Genomic analysis of canine pneumoviruses and canine respiratory coronavirus from New Zealand

References

• An D-J, Jeong W, Yoon SH, Jeoung H-Y, Kim H-J, Park B-K. Genetic analysis of canine group 2 coronavirus in Korean dogs. Veterinary Microbiology 141, 46–52, 2010. https://doi.org/10.1016/j.vetmic.2009.09.002
   PubMed Web of Science ®Google Scholar
• *Anonymous. Stay on Top of Canine Cough. https://vetcouncil.org.nz/Web/Web/News/Articles/2022/Stay_on_top_of_canine_cough.aspx (accessed 7 March 2024). Veterinary Council of New Zealand, Wellington, NZ, 2022
   Google Scholar
• *Anonymous. Bringing Cats and Dogs to New Zealand. https://www.mpi.govt.nz/bring-send-to-nz/pets-travelling-to-nz/bringing-cats-and-dogs-to-nz/ (accessed 27 February 2024). Ministry for Primary Industries, Wellington, NZ, 2023
   Google Scholar
• Chalker VJ, Owen WM, Paterson C, Barker E, Brooks H, Rycroft AN, Brownlie J. Mycoplasmas associated with canine infectious respiratory disease. Microbiology 150, 3491–7, 2004. https://doi.org/10.1099/mic.0.26848-0
   PubMed Web of Science ®Google Scholar
• Chalker VJ, Brooks HW, Brownlie J. The association of Streptococcus equi subsp. zooepidemicus with canine infectious respiratory disease. Veterinary Microbiology 95, 149–56, 2003. https://doi.org/10.1016/S0378-1135(03)00155-X
   PubMed Web of Science ®Google Scholar
• Day MJ, Carey S, Clercx C, Kohn B, MarsilIo F, Thiry E, Freyburger L, Schulz B, Walker DJ. Aetiology of canine infectious respiratory disease complex and prevalence of its pathogens in Europe. Journal of Comparative Pathology 176, 86–108, 2020. https://doi.org/10.1016/j.jcpa.2020.02.005
   PubMed Web of Science ®Google Scholar
• Decaro N, Desario C, Elia G, Mari V, Lucente MS, Cordioli P, Colaianni ML, Martella V, Buonavoglia C. Serological and molecular evidence that canine respiratory coronavirus is circulating in Italy. Veterinary Microbiology 121, 225–30, 2007. https://doi.org/10.1016/j.vetmic.2006.12.001
   PubMed Web of Science ®Google Scholar
• Decaro N, Pinto P, Mari V, Larocca V, Colaianni M, Losurdo M, Occhiogrosso L, Martella V, Buonavoglia C. Canine infectious respiratory disease associated to canine pneumovirus infection. Veterinaria (Cremona) 28, 7–12, 2014a
   Google Scholar
• Decaro N, Pinto P, Mari V, Elia G, Larocca V, Camero M, Terio V, Losurdo M, Martella V, Buonavoglia C. Full-genome analysis of a canine pneumovirus causing acute respiratory disease in dogs, Italy. PLoS One 9, e85220, 2014b. https://doi.org/10.1371/journal.pone.0085220
   PubMed Web of Science ®Google Scholar
• Dyer KD, Schellens IM, Bonville CA, Martin BV, Domachowske JB, Rosenberg HF. Efficient replication of pneumonia virus of mice (PVM) in a mouse macrophage cell line. Virology Journal 4, 48, 2007. https://doi.org/10.1186/1743-422X-4-48
   PubMed Web of Science ®Google Scholar
• Erles K, Toomey C, Brooks HW, Brownlie J. Detection of a group 2 coronavirus in dogs with canine infectious respiratory disease. Virology 310, 216–23, 2003. https://doi.org/10.1016/S0042-6822(03)00160-0
   PubMed Web of Science ®Google Scholar
• Erles K, Shiu K-B, Brownlie J. Isolation and sequence analysis of canine respiratory coronavirus. Virus Research 124, 78–87, 2007. https://doi.org/10.1016/j.virusres.2006.10.004
   PubMed Web of Science ®Google Scholar
• *Freshney RI. Culture of specific cell types. In: Freshney RI (ed). Culture of Animal Cells: a Manual of Basic Technique. 5th Edtn. John Wiley & Sons Inc. Hoboken, NJ, USA, 2005. https://doi.org/10.1002/0471747599.cac023
   Google Scholar
