PMCID: PMC10308911 DOI: 10.1128/jvi.00356-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2023] [Accepted: 04/26/2023] [Indexed: 05/19/2023] Open
Abstract
Influenza C virus (ICV) is increasingly associated with community-acquired pneumonia (CAP) in children and its disease severity is worse than the influenza B virus, but similar to influenza A virus associated CAP. Despite the ubiquitous infection landscape of ICV in humans, little is known about its replication and pathobiology in animals. The goal of this study was to understand the replication kinetics, tissue tropism, and pathogenesis of human ICV (huICV) in comparison to the swine influenza D virus (swIDV) in guinea pigs. Intranasal inoculation of both viruses did not cause clinical signs, however, the infected animals shed virus in nasal washes. The huICV replicated in the nasal turbinates, soft palate, and trachea but not in the lungs while swIDV replicated in all four tissues. A comparative analysis of tropism and pathogenesis of these two related seven-segmented influenza viruses revealed that swIDV-infected animals exhibited broad tissue tropism with an increased rate of shedding on 3, 5, and 7 dpi and high viral loads in the lungs compared to huICV. Seroconversion occurred late in the huICV group at 14 dpi, while swIDV-infected animals seroconverted at 7 dpi. Guinea pigs infected with huICV exhibited mild to moderate inflammatory changes in the epithelium of the soft palate and trachea, along with mucosal damage and multifocal alveolitis in the lungs. In summary, the replication kinetics and pathobiological characteristics of ICV in guinea pigs agree with the clinical manifestation of ICV infection in humans, and hence guinea pigs could be used to study these distantly related influenza viruses. IMPORTANCE Similar to influenza A and B, ICV infections are seen associated with bacterial and viral co-infections which complicates the assessment of its real clinical significance. Further, the antivirals against influenza A and B viruses are ineffective against ICV which mandates the need to study the pathobiological aspects of this virus. Here we demonstrated that the respiratory tract of guinea pigs possesses specific viral receptors for ICV. We also compared the replication kinetics and pathogenesis of huICV and swIDV, as these viruses share 50% sequence identity. The tissue tropism and pathology associated with huICV in guinea pigs are analogous to the mild respiratory disease caused by ICV in humans, thereby demonstrating the suitability of guinea pigs to study ICV. Our comparative analysis revealed that huICV and swIDV replicated differentially in the guinea pigs suggesting that the type-specific genetic differences can result in the disparity of the viral shedding and tissue tropism.
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Affiliation(s)
- Chithra C. Sreenivasan
- Department of Veterinary Science, M. H. Gluck Equine Research Center, University of Kentucky, Lexington, Kentucky, USA
| | - Runxia Liu
- Department of Biology and Microbiology, South Dakota State University, Brookings, South Dakota, USA
| | - Rongyuan Gao
- Department of Biology and Microbiology, South Dakota State University, Brookings, South Dakota, USA
| | - Yicheng Guo
- Zuckerman Mind Brian Behavior Institute, Columbia University, New York, New York, USA
| | - Ben M. Hause
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, South Dakota, USA
| | - Milton Thomas
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, South Dakota, USA
| | - Ahsan Naveed
- Department of Veterinary Science, M. H. Gluck Equine Research Center, University of Kentucky, Lexington, Kentucky, USA
| | - Travis Clement
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, South Dakota, USA
| | - Dana Rausch
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, South Dakota, USA
| | - Jane Christopher-Hennings
