title: [Complete nucleotide sequence of a human echovirus 6 strain KM57-09 isolated in Yunnan, China, in 2009].
abstract: OBJECTIVE
  To analyze the genetic characterization of the complete genome from a human echovirus 6 (Echo6) strain KM57-09 isolated in Yunnan, China, in 2009.
  
  
  METHODS
  Using the RT-PCR, eight fragments containing about 1000 nucleotides which covered the whole viral genome were sequenced. The sequences were aligned with other reference enterovirus sequences downloaded from the GenBank, using Mega 5.05, RDP 3 and SimPlot 3.5.1 softwares.
  
  
  RESULTS
  Similar to the other human enterovirus, KM57-09 isolate genome appeared to have 7419 nucleotides in length, encoding for 2191 amino acids. In the complete genome, the rates of homology on nucleotide and amino acid among the seven Echo6 isolates were 79.3% - 80.2% and 93.3% - 94.4%, respectively as well as 79.3% and 93.6% of the rates of homology when compared with that of D' Amor prototype strain. In different segment of genome. The 2C-3A genome region was most similar to the HN-2-E25 strain, the 5' UTR, VP4, 3D and 3' UTR genome region were most similar to the CoxB5-Henan-2010. In the VP1 gene, the rates of homology on nucleotide and amino acid among the China isolates were 80.0% - 96.0% and 95.8% - 99.0%, respectively, and showed 77.6% - 96.0% and 95.2% - 99.0% of the rates on homology when compared to the other Echo6 reference strains isolated from other countries or areas, respectively.
  
  
  RESULTS
  from phylogenetic analysis showed that the Echo6 formed five distinct groups, A-E. The KM57-09 strain belonged to clade E. The nucleotide divergence between clades was 15.6% - 23.3%. The putative recombinant event for KM57-09 was detected with RDP 3, SimPlot 3.5.1 and 3D sequence phylogenetic analysis.
  
  
  CONCLUSIONS
  All the Echo6 isolates could be divided into five clades, the KM57-09 strain belonged to Clade E. The Echo6 strains isolated in China were contributed to several different chains of transmission.
authors.affiliation: Yunnan Key Laboratory of Vaccine Research and Development on Severe Infectious Disease, Institute of Medical Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Kunming 650118, China.
authors.forename: Yan-ju
authors.initials: YJ
authors.lastname: Zhu
authors.forename: Yue
authors.initials: Y
authors.lastname: Pan
authors.forename: Jun-ying
authors.initials: JY
authors.lastname: Chen
authors.forename: Zhong-fei
authors.initials: ZF
authors.lastname: Ma
authors.forename: Xin-qiang
authors.initials: XQ
authors.lastname: Deng
authors.forename: Jian-sheng
authors.initials: JS
authors.lastname: Liu
authors.forename: Shao-hui
authors.initials: SH
authors.lastname: Ma
mesh_terms: D002681:China; D004458:Echovirus 6, Human / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification*; D016679:Genome, Viral; D006801:Humans; D010802:Phylogeny; D017386:Sequence Homology, Amino Acid