• Geng Y, Wang Y. Stability and transmissibility of SARS-CoV-2 in the environment. Journal of Medical Virology 95, e28103, 2023. https://doi.org/10.1002/jmv.28103
   PubMed Web of Science ®Google Scholar
• Glineur SF, Renshaw RW, Percopo CM, Dyer KD, Dubovi EJ, Domachowske JB, Rosenberg HF. Novel pneumoviruses (PnVs): evolution and inflammatory pathology. Virology 443, 257–64, 2013. https://doi.org/10.1016/j.virol.2013.05.011
   PubMed Web of Science ®Google Scholar
• Hofmann MA, Chang RY, Ku S, Brian DA. Leader-mRNA junction sequences are unique for each subgenomic mRNA species in the bovine coronavirus and remain so throughout persistent infection. Virology 196, 163–71, 1993. https://doi.org/10.1006/viro.1993.1464
   PubMed Web of Science ®Google Scholar
• Hong S, Lee H-Y, Kim O. Detection of canine respiratory coronavirus from dogs with respiratory disease. Journal of Biomedical Research 16, 19–22, 2015. https://doi.org/10.12729/jbr.2015.16.1.019
   Google Scholar
• Jones DT, Taylor WR, Thornton JM. The rapid generation of mutation data matrices from protein sequences. Bioinformatics (Oxford, England) 8, 275–82, 1992. https://doi.org/10.1093/bioinformatics/8.3.275
   Web of Science ®Google Scholar
• Julenius K, Mølgaard A, Gupta R, Brunak S. Prediction, conservation analysis, and structural characterization of mammalian mucin-type O-glycosylation sites. Glycobiology 15, 153–64, 2005. https://doi.org/10.1093/glycob/cwh151
   PubMed Web of Science ®Google Scholar
• Kapoor A, Simmonds P, Gerold G, Qaisar N, Jain K, Henriquez JA, Firth C, Hirschberg DL, Rice CM, Shields S, et al. Characterization of a canine homolog of hepatitis C virus. Proceedings of the National Academy of Sciences of the United States of America 108, 11608–13, 2011. https://doi.org/10.1073/pnas.1101794108
   PubMed Web of Science ®Google Scholar
• Kapoor A, Mehta N, Dubovi EJ, Simmonds P, Govindasamy L, Medina JL, Street C, Shields S, Lipkin WI. Characterization of novel canine bocaviruses and their association with respiratory disease. Journal of General Virology 93, 341–6, 2012. https://doi.org/10.1099/vir.0.036624-0
   PubMed Web of Science ®Google Scholar
• Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, Cooper A, Markowitz S, Duran C, et al. Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics (Oxford, England) 28, 1647–9, 2012. https://doi.org/10.1093/bioinformatics/bts199
   PubMed Web of Science ®Google Scholar
• Kumagai A, Kawauchi K, Andoh K, Hatama S. Sequence and unique phylogeny of G genes of bovine respiratory syncytial viruses circulating in Japan. Journal of Veterinary Diagnostic Investigation 33, 162–6, 2021. https://doi.org/10.1177/1040638720975364
   PubMed Web of Science ®Google Scholar
• Lehners N, Tabatabai J, Prifert C, Wedde M, Puthenparambil J, Weissbrich B, Biere B, Schweiger B, Egerer G, Schnitzler P. Long-term shedding of influenza virus, parainfluenza virus, respiratory syncytial virus and nosocomial epidemiology in patients with hematological disorders. PLoS One 11, e0148258, 2016. https://doi.org/10.1371/journal.pone.0148258
   PubMed Web of Science ®Google Scholar
• Letunic I, Bork P. Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation. Nucleic Acids Research 49, W293–6, 2021. https://doi.org/10.1093/nar/gkab301
   PubMed Web of Science ®Google Scholar
• Levine S, Klaiber-Franco R, Paradiso P. Demonstration that glycoprotein G is the attachment protein of respiratory syncytial virus. Journal of General Virology 68, 2521–4, 1987. https://doi.org/10.1099/0022-1317-68-9-2521
   PubMed Web of Science ®Google Scholar