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, South Dakota, USA
| | - Eric Nelson
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, South Dakota, USA
| | - Julian Druce
- Virology Section, Victorian Infectious Diseases Reference Laboratory, Melbourne, Victoria, Australia
| | - Miaoyun Zhao
- Nebraska Center for Virology, University of Nebraska—Lincoln, Lincoln, Nebraska, USA
- School of Biological Sciences, University of Nebraska—Lincoln, Lincoln, Nebraska, USA
| | - Radhey S. Kaushik
- Department of Biology and Microbiology, South Dakota State University, Brookings, South Dakota, USA
| | - Qingsheng Li
- Nebraska Center for Virology, University of Nebraska—Lincoln, Lincoln, Nebraska, USA
- School of Biological Sciences, University of Nebraska—Lincoln, Lincoln, Nebraska, USA
| | - Zizhang Sheng
- Zuckerman Mind Brian Behavior Institute, Columbia University, New York, New York, USA
| | - Dan Wang
- Department of Veterinary Science, M. H. Gluck Equine Research Center, University of Kentucky, Lexington, Kentucky, USA
| | - Feng Li
- Department of Veterinary Science, M. H. Gluck Equine Research Center, University of Kentucky, Lexington, Kentucky, USA
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3
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Daniels RS, Tse H, Ermetal B, Xiang Z, Jackson DJ, Guntoro J, Nicod J, Stewart A, Cross KJ, Hussain S, McCauley JW, Lo J. Molecular Characterization of Influenza C Viruses from Outbreaks in Hong Kong SAR, China. J Virol 2020; 94:e01051-20. [PMID: 32817211 PMCID: PMC7565627 DOI: 10.1128/jvi.01051-20] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Accepted: 08/10/2020] [Indexed: 02/06/2023] Open
Abstract
In 2014, the Centre for Health Protection in Hong Kong introduced screening for influenza C virus (ICV) as part of its routine surveillance for infectious agents in specimens collected from patients presenting with symptoms of respiratory viral infection, including influenza-like illness (ILI). A retrospective analysis of ICV detections up to week 26 of 2019 revealed persistent low-level circulation, with two outbreaks having occurred in the winters of 2015 to 2016 and 2017 to 2018. These outbreaks occurred at the same time as, and were dwarfed by, seasonal epidemics of influenza types A and B. Gene sequencing studies on stored ICV-positive clinical specimens from the two outbreaks have shown that the hemagglutinin-esterase (HE) genes of the viruses fall into two of the six recognized genetic lineages (represented by C/Kanagawa/1/76 and C/São Paulo/378/82), with there being significant genetic drift compared to earlier circulating viruses within both lineages. The location of a number of encoded amino acid substitutions in hemagglutinin-esterase fusion (HEF) glycoproteins suggests that antigenic drift may also have occurred. Observations of ICV outbreaks in other countries, with some of the infections being associated with severe disease, indicates that ICV infection has the potential to have significant clinical and health care impacts in humans.IMPORTANCE Influenza C virus infection of humans is common, and reinfection can occur throughout life. While symptoms are generally mild, severe disease cases have been reported, but knowledge of the virus is limited, as little systematic surveillance for influenza C virus is conducted and the virus cannot be studied by classical virologic methods because it cannot be readily isolated in laboratories. A combination of systematic surveillance in Hong Kong SAR, China, and new gene sequencing methods has been used in this study to assess influenza C virus evolution and provides evidence for a 2-year cycle of disease outbreaks. The results of studies like that reported here are key to developing an understanding of the impact of influenza C virus infection in humans and how virus evolution might be associated with epidemics.
