Severe acute respiratory syndrome-related coronavirus: The species and its viruses – a statement of the Coronavirus Study Group
Citations
Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study.
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and coronavirus disease-2019 (COVID-19): The epidemic and the challenges.
The proximal origin of SARS-CoV-2.
Crystal structure of SARS-CoV-2 main protease provides a basis for design of improved α-ketoamide inhibitors
Effective treatment of severe COVID-19 patients with tocilizumab.
References
Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China
A Novel Coronavirus from Patients with Pneumonia in China, 2019.
A pneumonia outbreak associated with a new coronavirus of probable bat origin
Epidemiological and clinical characteristics of 99 cases of 2019 novel coronavirus pneumonia in Wuhan, China: a descriptive study
Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding.
Related Papers (5)
Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China
A pneumonia outbreak associated with a new coronavirus of probable bat origin
Early Transmission Dynamics in Wuhan, China, of Novel Coronavirus-Infected Pneumonia.
Frequently Asked Questions (12)
Q2. What are the main factors that influence the nomenclature of the virus?
Apart from disease, geography and the organism from which a given virus was isolated also dominate the nomenclature, occasionally engraving connections that may be accidental (rather than typical) or even stigmatizing, which should be avoided.
Q3. What is the definition of a species demarcation threshold?
The species demarcation threshold (also known as demarcation limit) in the family Coronaviridae is defined by viruses whose PPD(s) may cross the inter-species demarcation PPD threshold (threshold ‘violators’).
Q4. What is the clade structure of SARS-CoV-2?
This clade structure is susceptible to homologous recombination, which is common in this species44,58,59; to formalize clade definition, it must be revisited after the sampling of viruses representing the deep branches has improved sufficiently.
Q5. What is the significance of the zoonotic transmission of SARS-CoV-2?
While the full spectrum of clinical manifestations associated with SARS-CoV-2 infections in humans remains to be determined, the independent zoonotic transmission of SARS-CoV and SARS-CoV-2 highlights the need for studying viruses at the species level to complement research focused on individual pathogenic viruses of immediate significance.
Q6. Why are these viruses not visible in a conventional diagonal plot?
Due to their minute share of ~10–4 of the total number of all intra- and inter-species PPDs, these violators may not even be visually recognized in a conventional diagonal plot clustering viruses on a species basis (panel a of the figure in Box 4).
Q7. What is the recent update of the coronavirus taxonomy?
When the authors included SARS-CoV-2 in the dataset used for the most recent update (May 2019) of the coronavirus taxonomy currently being considered by ICTV19, which includes 2,505 coronaviruses,Box 2 | Identifying viral species
Q8. What is the current classification of coronaviruses?
The current classification of coronaviruses recognizes 39 species in 27 subgenera, five genera and two subfamilies that belong to the family Coronaviridae, suborder Cornidovirineae, order Nidovirales and realm Riboviria17–19 (Fig. 1).
Q9. What are the domains used in the CSG's analyses?
The CSG currently analyses 3CLpro, NiRAN, RdRp, ZBD and HEL1 (ref. 52) (Fig. 2a), two domains less than previously used in the analyses conducted between 2009 and 2015 (refs. 16,18).
Q10. What is the role of SARS-CoV-2 in the Coronaviridae family?
Defining the place of SARS-CoV-2 within the Coronaviridae Researchers studying coronaviruses—a family of enveloped positive-strand RNA viruses infecting vertebrates8—have been confronted several times with the need to define whether a newly emerged virus causing a severe or even life-threatening disease in humans belongs to an existing or a new (yet-to-be-established) species.
Q11. What is the median PD for SARS-CoV-2?
The current sampling defines a very small median PD for human SARS-CoVs, which is approximately 15 times smaller than the median PD determined for SARS-CoV-2 (0.16% versus 2.6%; panel c of the figure in Box 4).
Q12. How do taxa differ in their intra-taxon divergence?
Taxa of different ranks differ in their intra-taxon pairwise divergence, which increases from the smallest at the species rank to the largest at the realm rank30.