• Ling R, Pringle C. Polypeptides of pneumonia virus of mice. I. Immunological cross-reactions and post-translational modifications. Journal of General Virology 70, 1427–40, 1989. https://doi.org/10.1099/0022-1317-70-6-1427
   PubMed Web of Science ®Google Scholar
• Lorusso A, Desario C, Mari V, Campolo M, Lorusso E, Elia G, Martella V, Buonavoglia C, Decaro N. Molecular characterization of a canine respiratory coronavirus strain detected in Italy. Virus Research 141, 96–100, 2009. https://doi.org/10.1016/j.virusres.2008.12.011
   PubMed Web of Science ®Google Scholar
• Lu S, Wang Y, Chen Y, Wu B, Qin K, Zhao J, Lou Y, Tan W. Discovery of a novel canine respiratory coronavirus support genetic recombination among betacoronavirus 1. Virus Research 237, 7–13, 2017. https://doi.org/10.1016/j.virusres.2017.05.006
   PubMed Web of Science ®Google Scholar
• Maboni G, Seguel M, Lorton A, Berghaus R, Sanchez S. Canine infectious respiratory disease: new insights into the etiology and epidemiology of associated pathogens. PLoS One 14, e0215817, 2019. https://doi.org/10.1371/journal.pone.0215817
   PubMed Web of Science ®Google Scholar
• McCandlish IA, Thompson H, Cornwell HJ, Wright NG. A study of dogs with kennel cough. Veterinary Record 102, 293–301, 1978. https://doi.org/10.1136/vr.102.14.293
   PubMed Web of Science ®Google Scholar
• Mitchell JA, Cardwell JM, Renshaw RW, Dubovi EJ, Brownlie J. Detection of canine pneumovirus in dogs with canine infectious respiratory disease. Journal of Clinical Microbiology 51, 4112–9, 2013a. https://doi.org/10.1128/JCM.02312-13
   PubMed Web of Science ®Google Scholar
• Mitchell JA, Brooks HW, Szladovits B, Erles K, Gibbons R, Shields S, Brownlie J. Tropism and pathological findings associated with canine respiratory coronavirus (CRCoV). Veterinary Microbiology 162, 582–94, 2013b. https://doi.org/10.1016/j.vetmic.2012.11.025
   PubMed Web of Science ®Google Scholar
• Mitchell JA, Cardwell JM, Leach H, Walker CA, Poder SL, Decaro N, Rusvai M, Egberink H, Rottier P, Fernandez M, et al. European surveillance of emerging pathogens associated with canine infectious respiratory disease. Veterinary Microbiology 212, 31–8, 2017. https://doi.org/10.1016/j.vetmic.2017.10.019
   PubMed Web of Science ®Google Scholar
• More GD, Dunowska M, Acke E, Cave NJ. A serological survey of canine respiratory coronavirus in New Zealand. New Zealand Veterinary Journal 68, 54–9, 2020. https://doi.org/10.1080/00480169.2019.1667282
   PubMed Web of Science ®Google Scholar
• More GD, Biggs PJ, Cave NJ, Acke E, Dunowska M. A molecular survey of canine respiratory viruses in New Zealand. New Zealand Veterinary Journal 69, 224–33, 2021. https://doi.org/10.1080/00480169.2021.1915211
   PubMed Web of Science ®Google Scholar
• Otomaru H, Sornillo JBT, Kamigaki T, Bado SLP, Okamoto M, Saito-Obata M, Inobaya MT, Segubre-Mercado E, Alday PP, Saito M, et al. Risk of transmission and viral shedding from the time of infection for respiratory syncytial virus in households. American Journal of Epidemiology 190, 2536–43, 2021. https://doi.org/10.1093/aje/kwab181
   PubMed Web of Science ®Google Scholar
• Pasternak AO, Spaan WJM, Snijder EJ. Nidovirus transcription: how to make sense … ? Journal of General Virology 87, 1403–21, 2006. https://doi.org/10.1099/vir.0.81611-0
   PubMed Web of Science ®Google Scholar
• Pecoraro HL, Bennett S, Huyvaert KP, Spindel ME, Landolt GA. Epidemiology and ecology of H3N8 canine influenza viruses in US shelter dogs. Journal of Veterinary Internal Medicine 28, 311–8, 2014. https://doi.org/10.1111/jvim.12301
   PubMed Web of Science ®Google Scholar