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MESH Headings
- Adolescent
- Adult
- Aged
- Amino Acid Substitution
- Child
- Child, Preschool
- Disease Outbreaks
- Epidemiological Monitoring
- Female
- Gene Expression
- Hemagglutinins, Viral/chemistry
- Hemagglutinins, Viral/genetics
- Hemagglutinins, Viral/metabolism
- High-Throughput Nucleotide Sequencing
- Hong Kong/epidemiology
- Humans
- Infant
- Influenza, Human/epidemiology
- Influenza, Human/pathology
- Influenza, Human/virology
- Gammainfluenzavirus/enzymology
- Gammainfluenzavirus/genetics
- Male
- Middle Aged
- Models, Molecular
- Molecular Epidemiology
- Mutation
- Phylogeny
- Protein Conformation, alpha-Helical
- Protein Conformation, beta-Strand
- Retrospective Studies
- Viral Fusion Proteins/chemistry
- Viral Fusion Proteins/genetics
- Viral Fusion Proteins/metabolism
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Affiliation(s)
- Rodney S Daniels
- Worldwide Influenza Centre (a WHO Collaborating Centre for Reference and Research on Influenza), The Francis Crick Institute, London, United Kingdom
| | - Herman Tse
- Centre for Health Protection, Department of Health, Hong Kong SAR, China
| | - Burcu Ermetal
- Worldwide Influenza Centre (a WHO Collaborating Centre for Reference and Research on Influenza), The Francis Crick Institute, London, United Kingdom
| | - Zheng Xiang
- Worldwide Influenza Centre (a WHO Collaborating Centre for Reference and Research on Influenza), The Francis Crick Institute, London, United Kingdom
| | - Deborah J Jackson
- Advanced Sequencing Facility, The Francis Crick Institute, London, United Kingdom
| | - Jeremy Guntoro
- Advanced Sequencing Facility, The Francis Crick Institute, London, United Kingdom
| | - Jérôme Nicod
- Advanced Sequencing Facility, The Francis Crick Institute, London, United Kingdom
| | - Aengus Stewart
- Bioinformatics & Biostatistics, The Francis Crick Institute, London, United Kingdom
| | - Karen J Cross
- Worldwide Influenza Centre (a WHO Collaborating Centre for Reference and Research on Influenza), The Francis Crick Institute, London, United Kingdom
| | - Saira Hussain
- Worldwide Influenza Centre (a WHO Collaborating Centre for Reference and Research on Influenza), The Francis Crick Institute, London, United Kingdom
| | - John W McCauley
- Worldwide Influenza Centre (a WHO Collaborating Centre for Reference and Research on Influenza), The Francis Crick Institute, London, United Kingdom
| | - Janice Lo
- Centre for Health Protection, Department of Health, Hong Kong SAR, China
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4
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Matsuzaki Y, Shimotai Y, Kadowaki Y, Sugawara K, Hongo S, Mizuta K, Nishimura H. Antigenic changes among the predominantly circulating C/Sao Paulo lineage strains of influenza C virus in Yamagata, Japan, between 2015 and 2018. INFECTION, GENETICS AND EVOLUTION : JOURNAL OF MOLECULAR EPIDEMIOLOGY AND EVOLUTIONARY GENETICS IN INFECTIOUS DISEASES 2020; 81:104269. [PMID: 32135195 DOI: 10.1016/j.meegid.2020.104269] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Revised: 02/10/2020] [Accepted: 02/29/2020] [Indexed: 11/29/2022]
Abstract
Influenza C virus is a pathogen that causes acute respiratory illness in children and results in the hospitalization of infants. The antigenicity of the hemagglutinin esterase (HE) glycoprotein is highly stable, and it is not yet known whether antigenic changes contribute to the worldwide transmission and the occurrence of outbreaks of influenza C virus. Here, we performed antigenic analysis of 84 influenza C viruses isolated in Yamagata, Japan, during a 4-year period from 2015 to 2018 and analyzed sequence data for strains of the virus from Japan and many other parts of the world. Antigenic and phylogenetic analyses revealed that 83 strains belonged to the C/Sao Paulo lineage, and two sublineage strains, the Aichi99 sublineage and Victoria2012 sublineage, cocirculated between 2016 and 2018. Aichi99 sublineage strains exhibiting decreased reactivity with the monoclonal antibody YA3 became predominant after 2016, and these strains possessed the K190N mutation. Residue 190 is located in the 190-loop on the top side of the HE protein within a region that is known to show variation that does not impair the biological activity of the protein. The Aichi99 sublineage strains possessing the K190N mutation were detected after 2012 in Europe, Australia, the USA, and Asia as well as Japan. These observations suggest that antigenic variants with K190N mutations have circulated extensively around the world and caused outbreaks in Japan between 2016 and 2018. Our study indicated that the 190-loop is an important antigenic region, and the results suggested that changes in the 190-loop have contributed to the extensive transmission of the virus.
