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03.019.0.01.014.00.100.001. SARS coronavirus isolate HKU-39849

Cite this publication as: ICTVdB Management (2006). 03.019.0.01.014.00.100.001. SARS coronavirus isolate HKU-39849. In: ICTVdB - The Universal Virus Database, version 4. Büchen-Osmond, C. (Ed), Columbia University, New York, USA

Cite this site as: ICTVdB - The Universal Virus Database, version 4. http://www.ncbi.nlm.nih.gov/ICTVdb/ICTVdB/

Table of Contents

Isolate Description

Isolate designation: HKU-39849.
Isolation date: 07 June 2003.
Location: Hong Kong; Hong Kong.

Host of Isolate and Habitat Details
Source of isolate: human.
Virus was isolated from lung tissue; biopsy.
Virus was isolated from an adult.

Collection and Isolation Details
Virus was isolated by Prof J.S. Malik Peiris. Department of Microbiology; University of Hong Kong; Pokfulam Rd; Hong Kong, Special Administrative Region; China; email: [mailto] malik@hkucc.hku.hk.

Reference to Isolation Report
Guan Y, Peiris JS, Zheng B, Poon LL, Chan KH, Zeng FY, Chan CW, Chan MN, Chen JD, Chow KY, Hon CC, Hui KH, Li J, Li VY, Wang Y, Leung SW, Yuen KY, Leung FC (2004) Molecular epidemiology of the novel coronavirus that causes severe acute respiratory syndrome, The Lancet, 363, 99-104; PubMed ID 14726162.

Depositories and Collections

The isolate has been deposited at an institution at University of Hong Kong.

Biocontainment Level

Distribution of this virus falls under quarantine restrictions. It is recommended to handle this virus at the biocontainment level BSL-3.

Classification

This is a description of a vertebrate virus at the isolate level.

ICTVdB Virus Code: 03.019.0.01.014.00.100.001. Virus accession number: I035SARS. Former accession number: 40E30A7C.
NCBI Taxon Identifier NCBI Taxonomy ID: 228404.

Name, Synonyms and Lineage

Virus is assigned to species SARS coronavirus of the genus 03.019.0.01. Coronavirus; of the family 03.019. Coronaviridae; of the order 03. Nidovirales .

Virion Properties

Particles contain nucleic acid which is encapsidated.

Virion Properties

Morphology

Virions consist of an envelope, spikes, and a nucleocapsid. Virus capsid is enveloped.

Nucleic Acid

The genome is not segmented and contains a single molecule of linear positive-sense, single-stranded RNA. The complete genome is 29742 nucleotides long. Sequence can be accessed from GenBank; the RNA-1 is fully sequenced, complete sequence is 29742 nucleotides long and encodes RNA-dependent RNA polymerase with two subunits (ORF1a and ORF1b), three structural proteins (surface-spike glycoprotein, membrane protein, and nucleocapsid protein). Sequence has the accession number [AY278491]. The 5'-terminus has a non-coding region; is 264 nucleotides in length. The 3'-terminus has a long non-coding region; of 339 nucleotides in length. The 3'-terminus has a poly (A) tract 15 nucleotides in length.

Reference to nucleotide sequence in PubMed: reference(s). GenBank records for nucleotide sequences; complete genome sequences.

Biological Properties

Natural Host

Domain
Viral hosts belong to the Domain Eucarya.

Domain Eucarya
Kingdom Animalia.

Kingdom Animalia
Phylum Chordata.

Phylum Vertebrata
Subphylum Vertebrata; Class Mammalia.

Class Mammalia Order Primates;
Family Hominidae.
Virus infects Homo sapiens (human) (infection is not necessarily limited to humans).

General Symptoms in Animals Infection can affect the respiratory system and musculo-skeletal system. General symptoms include fever, headache, and malaise. Signs and symptoms include crepitations upon lung auscultation with corresponding alveolar shadow; myalgia.

Severity and Occurrence of Disease

Host: Infection is apparent. The infection is clinically expressed.

References

Guan Y, Peiris JS, Zheng B, Poon LL, Chan KH, Zeng FY, Chan CW, Chan MN, Chen JD, Chow KY, Hon CC, Hui KH, Li J, Li VY, Wang Y, Leung SW, Yuen KY, Leung FC (2004) Molecular epidemiology of the novel coronavirus that causes severe acute respiratory syndrome, The Lancet, 363, 99-104.

Zeng FY, Chan CW, Chan MN, Chen JD, Chow KY, Hon CC, Hui KH, Li J, Li VY, Wang CY, Wang PY, Guan Y, Zheng B, Poon LL, Chan KH, Yuen KY, Peiris JS, Leung FC (2003) The Complete Genome Sequence of Severe Acute Respiratory Syndrome Coronavirus Strain HKU-39849 (HK-39), Exp Biol Med., 228(7), 866-73.

PubMed References.

Contributor

Data have been submitted online to ICTVdB on 01-12-05 by
Sara Mullins
American Type Culture Collection;
George Mason University;
PW II, 10801 University Boulevard;
Manassas; VA; 20110;
United States of America;
Tel: + 703-365-2700;
Fax: + 703-365-2701;
email: ICTVdB Management. Involved in the isolation of the virus was also F.C. Leung, Ph.D; Department of Zoology, University of Hong Kong, Hong Kong SAR, China; F.Y. Zeng, Ph.D; Department of Zoology, University of Hong Kong, Hong Kong SAR, China; Y. Guan, Ph.D; Department of Microbiology, University of Hong Kong, Hong Kong SAR, China.



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DELTA - DEscription Language for TAxonomy developed by Dr Mike Dallwitz, Toni Paine and Eric Zurcher, CSIRO Entomology, Canberra, Australia. ICTVdB - The Universal Virus Database, developed for the International Committee on Taxonomy of Viruses by Dr Cornelia Büchen-Osmond is written in DELTA. The virus descriptions in ICTVdB are coded by, or using data from experts in the field of virology or members ICTV. The character list is the underlying code. All virus descriptions are based on the character list and natural language translations are automatically generated and formatted for display on the Web from the descriptions in DELTA-format. The description has been generated automatically from DELTA files. DELTA - DEscription Language for TAxonomy developed by Dr Mike Dallwitz, Toni Paine and Eric Zurcher, CSIRO Entomology, Canberra, Australia.

ICTVdB - The Universal Virus Database, developed for the International Committee on Taxonomy of Viruses (ICTV) by Dr Cornelia Büchen-Osmond, is written in DELTA. The virus descriptions in ICTVdB are coded by ICTV members and experts, or by the ICTVdB Management using data provided by the experts, the literature or the latest ICTV Report. The character list is the underlying code. All virus descriptions are based on the character list and natural language translations from the encoded descriptions are automatically generated and formatted for display on the Web.

Developer of the DELTA software: M. J. Dallwitz, T. Paine and E. Zurcher

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Last updated on 25 April 2006 by Cornelia Büchen-Osmond
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