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			PubMed Journals: Emerg Microbes Infect

  Source:		PMID: 31987001


    		Emerg Microbes Infect. 2020
     		Dec;9(1):221-236. doi:
			10.1080/22221751.2020.1719902.

			Genomic characterization of the
			2019 novel human-pathogenic coronavirus
			isolated from a patient with atypical pneumonia
			after visiting Wuhan.

			Chan JF(1)(2)(3)(4), Kok KH(1)(3)(4), Zhu Z(3),
			Chu H(1)(3)(4), To KK(1)(2)(3)(4), Yuan S(1)(3)(4),
			Yuen KY(2)(3)(4).

			Author Information
			(1) State Key Laboratory of Emerging Infectious
			Diseases, The University of Hong Kong,
			Pokfulam, Hong Kong Special Administrative
			Region, China.
			(2) Department of Clinical Microbiology and
			Infection Control,
			The University of Hong Kong-Shenzhen Hospital,
			Shenzhen, Guangdong, People's Republic of
			China.
			(3) Department of Microbiology, Li Ka Shing
			Faculty of Medicine, The University of Hong
			Kong, Pokfulam, Hong Kong Special
			Administrative Region, China.
			(4) Carol Yu Centre for Infection, Li Ka Shing
			Faculty of Medicine, The University of Hong
			Kong, Pokfulam, Hong Kong Special
			Administrative Region, China.

			A mysterious outbreak of atypical pneumonia in
			late 2019 was traced to a seafood wholesale
			market in Wuhan of China. Within a few weeks,
			a novel coronavirus tentatively named as
			2019 novel coronavirus (2019-nCoV) was
			announced by the World Health Organization.
			We performed bioinformatics analysis on a
			virus genome from a patient with 2019-nCoV
			infection and compared it with other related
			coronavirus genomes. Overall, the genome of
			2019-nCoV has 89% nucleotide identity with
			bat SARS-like-CoVZXC21 and 82% with that of
			human SARS-CoV. The phylogenetic trees of
			their orf1a/b, Spike, Envelope, Membrane and
			Nucleoprotein also clustered closely with those
			of the bat, civet and human SARS
			coronaviruses. However, the external
			subdomain of Spike's receptor binding domain
			of 2019-nCoV shares only 40% amino acid
			identity with other SARS-related coronaviruses.
			Remarkably, its orf3b encodes a completely
			novel short protein. Furthermore, its new orf8
			likely encodes a secreted protein with an
			alpha-helix, following with a beta-sheet(s)
			containing six strands. Learning from the roles
			of civet in SARS and camel in MERS, hunting
			for the animal source of 2019-nCoV and its
			more ancestral virus would be important for
			understanding the origin and evolution of this
			novel lineage B betacoronavirus. These findings
			provide the basis for starting further studies on
			the pathogenesis, and optimizing the design of
			diagnostic, antiviral and vaccination strategies
			for this emerging infection.

			DOI: 10.1080/22221751.2020.1719902
			PMID: 31987001

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