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Affiliation(s)
- Yoko Matsuzaki
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, 2-2-2 Iida-Nishi, Yamagata, Yamagata 990-9585, Japan.
| | - Yoshitaka Shimotai
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, 2-2-2 Iida-Nishi, Yamagata, Yamagata 990-9585, Japan
| | - Yoko Kadowaki
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, 2-2-2 Iida-Nishi, Yamagata, Yamagata 990-9585, Japan
| | - Kanetsu Sugawara
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, 2-2-2 Iida-Nishi, Yamagata, Yamagata 990-9585, Japan
| | - Seiji Hongo
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, 2-2-2 Iida-Nishi, Yamagata, Yamagata 990-9585, Japan
| | - Katsumi Mizuta
- Department of Microbiology, Yamagata Prefectural Institute of Public Health, Yamagata, Yamagata 990-0031, Japan
| | - Hidekazu Nishimura
- Virus Research Center, Clinical Research Division, Sendai Medical Center, Sendai 983-8520, Japan
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5
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Liu R, Sheng Z, Lin T, Sreenivasan C, Gao R, Thomas M, Druce J, Hause BM, Kaushik RS, Li F, Wang D. Genetic and antigenic characteristics of a human influenza C virus clinical isolate. J Med Virol 2020; 92:161-166. [PMID: 31498448 PMCID: PMC6901781 DOI: 10.1002/jmv.25589] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2019] [Accepted: 09/02/2019] [Indexed: 12/24/2022]
Abstract
Unlike influenza A and B viruses that infect humans and cause severe diseases in seasonal epidemics, influenza C virus (ICV) is a ubiquitous childhood pathogen typically causing mild respiratory symptoms. ICV infections are rarely diagnosed and less research has been performed on it despite the virus being capable of causing severe disease in infants. Here we report on the isolation of a human ICV from a child with acute respiratory disease, provisionally designated C/Victoria/2/2012 (C/Vic). The full-length genome sequence and phylogenetic analysis revealed that the hemagglutinin-esterase-fusion (HEF) gene of C/Vic was derived from C/Sao Paulo lineage, while its PB2 and P3 genes evolved separately from all characterized historical ICV isolates. Furthermore, antigenic analysis using the hemagglutination inhibition (HI) assay found that 1947 C/Taylor virus (C/Taylor lineage) was antigenically more divergent from1966 C/Johannesburg (C/Aichi lineage) than from 2012 C/Vic. Structure modeling of the HEF protein identified two mutations in the 170-loop of the HEF protein around the receptor-binding pocket as a possible antigenic determinant responsible for the discrepant HI results. Taken together, results of our studies reveal novel insights into the genetic and antigenic evolution of ICV and provide a framework for further investigation of its molecular determinants of antigenic property and replication.
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Affiliation(s)
- Runxia Liu
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, 57007, USA
- BioSNTR, Brookings, SD, 57007, USA
| | - Zizhang Sheng
- Department of Biochemistry and Molecular Biophysics, Department of Systems Biology, Columbia University, New York, NY, 10032, USA
| | - Tao Lin
- Department of Chemistry and Biochemistry, South Dakota State University, Brookings, SD, 57007, USA
| | - Chithra Sreenivasan
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, 57007, USA
- BioSNTR, Brookings, SD, 57007, USA
| | - Rongruan Gao
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, 57007, USA
- BioSNTR, Brookings, SD, 57007, USA
| | - Milton Thomas
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, 57007, USA
| | - Julian Druce
- Victorian Infectious Diseases Reference Laboratory, Melbourne, Victoria, Australia
| | - Ben M. Hause
- Cambridge Technologies Inc., Worthington, 56187, USA
| | - Radhey S. Kaushik
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, 57007, USA
| | - Feng Li
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA
- Department of Veterinary and Biomedical Sciences, South Dakota State University, Brookings, SD, 57007, USA
- BioSNTR, Brookings, SD, 57007, USA
| | - Dan Wang
- Department of Biology and Microbiology, South Dakota State University, Brookings, SD, 57007, USA
- BioSNTR, Brookings, SD, 57007, USA
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6
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Sederdahl BK, Williams JV. Epidemiology and Clinical Characteristics of Influenza C Virus. Viruses 2020; 12:E89. [PMID: 31941041 PMCID: PMC7019359 DOI: 10.3390/v12010089] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/30/2019] [Revised: 01/06/2020] [Accepted: 01/07/2020] [Indexed: 12/14/2022] Open
Abstract
Influenza C virus (ICV) is a common yet under-recognized cause of acute respiratory illness. ICV seropositivity has been found to be as high as 90% by 7-10 years of age, suggesting that most people are exposed to ICV at least once during childhood. Due to difficulty detecting ICV by cell culture, epidemiologic studies of ICV likely have underestimated the burden of ICV infection and disease. Recent development of highly sensitive RT-PCR has facilitated epidemiologic studies that provide further insights into the prevalence, seasonality, and course of ICV infection. In this review, we summarize the epidemiology and clinical characteristics of ICV.
