OmniVira

A Novel Coronavirus from Patients with Pneumonia in China, 2019.

Na Zhu1,2,3 Dingyu Zhang1,2,3 Wenling Wang1,2,3 Xingwang Li1,2,3 Bo Yang1,2,3 Jingdong Song1,2,3 Xiang Zhao1,2,3 Baoying Huang1,2,3 Weifeng Shi1,2,3 Roujian Lu1,2,3 Peihua Niu1,2,3 Faxian Zhan1,2,3 Xuejun Ma1,2,3 Dayan Wang1,2,3 Wenbo Xu1,2,3 Guizhen Wu1,2,3 George F Gao1,2,3 Wenjie Tan1,2,3 China Novel Coronavirus Investigating and Research Team
Affiliations 3 institutions
  1. From the NHC Key Laboratory of Biosafety, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention (N.Z., W.W., J.S., X.Z., B.H., R.L., P.N., X.M., D.W., W.X., G.W., G.F.G., W.T.), and the Department of Infectious Diseases, Beijing Ditan Hospital, Capital Medical University (X.L.) - both in Beijing
  2. Wuhan Jinyintan Hospital (D.Z.), the Division for Viral Disease Detection, Hubei Provincial Center for Disease Control and Prevention (B.Y., F.Z.), and the Center for Biosafety Mega-Science, Chinese Academy of Sciences (W.T.) - all in Wuhan
  3. and the Shandong First Medical University and Shandong Academy of Medical Sciences, Jinan, China (W.S.).
PMID31978945 DOI10.1056/NEJMoa2001017 Year2020 Journal The New England journal of medicine N Engl J Med Languageeng Statusppublish

Abstract

In December 2019, a cluster of patients with pneumonia of unknown cause was linked to a seafood wholesale market in Wuhan, China. A previously unknown betacoronavirus was discovered through the use of unbiased sequencing in samples from patients with pneumonia. Human airway epithelial cells were used to isolate a novel coronavirus, named 2019-nCoV, which formed a clade within the subgenus sarbecovirus, Orthocoronavirinae subfamily. Different from both MERS-CoV and SARS-CoV, 2019-nCoV is the seventh member of the family of coronaviruses that infect humans. Enhanced surveillance and further investigation are ongoing. (Funded by the National Key Research and Development Program of China and the National Major Project for Control and Prevention of Infectious Disease in China.).

Supporting text Virus Host Location
Adult 71 Betacoronavirus 78 Bronchoalveolar Lavage Fluid 3 Cells, Cultured 26 China 229 Coronavirus Infections 171 COVID-19 425 Epithelial Cells 27 Female 289 Genome, Viral 317 Humans 1440 Lung 65 Male 224 Microscopy, Electron, Transmission 4 Middle Aged 60 Phylogeny 805 Pneumonia, Viral 42 Radiography, Thoracic 1 Respiratory System 21 SARS-CoV-2 453

Evidence records

3 total
Zoonotic Surveillance
2 records · 2 evidence types
Evidence type Virus Isolation
1 records
OVE11408 Virus Isolation
Key finding

A novel coronavirus (2019-nCoV) was successfully isolated from human airway epithelial cell cultures derived from pneumonia patients in Wuhan, China.

Virus
Severe acute respiratory syndrome coronavirus 2
Host
human airway epithelial cells Homo sapiens Experimental system human Homo sapiens Natural host
Location
Not specified
Supporting text

Human airway epithelial cells were used to isolate a novel coronavirus, named 2019-nCoV.

Sample type
airway epithelial cells
Evidence type Viral Detection
1 records
OVE11409 Viral Detection
Key finding

A previously unknown betacoronavirus (2019‑nCoV) was detected by unbiased sequencing in samples from patients with pneumonia in Wuhan, China.

Virus
Betacoronavirus Severe acute respiratory syndrome coronavirus 2
Host
human Homo sapiens Natural host
Location
China
Supporting text

In December 2019, a cluster of patients with pneumonia of unknown cause was linked to a seafood wholesale market in Wuhan, China. A previously unknown betacoronavirus was discovered through the use of unbiased sequencing in samples from patients with pneumonia.

Method
unbiased sequencing
Sample type
samples from patients with pneumonia
Geographic raw
Wuhan, China
Country inferred
CHN
Genomic Evolution
1 records · 1 evidence types
Evidence type Phylogenetic Evolution
1 records
OVE11410 Phylogenetic Evolution
Key finding

Phylogenetic analysis placed the newly identified virus 2019-nCoV within the subgenus Sarbecovirus of the Orthocoronavirinae, distinct from MERS-CoV and SARS-CoV.

Virus
Severe acute respiratory syndrome coronavirus 2 Middle East Respiratory Syndrome Coronavirus Severe Acute Respiratory Syndrome Coronavirus
Host
human Homo sapiens Natural host
Location
Not specified
Supporting text

which formed a clade within the subgenus sarbecovirus, Orthocoronavirinae subfamily. Different from both MERS-CoV and SARS-CoV, 2019-nCoV is the seventh member of the family of coronaviruses that infect humans.

Analysis methods
phylogenetic analysis