Historically, coronaviruses have been recognized as a cause of minor respiratory infections in humans. However, the recent identification of three novel human coronaviruses, one causing severe acute respiratory syndrome (SARS), has prompted further examination of these viruses. Previous studies of geographically and chronologically distinct Human coronavirus 229E (HCoV-229E) isolates have found only limited variation within S gene nucleotide sequences. In contrast, analysis of the S genes of contemporary Human coronavirus OC43 variants identified in Belgium revealed two distinct viruses circulating during 2003 and 2004. Here, the S and N gene sequences of 25 HCoV-229E variants identified in Victoria, Australia, between 1979 and 2004 in patients with symptomatic infections were determined. Phylogenetic analysis showed clustering of the isolates into four groups, with evidence of increasing divergence with time. Evidence of positive selection in the S gene was also established.
BonaviaA.,
ZelusB. D.,
WentworthD. E.,
TalbotP. J.,
HolmesK. V.2003; Identification of a receptor-binding domain of the spike glycoprotein of human coronavirus HCoV-229E. J Virol 77:2530–2538[CrossRef]
CavanaghD.,
DavisP. J.,
MockettA. P.1988; Amino acids within hypervariable region 1 of avian coronavirus IBV (Massachusetts serotype) spike glycoprotein are associated with neutralization epitopes. Virus Res 11:141–150[CrossRef]
ClothierH. J.,
FieldingJ. E.,
KellyH. A.2005; An evaluation of the Australian Sentinel Practice Research Network (ASPREN) surveillance for influenza-like illness. Commun Dis Intell 29:231–247
DrostenC.,
GuntherS.,
PreiserW.& 23 other authors2003; Identification of a novel coronavirus in patients with severe acute respiratory syndrome. N Engl J Med 348:1967–1976[CrossRef]
HallT. A.1999; bioedit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
HaysJ. P.,
MyintS. H.1998; PCR sequencing of the spike genes of geographically and chronologically distinct human coronaviruses 229E. J Virol Methods 75:179–193[CrossRef]
HolmesK. V.2001; Coronaviruses. In Fields Virology
. , 3rd edn. pp 1187–1203 Edited by
FieldsB. N.,
KnipeD. M.,
HowleyP. M.
Philadelphia: Lippincott Williams & Wilkins;
HolmesK. V.,
LaiM. M. C.1996; Coronaviridae : the viruses and their replication. In Fields Virology, 3rd edn. vol 1 pp 1075–1093 Edited by
FieldsB. N.,
KnipeD. M.,
HowleyP. M.
Philadelphia: Lippincott Raven;
NicholasK. B.,
NicholasH. B., Jr.
1997; Genedoc: a tool for editing and annotating multiple sequence alignments. Distributed by author, 2·6·002 edn. http://www.psc.edu/biomed/genedoc
RestJ. S.,
MindellD. P.2003; SARS associated coronavirus has a recombinant polymerase and coronaviruses have a history of host-shifting. Infect Genet Evol 3:219–225[CrossRef]
SchmidtH. A.,
StrimmerK.,
VingronM.,
von HaeselerA.2002; treepuzzle: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18:502–504[CrossRef]
SnijderE. J.,
BredenbeekP. J.,
DobbeJ. C.& 7 other authors2003; Unique and conserved features of genome and proteome of SARS-coronavirus, an early split-off from the coronavirus group 2 lineage. J Mol Biol 331:991–1004[CrossRef]
VabretA.,
MourezT.,
GouarinS.,
PetitjeanJ.,
FreymuthF.2003; An outbreak of coronavirus OC43 respiratory infection in Normandy, France. Clin Infect Dis 36:985–989[CrossRef]
VijgenL.,
KeyaertsE.,
LemeyP.,
MoesE.,
LiS.,
VandammeA. M.,
Van RanstM.2005; Circulation of genetically distinct contemporary human coronavirus OC43 strains. Virology 337:85–92[CrossRef]
WooP. C.,
LauS. K.,
ChuC. M.& 12 other authors2005; Characterization and complete genome sequence of a novel coronavirus, coronavirus HKU1, from patients with pneumonia. J Virol 79:884–895[CrossRef]