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Affiliation(s)
- Bethany K. Sederdahl
- Department of Pediatrics, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213, USA;
| | - John V. Williams
- Department of Pediatrics, University of Pittsburgh School of Medicine, Pittsburgh, PA 15213, USA;
- Institute for Infection, Inflammation, and Immunity in Children (i4Kids), University of Pittsburgh, Pittsburgh, PA 15224, USA
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7
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Jelley L, Levy A, Deng YM, Spirason N, Lang J, Buettner I, Druce J, Blyth C, Effler P, Smith D, Barr IG. Influenza C infections in Western Australia and Victoria from 2008 to 2014. Influenza Other Respir Viruses 2016; 10:455-461. [PMID: 27373693 PMCID: PMC5059950 DOI: 10.1111/irv.12402] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/08/2016] [Indexed: 11/29/2022] Open
Abstract
BACKGROUND Influenza C is usually considered a minor cause of respiratory illness in humans with many infections being asymptomatic or clinically mild. Large outbreaks can occur periodically resulting in significant morbidity. OBJECTIVES This study aimed at analyzing the available influenza C clinical samples from two widely separated states of Australia, collected over a 7-year period and to compare them with influenza C viruses detected in other parts of the world in recent years. PATIENTS/METHODS Between 2008 and 2014, 86 respiratory samples that were influenza C positive were collected from subjects with influenza-like illness living in the states of Victoria and Western Australia. A battery of other respiratory viruses were also tested for in these influenza C-positive samples. Virus isolation was attempted on all of these clinical samples, and gene sequencing was performed on all influenza C-positive cultures. RESULTS AND CONCLUSIONS Detections of influenza C in respiratory samples were sporadic in most years studied, but higher rates of infection occurred in 2012 and 2014. Many of the patients with influenza C had coinfections with other respiratory pathogens. Phylogenetic analysis of the full-length hemagglutinin-esterase-fusion (HE) gene found that most of the viruses grouped in the C/Sao Paulo/378/82 clade with the remainder grouping in the C/Kanagawa/1/76 clade.
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Affiliation(s)
- Lauren Jelley
- WHO Collaborating Centre for Reference and Research, Melbourne, Vic., Australia
| | - Avram Levy
- PathWest Laboratory Medicine WA, Nedlands, WA, Australia
- School of Pathology and Laboratory Medicine, University of Western Australia, Perth, WA, Australia
| | - Yi-Mo Deng
- WHO Collaborating Centre for Reference and Research, Melbourne, Vic., Australia
| | - Natalie Spirason
- WHO Collaborating Centre for Reference and Research, Melbourne, Vic., Australia
| | - Jurissa Lang
- PathWest Laboratory Medicine WA, Nedlands, WA, Australia
| | - Iwona Buettner
- WHO Collaborating Centre for Reference and Research, Melbourne, Vic., Australia
| | - Julian Druce
- Victorian Infectious Disease Reference Laboratory, Melbourne, Vic., Australia
| | - Chris Blyth
- School of Paediatrics and Child Health, University of Western Australia, Perth, WA, Australia
- Princess Margaret Hospital for Children, Subiaco, Perth, WA, Australia
- Wesfarmers Centre for Vaccines and infectious Diseases, Telethon Kids Institute, Perth, WA, Australia
| | - Paul Effler
- School of Pathology and Laboratory Medicine, University of Western Australia, Perth, WA, Australia
- School of Paediatrics and Child Health, University of Western Australia, Perth, WA, Australia
- Communicable Disease Control Directorate, Department of Health, Shenton Park, WA, Australia
| | - David Smith
- PathWest Laboratory Medicine WA, Nedlands, WA, Australia
- School of Pathology and Laboratory Medicine, University of Western Australia, Perth, WA, Australia
| | - Ian G Barr
- WHO Collaborating Centre for Reference and Research, Melbourne, Vic., Australia.
