Identifying the pattern of molecular evolution for Zaire ebolavirus in the 2014 outbreak in West Africa.
The current Ebola virus disease (EVD) epidemic has killed more than all previous Ebola outbreaks combined and, even as efforts appear to be bringing the outbreak under control, the threat of reemergence remains. The availability of new whole-genome sequences from West Africa in 2014 outbreak, together with those from the earlier outbreaks, provide an opportunity to investigate the genetic characteristics, the epidemiological dynamics and the evolutionary history for Zaire ebolavirus (ZEBOV). To investigate the evolutionary properties of ZEBOV in this outbreak, we examined amino acid mutations, positive selection, and evolutionary rates on the basis of 123 ZEBOV genome sequences. The estimated phylogenetic relationships within ZEBOV revealed that viral sequences from the same period or location formed a distinct cluster. The West Africa viruses probably derived from Middle Africa, consistent with results from previous studies. Analysis of the seven protein regions of ZEBOV revealed evidence of positive selection acting on the GP and L genes. Interestingly, all putatively positive-selected sites identified in the GP are located within the mucin-like domain of the solved structure of the protein, suggesting a possible role in the immune evasion properties of ZEBOV. Compared with earlier outbreaks, the evolutionary rate of GP gene was estimated to significantly accelerate in the 2014 outbreak, suggesting that more ZEBOV variants are generated for human to human transmission during this sweeping epidemic. However, a more balanced sample set and next generation sequencing datasets would help achieve a clearer understanding at the genetic level of how the virus is evolving and adapting to new conditions.
Key Laboratory of Etiology and Biosafety for Emerging and Highly Infectious Diseases, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China; Key Laboratory of Agricultural and Environmental Microbiology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China. Electronic address: liusiqing310@gmail.com.
Si-Qing
SQ
Liu
Key Laboratory of Etiology and Biosafety for Emerging and Highly Infectious Diseases, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China; Key Laboratory of Agricultural and Environmental Microbiology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China. Electronic address: dengchenglin29@126.com.
Cheng-Lin
CL
Deng
Key Laboratory of Agricultural and Environmental Microbiology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China. Electronic address: yzm@wh.iov.cn.
Zhi-Ming
ZM
Yuan
Key Laboratory of Etiology and Biosafety for Emerging and Highly Infectious Diseases, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China. Electronic address: simon.rayner.cn@gmail.com.
Simon
S
Rayner
Key Laboratory of Etiology and Biosafety for Emerging and Highly Infectious Diseases, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China; Key Laboratory of Agricultural and Environmental Microbiology, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China. Electronic address: zhangbo@wh.iov.cn.
Bo
B
Zhang
D000354:Africa, Western / Q000453:epidemiology; D004196:Disease Outbreaks; D029043:Ebolavirus / Q000235:genetics*; D019143:Evolution, Molecular; D005814:Genes, Viral / Q000235:genetics; D016679:Genome, Viral / Q000235:genetics; D019142:Hemorrhagic Fever, Ebola / Q000453:epidemiology / Q000821:virology*; D006801:Humans; D010802:Phylogeny; D014759:Viral Envelope Proteins / Q000235:genetics
D014759:Viral Envelope Proteins; C113189:envelope glycoprotein, Ebola virus
Evolutionary rate; Positive selection; West Africa; Zaire ebolavirus