Discovery, diversity and evolution of novel coronaviruses sampled from rodents in China

Wen Wang; Xian-Dan Lin; Wen-Ping Guo; Run-Hong Zhou; Miao-Ruo Wang; Cai-Qiao Wang; Shuang Ge; Sheng-Hua Mei; Ming-Hui Li; Mang Shi; Edward C Holmes; Yong-Zhen Zhang

doi:10.1016/j.virol.2014.10.017

Discovery, diversity and evolution of novel coronaviruses sampled from rodents in China

Virology. 2015 Jan 1:474:19-27. doi: 10.1016/j.virol.2014.10.017. Epub 2014 Nov 9.

Authors

Wen Wang¹, Xian-Dan Lin², Wen-Ping Guo¹, Run-Hong Zhou³, Miao-Ruo Wang⁴, Cai-Qiao Wang³, Shuang Ge³, Sheng-Hua Mei⁴, Ming-Hui Li¹, Mang Shi⁵, Edward C Holmes⁵, Yong-Zhen Zhang⁶

Affiliations

¹ State Key Laboratory for Infectious Disease Prevention and Control, Department of Zoonoses, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing, China; Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China.
² Wenzhou Center for Disease Control and Prevention, Wenzhou, Zhejiang Province, China.
³ State Key Laboratory for Infectious Disease Prevention and Control, Department of Zoonoses, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing, China.
⁴ Longquan Center for Disease Control and Prevention, Longquan, Zhejiang Province, China.
⁵ State Key Laboratory for Infectious Disease Prevention and Control, Department of Zoonoses, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing, China; Marie Bashir Institute of Infectious Diseases and Biosecurity, Charles Perkins Centre, School of Biological Sciences and Sydney Medical School, The University of Sydney, Sydney, New South Wales 2006, Australia.
⁶ State Key Laboratory for Infectious Disease Prevention and Control, Department of Zoonoses, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Changping, Beijing, China; Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China. Electronic address: zhangyongzhen@icdc.cn.

Abstract

Although rodents are important reservoirs for RNA viruses, to date only one species of rodent coronavirus (CoV) has been identified. Herein, we describe a new CoV, denoted Lucheng Rn rat coronavirus (LRNV), and novel variants of two Betacoronavirus species termed Longquan Aa mouse coronavirus (LAMV) and Longquan Rl rat coronavirus (LRLV), that were identified in a survey of 1465 rodents sampled in China during 2011-2013. Phylogenetic analysis revealed that LAMV and LRLV fell into lineage A of the genus Betacoronavirus, which included CoVs discovered in humans and domestic and wild animals. In contrast, LRNV harbored by Rattus norvegicus formed a distinct lineage within the genus Alphacoronavirus in the 3CL(pro), RdRp, and Hel gene trees, but formed a more divergent lineage in the N and S gene trees, indicative of a recombinant origin. Additional recombination events were identified in LRLV. Together, these data suggest that rodents may carry additional unrecognized CoVs.

Keywords: Coronavirus; Evolution; Phylogeny; Recombination; Rodents.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
China
Coronavirus / classification
Coronavirus / genetics*
Coronavirus / isolation & purification*
Coronavirus, Rat / classification
Coronavirus, Rat / genetics
Coronavirus, Rat / isolation & purification
Disease Reservoirs / virology
Evolution, Molecular
Genetic Variation
Genome, Viral
Humans
Mice
Molecular Sequence Data
Phylogeny
Rats
Rodentia / virology*
Spike Glycoprotein, Coronavirus / chemistry
Spike Glycoprotein, Coronavirus / genetics

Substances

Spike Glycoprotein, Coronavirus

Associated data

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