- Department of Microbiology and Immunology, University of Melbourne, Melbourne, Vic., Australia.
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8
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Matsuzaki Y, Sugawara K, Furuse Y, Shimotai Y, Hongo S, Oshitani H, Mizuta K, Nishimura H. Genetic Lineage and Reassortment of Influenza C Viruses Circulating between 1947 and 2014. J Virol 2016; 90:8251-65. [PMID: 27384661 PMCID: PMC5008092 DOI: 10.1128/jvi.00969-16] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2016] [Accepted: 06/28/2016] [Indexed: 11/20/2022] Open
Abstract
Since influenza C virus was first isolated in 1947, the virus has been only occasionally isolated by cell culture; there are only four strains for which complete genome sequences are registered. Here, we analyzed a total of 106 complete genomes, ranging from the first isolate from 1947 to recent isolates from 2014, to determine the genetic lineages of influenza C virus, the reassortment events, and the rates of nucleotide substitution. The results showed that there are six lineages, named C/Taylor, C/Mississippi, C/Aichi, C/Yamagata, C/Kanagawa, and C/Sao Paulo. They contain both antigenic and genetic lineages of the hemagglutinin-esterase (HE) gene, and the internal genes PB2, PB1, P3, NP, M, and NS are divided into two major lineages, a C/Mississippi/80-related lineage and a C/Yamagata/81-related lineage. Reassortment events were found over the entire period of 68 years. Several outbreaks of influenza C virus between 1990 and 2014 in Japan consisted of reassortant viruses, suggesting that the genomic constellation is related to influenza C virus epidemics. The nucleotide sequences were highly homologous to each other. The minimum percent identity between viruses ranged from 91.1% for the HE gene to 96.1% for the M gene, and the rate of nucleotide substitution for the HE gene was the highest, at 5.20 × 10(-4) substitutions/site/year. These results indicate that reassortment is an important factor that increases the genetic diversity of influenza C virus, resulting in its ability to prevail in humans. IMPORTANCE Influenza C virus is a pathogen that causes acute respiratory illness in children and results in hospitalization of infants. We previously demonstrated (Y. Matsuzaki et al., J Clin Virol 61:87-93, 2014, http://dx.doi.org/10.1016/j.jcv.2014.06.017) that periodic epidemics of this virus occurred in Japan between 1996 and 2014 and that replacement of the dominant antigenic group occurred every several years as a result of selection by herd immunity. However, the antigenicity of the HE glycoprotein is highly stable, and antigenic drift has not occurred for at least 30 years. Here, we analyzed a total of 106 complete genomes spanning 68 years for the first time, and we found that influenza C viruses are circulating worldwide while undergoing reassortment as well as selection by herd immunity, resulting in an increased ability to prevail in humans. The results presented in this study contribute to the understanding of the evolution, including reassortment events, underlying influenza C virus epidemics.
