Epidemiological and co-infection characteristics of common human coronaviruses in Shanghai, 2015–2020: a retrospective observational study

References

• Dijkman R, van der Hoek L. Human coronaviruses 229E and NL63: close yet still so far. J Formos Med Assoc. 2009 Apr;108(4):270–279.
   PubMed Web of Science ®Google Scholar
• Vabret A, Mourez T, Dina J, et al. Human coronavirus NL63, France. Emerg Infect Dis. 2005 Aug;11(8):1225–1229.
   PubMed Web of Science ®Google Scholar
• Sloots TP, McErlean P, Speicher DJ, et al. Evidence of human coronavirus HKU1 and human bocavirus in Australian children. J Clin Virol. 2006 Jan;35(1):99–102.
   Web of Science ®Google Scholar
• Dijkman R, Jebbink MF, Gaunt E, et al. The dominance of human coronavirus OC43 and NL63 infections in infants. J Clin Virol. 2012 Feb;53(2):135–139.
   Web of Science ®Google Scholar
• van der Hoek L, Pyrc K, Berkhout B. Human coronavirus NL63, a new respiratory virus. FEMS Microbiol Rev. 2006 Sep;30(5):760–773.
   PubMed Web of Science ®Google Scholar
• Hendley JO, Fishburne HB, Gwaltney JM, Jr. Coronavirus infections in working adults. Eight-year study with 229 E and OC 43. Am Rev Respir Dis. 1972 May;105(5):805–811.
   PubMedGoogle Scholar
• Chiu SS, Chan KH, Chu KW, et al. Human coronavirus NL63 infection and other coronavirus infections in children hospitalized with acute respiratory disease in Hong Kong, China. Clin Infect Dis. 2005 Jun 15;40(12):1721–1729.
   Web of Science ®Google Scholar
• Killerby ME, Biggs HM, Haynes A, et al. Human coronavirus circulation in the United States 2014-2017. J Clin Virol. 2018 Apr;101:52–56.
   PubMed Web of Science ®Google Scholar
• Zhang SF, Tuo JL, Huang XB, et al. Epidemiology characteristics of human coronaviruses in patients with respiratory infection symptoms and phylogenetic analysis of HCoV-OC43 during 2010-2015 in Guangzhou. PLoS One. 2018;13(1):e0191789.
   PubMed Web of Science ®Google Scholar
• Jin Y, Song JR, Xie ZP, et al. Prevalence and clinical characteristics of human CoV-HKU1 in children with acute respiratory tract infections in China. J Clin Virol. 2010 Oct;49(2):126–130.
   Web of Science ®Google Scholar
• Cawcutt K, Kalil AC. Pneumonia with bacterial and viral coinfection. Curr Opin Crit Care. 2017 Oct;23(5):385–390.
   Web of Science ®Google Scholar
• Byun WS, Heo SW, Jo G, et al. Is coronavirus disease (COVID-19) seasonal? A critical analysis of empirical and epidemiological studies at global and local scales. Environ Res. 2021 Mar 9;196:110972.
   Web of Science ®Google Scholar
• Ioannidis JPA. Global perspective of COVID-19 epidemiology for a full-cycle pandemic. Eur J Clin Invest. 2020 Dec;50(12):e13423.
   Web of Science ®Google Scholar
• Kissler SM, Tedijanto C, Goldstein E, et al. Projecting the transmission dynamics of SARS-CoV-2 through the postpandemic period. Science. 2020 May 22;368(6493):860–868.
   PubMed Web of Science ®Google Scholar
• Lavine JS, Bjornstad ON, Antia R. Immunological characteristics govern the transition of COVID-19 to endemicity. Science. 2021 Feb 12;371(6530):741–745.
   PubMed Web of Science ®Google Scholar
• Phillips N. The coronavirus is here to stay – here's what that means. Nature. 2021 Feb;590(7846):382–384.
   PubMed Web of Science ®Google Scholar
• Acter T, Uddin N, Das J, et al. Evolution of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) as coronavirus disease 2019 (COVID-19) pandemic: A global health emergency. Sci Total Environ. 2020 Aug 15;730:138996.
   PubMed Web of Science ®Google Scholar
• Liu YC, Kuo RL, Shih SR. COVID-19: The first documented coronavirus pandemic in history. Biomed J. 2020 Aug;43(4):328–333.
   PubMed Web of Science ®Google Scholar
• Anderson EM, Goodwin EC, Verma A, et al. Seasonal human coronavirus antibodies are boosted upon SARS-CoV-2 infection but not associated with protection. Cell. 2021 Apr 1;184(7):1858–1864.e10.
