Phylogenetic and recombination analysis of coronavirus HKU1, a novel coronavirus from patients with pneumonia.
Phylogenetic trees constructed using predicted amino acid sequences of putative proteins of coronavirus HKU1 (CoV-HKU1) revealed that CoV-HKU1 formed a distinct branch among group 2 coronaviruses. Of the 14 trees from p65 to nsp10, nine showed that CoV-HKU1 was clustered with murine hepatitis virus. From nsp11, the topologies of the trees changed dramatically. For the eight trees from nsp11 to N, seven showed that the CoV-HKU1 branch was the first branch. The codon usage patterns of CoV-HKU1 differed significantly from those in other group 2 coronaviruses. Split decomposition analysis revealed that recombination events had occurred between CoV-HKU1 and other coronaviruses.
Department of Microbiology, Faculty of Medicine, The University of Hong Kong, Hong Kong.
P C Y
PC
Woo
S K P
SK
Lau
Y
Y
Huang
H-W
HW
Tsoi
K-H
KH
Chan
K-Y
KY
Yuen
D003062:Codon / Q000235:genetics; D017124:Conserved Sequence; D017934:Coronavirus / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification; D006801:Humans; D010802:Phylogeny; D011024:Pneumonia, Viral / Q000821:virology*; D011995:Recombination, Genetic
D003062:Codon