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Affiliation(s)
- Yoko Matsuzaki
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, Yamagata, Japan
| | - Kanetsu Sugawara
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, Yamagata, Japan
| | - Yuki Furuse
- Department of Virology, Tohoku University Graduate School of Medicine, Sendai, Japan
| | - Yoshitaka Shimotai
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, Yamagata, Japan
| | - Seiji Hongo
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, Yamagata, Japan
| | - Hitoshi Oshitani
- Department of Virology, Tohoku University Graduate School of Medicine, Sendai, Japan
| | - Katsumi Mizuta
- Department of Microbiology, Yamagata Prefectural Institute of Public Health, Yamagata, Japan
| | - Hidekazu Nishimura
- Virus Research Center, Clinical Research Division, Sendai Medical Center, Miyagi, Japan
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Odagiri T, Matsuzaki Y, Okamoto M, Suzuki A, Saito M, Tamaki R, Lupisan SP, Sombrero LT, Hongo S, Oshitani H. Isolation and characterization of influenza C viruses in the Philippines and Japan. J Clin Microbiol 2015; 53:847-58. [PMID: 25552361 PMCID: PMC4390655 DOI: 10.1128/jcm.02628-14] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2014] [Accepted: 12/06/2014] [Indexed: 11/20/2022] Open
Abstract
From November 2009 to December 2013 in the Philippines, 15 influenza C viruses were isolated, using MDCK cells, from specimens obtained from children with severe pneumonia and influenza-like illness (ILI). This is the first report of influenza C virus isolation in the Philippines. In addition, from January 2008 to December 2013, 7 influenza C viruses were isolated from specimens that were obtained from children with acute respiratory illness (ARI) in Sendai city, Japan. Antigenic analysis with monoclonal antibodies to the hemagglutinin-esterase (HE) glycoprotein showed that 19 strains (12 from the Philippines and 7 from Japan) were similar to the influenza C virus reference strain C/Sao Paulo/378/82 (SP82). Phylogenetic analysis of the HE gene showed that the strains from the Philippines and Japan formed distinct clusters within an SP82-related lineage. The clusters that included the Philippine and Japanese strains were shown to have diverged from a common ancestor around 1993. In addition, phylogenetic analysis of the internal genes showed that all strains isolated in the Philippines and Japan had emerged through reassortment events. The composition of the internal genes of the Philippine strains was different from that of the Japanese strains, although all strains were classified into an SP82-related lineage by HE gene sequence analysis. These observations suggest that the influenza C viruses analyzed here had emerged through different reassortment events; however, the time and place at which the reassortment events occurred were not determined.
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Affiliation(s)
- Takashi Odagiri
- Department of Virology, Tohoku University Graduate School of Medicine, Aoba-ku, Sendai, Miyagi, Japan
| | - Yoko Matsuzaki
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, Iida-Nishi, Yamagata, Japan
| | - Michiko Okamoto
- Department of Virology, Tohoku University Graduate School of Medicine, Aoba-ku, Sendai, Miyagi, Japan
| | - Akira Suzuki
- Department of Virology, Tohoku University Graduate School of Medicine, Aoba-ku, Sendai, Miyagi, Japan
| | - Mariko Saito
- Department of Virology, Tohoku University Graduate School of Medicine, Aoba-ku, Sendai, Miyagi, Japan RITM-Tohoku Research Collaborating Center for Emerging and Reemerging Diseases, Muntinlupa City, Philippines
| | - Raita Tamaki
- Department of Virology, Tohoku University Graduate School of Medicine, Aoba-ku, Sendai, Miyagi, Japan RITM-Tohoku Research Collaborating Center for Emerging and Reemerging Diseases, Muntinlupa City, Philippines
| | - Socorro P Lupisan
- Research Institute for Tropical Medicine, Muntinlupa City, Philippines
| | - Lydia T Sombrero
- Research Institute for Tropical Medicine, Muntinlupa City, Philippines
| | - Seiji Hongo
- Department of Infectious Diseases, Yamagata University Faculty of Medicine, Iida-Nishi, Yamagata, Japan
| | - Hitoshi Oshitani
- Department of Virology, Tohoku University Graduate School of Medicine, Aoba-ku, Sendai, Miyagi, Japan
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10
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Tanaka S, Aoki Y, Matoba Y, Yahagi K, Mizuta K, Itagaki T, Katsushima F, Katsushima Y, Matsuzaki Y. The dominant antigenic group of influenza C infections changed from c/Sao Paulo/378/82-lineage to c/Kanagawa/1/76-lineage in Yamagata, Japan, in 2014. Jpn J Infect Dis 2015; 68:166-8. [PMID: 25797148 DOI: 10.7883/yoken.jjid.2014.520] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Affiliation(s)
- Shizuka Tanaka
- Department of Microbiology, Yamagata Prefectural Institute of Public Health
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