   PubMed Web of Science ®Google Scholar
• Focosi D, Genoni A, Lucenteforte E, et al. Previous humoral immunity to the endemic seasonal alphacoronaviruses NL63 and 229E is associated with worse clinical outcome in COVID-19 and suggests original antigenic sin. Life (Basel). 2021 Apr 1;11(4):298.
   Web of Science ®Google Scholar
• WHO surveillance case definitions for ILI and SARI. 2014.
   Google Scholar
• Deng W, Wang Y, Liu Z, et al. Hemi: a toolkit for illustrating heatmaps. PLoS One. 2014;9(11):e111988.
   PubMed Web of Science ®Google Scholar
• Friedman N, Alter H, Hindiyeh M, et al. Human coronavirus infections in Israel: epidemiology, clinical symptoms and summer seasonality of HCoV-HKU1. Viruses. 2018 Sep 21;10(10):515.
   PubMed Web of Science ®Google Scholar
• Moriyama M, Hugentobler WJ, Iwasaki A. Seasonality of respiratory viral infections. Annu Rev Virol. 2020 Sep 29;7(1):83–101.
   PubMedGoogle Scholar
• Schultz-Cherry S. Viral interference: The case of influenza viruses. J Infect Dis. 2015 Dec 1;212(11):1690–1691.
   PubMed Web of Science ®Google Scholar
• Gaunt ER, Hardie A, Claas EC, et al. Epidemiology and clinical presentations of the four human coronaviruses 229E, HKU1, NL63, and OC43 detected over 3 years using a novel multiplex real-time PCR method. J Clin Microbiol. 2010 Aug;48(8):2940–2947.
   PubMed Web of Science ®Google Scholar
• Boschi C, Hoang VT, Giraud-Gatineau A, et al. Coinfections with SARS-CoV-2 and other respiratory viruses in southeastern France: a matter of sampling time. J Med Virol. 2021 Apr;93(4):1878–1881.
   Web of Science ®Google Scholar
• Olsen SJ, Azziz-Baumgartner E, Budd AP, et al. Decreased influenza activity during the COVID-19 pandemic – United States, Australia, Chile, and South Africa, 2020. MMWR Morb Mortal Wkly Rep. 2020 Sep 18;69(37):1305–1309.
   PubMed Web of Science ®Google Scholar
• Greer RM, McErlean P, Arden KE, et al. Do rhinoviruses reduce the probability of viral co-detection during acute respiratory tract infections? J Clin Virol. 2009 May;45(1):10–15.
   PubMed Web of Science ®Google Scholar
• Brunstein JD, Cline CL, McKinney S, et al. Evidence from multiplex molecular assays for complex multipathogen interactions in acute respiratory infections. J Clin Microbiol. 2008 Jan;46(1):97–102.
   PubMed Web of Science ®Google Scholar
• Wu Q, Xing Y, Shi L, et al. Coinfection and other clinical characteristics of COVID-19 in children. Pediatrics. 2020 Jul;146(1):e20200961.
   Web of Science ®Google Scholar
• Chen X, Liao B, Cheng L, et al. The microbial coinfection in COVID-19. Appl Microbiol Biotechnol. 2020 Sep;104(18):7777–7785.
   PubMed Web of Science ®Google Scholar
• Richardson S, Hirsch JS, Narasimhan M, et al. Presenting characteristics, comorbidities, and outcomes among 5700 patients hospitalized with COVID-19 in the New York City area. JAMA. 2020 May 26;323(20):2052–2059.
   PubMed Web of Science ®Google Scholar
• Chaung J, Chan D, Pada S, et al. Coinfection with COVID-19 and coronavirus HKU1-The critical need for repeat testing if clinically indicated. J Med Virol. 2020 Oct;92(10):1785–1786.
   PubMed Web of Science ®Google Scholar
• Nowak MD, Sordillo EM, Gitman MR, et al. Coinfection in SARS-CoV-2 infected patients: where are influenza virus and rhinovirus/enterovirus? J Med Virol. 2020 Oct;92(10):1699–1700.
   PubMed Web of Science ®Google Scholar
• Smith AM. Host-pathogen kinetics during influenza infection and coinfection: insights from predictive modeling. Immunol Rev. 2018 Sep;285(1):97–112.
   PubMed Web of Science ®Google Scholar
• Goto H, Ihira H, Morishita K, et al. Enhanced growth of influenza A virus by coinfection with human parainfluenza virus type 2. Med Microbiol Immunol. 2016 Jun;205(3):209–218.
   PubMed Web of Science ®Google Scholar
• Grunberg M, Sno R, Adhin MR. Epidemiology of respiratory viruses in patients with severe acute respiratory infections and influenza-like illness in Suriname. Influenza Other Respir Viruses. 2021 Jan;15(1):72–80.
   Web of Science ®Google Scholar