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Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus.

Title: Full-genome deep sequencing and phylogenetic analysis of novel human betacoronavirus.
Authors: Cotten, M
Lam, TT
Watson, SJ
Palser, AL
Petrova, V
Grant, P
Pybus, OG
Rambaut, A
Guan, Y
Pillay, D
Kellam, P
Nastouli, E
Item Type: Journal Article
Abstract: A novel betacoronavirus associated with lethal respiratory and renal complications was recently identified in patients from several countries in the Middle East. We report the deep genome sequencing of the virus directly from a patient's sputum sample. Our high-throughput sequencing yielded a substantial depth of genome sequence assembly and showed the minority viral variants in the specimen. Detailed phylogenetic analysis of the virus genome (England/Qatar/2012) revealed its close relationship to European bat coronaviruses circulating among the bat species of the Vespertilionidae family. Molecular clock analysis showed that the 2 human infections of this betacoronavirus in June 2012 (EMC/2012) and September 2012 (England/Qatar/2012) share a common virus ancestor most likely considerably before early 2012, suggesting the human diversity is the result of multiple zoonotic events.
Issue Date: 1-May-2013
Date of Acceptance: 1-May-2013
URI: http://hdl.handle.net/10044/1/62235
DOI: https://dx.doi.org/10.3201/eid1905.130057
ISSN: 1080-6040
Publisher: U.S. National Center for Infectious Diseases
Start Page: 736
End Page: 742B
Journal / Book Title: Emerging Infectious Diseases
Volume: 19
Issue: 5
Copyright Statement: © 2013 The Author(s). This article is open access under a Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/).
Keywords: computer-aided design
coronavirus infections
disease transmission
evolution
high-throughput nucleotide sequencing
infectious
molecular
respiratory tract infections
viruses
zoonoses
Animals
Base Sequence
Chiroptera
Coronavirus
Coronavirus Infections
DNA Primers
DNA, Complementary
Genome, Viral
High-Throughput Nucleotide Sequencing
Humans
Jordan
Molecular Sequence Data
Phylogeny
Qatar
RNA, Viral
Reverse Transcriptase Polymerase Chain Reaction
Saudi Arabia
1108 Medical Microbiology
1117 Public Health And Health Services
1103 Clinical Sciences
Microbiology
Publication Status: Published
Conference Place: United States
Online Publication Date: 2013-05-01
Appears in Collections:Department of Medicine
Faculty of Medicine



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