• Percopo CM, Dubovi EJ, Renshaw RW, Dyer KD, Domachowske JB, Rosenberg HF. Canine pneumovirus replicates in mouse lung tissue and elicits inflammatory pathology. Virology 416, 26–31, 2011. https://doi.org/10.1016/j.virol.2011.04.010
   PubMed Web of Science ®Google Scholar
• Piewbang C, Techangamsuwan S. Phylogenetic evidence of a novel lineage of canine pneumovirus and a naturally recombinant strain isolated from dogs with respiratory illness in Thailand. BMC Veterinary Research 15, 300, 2019. https://doi.org/10.1186/s12917-019-2035-1
   PubMed Web of Science ®Google Scholar
• Renshaw RW, Zylich NC, Laverack MA, Glaser AL, Dubovi EJ. Pneumovirus in dogs with acute respiratory disease. Emerging Infectious Diseases 16, 993–5, 2010. https://doi.org/10.3201/eid1606.091778
   PubMed Web of Science ®Google Scholar
• Renshaw R, Laverack M, Zylich N, Glaser A, Dubovi E. Genomic analysis of a pneumovirus isolated from dogs with acute respiratory disease. Veterinary Microbiology 150, 88–95, 2011. https://doi.org/10.1016/j.vetmic.2011.01.013
   PubMed Web of Science ®Google Scholar
• Rima B, Collins P, Easton A, Fouchier R, Kurath G, Lamb RA, Lee B, Maisner A, Rota P, Wang L, et al. ICTV virus taxonomy profile: Pneumoviridae. Journal of General Virology 98, 2912–3, 2017. https://doi.org/10.1099/jgv.0.000959
   PubMed Web of Science ®Google Scholar
• Schulz BS, Kurz S, Weber K, Balzer HJ, Hartmann K. Detection of respiratory viruses and Bordetella bronchiseptica in dogs with acute respiratory tract infections. Veterinary Journal 201, 365–9, 2014. https://doi.org/10.1016/j.tvjl.2014.04.019
   PubMed Web of Science ®Google Scholar
• Slovic A, Kosutic-Gulija T, Santak M, Ivancic-Jelecki J, Jagusic M, Ljubin-Sternak S, Mlinarić-Galinović G, Vilibić-Čavlek T, Tabain I, Forcic D. Genetic variability and sequence relatedness of matrix protein in viruses of the families Paramyxoviridae and Pneumoviridae. Intervirology 60, 181–9, 2017. https://doi.org/10.1159/000487049
   PubMed Web of Science ®Google Scholar
• Soma T, Ishii H, Miyata K, Hara M. Prevalence of antibodies to canine respiratory coronavirus in some dog populations in Japan. Veterinary Record 163, 368–9, 2008. https://doi.org/10.1136/vr.163.12.368
   PubMed Web of Science ®Google Scholar
• Song X, Li Y, Huang J, Cao H, Zhou Q, Sha X, Zhang B. An emerging orthopneumovirus detected from dogs with canine infectious respiratory disease in China. Transboundary and Emerging Diseases 68, 3217–21, 2021. https://doi.org/10.1111/tbed.14291
   PubMed Web of Science ®Google Scholar
• Sowman HR, Cave NJ, Dunowska M. A survey of canine respiratory pathogens in New Zealand dogs. New Zealand Veterinary Journal 66, 236–42, 2018. https://doi.org/10.1080/00480169.2018.1490214
   PubMed Web of Science ®Google Scholar
• Tamura K, Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Molecular Biology and Evolution 10, 512–26, 1993. https://doi.org/10.1093/oxfordjournals.molbev.a040023
   PubMed Web of Science ®Google Scholar
• Tamura K, Stecher G, Kumar S. MEGA 11: Molecular Evolutionary Genetics Analysis version 11. Molecular Biology and Evolution 38, 3022–7, 2021. https://doi.org/10.1093/molbev/msab120
   PubMed Web of Science ®Google Scholar
• Yachi A, Mochizuki M. Survey of dogs in Japan for group 2 canine coronavirus infection. Journal of Clinical Microbiology 44, 2615–8, 2006. https://doi.org/10.1128/JCM.02397-05
   PubMed Web of Science ®Google Scholar
• Yu JM, Fu YH, Peng XL, Zheng YP, He JS. Genetic diversity and molecular evolution of human respiratory syncytial virus A and B. Scientific Reports 11, 12941, 2021. https://doi.org/10.1038/s41598-021-92435-1
   PubMed Web of Science ®Google Scholar
• *Non-peer-reviewed
   Google Scholar