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The Phylogeography of MERS-CoV in Hospital Outbreak-Associated Cases Compared to Sporadic Cases in Saudi Arabia.
Viruses. 2020 05 14; 12(5)V

Abstract

This study compared the phylogeography of MERS-CoV between hospital outbreak-associated cases and sporadic cases in Saudi Arabia. We collected complete genome sequences from human samples in Saudi Arabia and data on the multiple risk factors of human MERS-CoV in Saudi Arabia reported from 2012 to 2018. By matching each sequence to human cases, we identified isolates as hospital outbreak-associated cases or sporadic cases. We used Bayesian phylogenetic methods including temporal, discrete trait analysis and phylogeography to uncover transmission routes of MERS-CoV isolates between hospital outbreaks and sporadic cases. Of the 120 sequences collected between 19 June 2012 and 23 January 2017, there were 64 isolates from hospital outbreak-associated cases and 56 from sporadic cases. Overall, MERS-CoV is fast evolving at 7.43 × 10[-4] substitutions per site per year. Isolates from hospital outbreaks showed unusually fast evolutionary speed in a shorter time-frame than sporadic cases. Multiple introductions of different MERS-CoV strains occurred in three separate hospital outbreaks. MERS-CoV appears to be mutating in humans. The impact of mutations on viruses transmissibility in humans is unknown.

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Authors+Show Affiliations

Chen X
Biosecurity Research Program, Kirby Institute, Faculty of Medicine, University of New South Wales, Sydney NSW 2052, Australia.
Adam DC
Biosecurity Research Program, Kirby Institute, Faculty of Medicine, University of New South Wales, Sydney NSW 2052, Australia.
Chughtai AA
School of Public Health and Community Medicine, Faculty of Medicine, University of New South Wales, Sydney NSW 2052, Australia.
Stelzer-Braid S
School of Medical Sciences, Faculty of Medicine, University of New South Wales, Sydney NSW 2052, Australia. Virology Research Laboratory, Prince of Wales Hospital, Sydney NSW 2031, Australia.
Scotch M
Biodesign Center for Environmental Health Engineering, Biodesign Institute, Arizona State University, Tempe, AZ 85287, USA. College of Health Solutions, Arizona State University, Phoenix, AZ 85004, USA.
MacIntyre CR
Biosecurity Research Program, Kirby Institute, Faculty of Medicine, University of New South Wales, Sydney NSW 2052, Australia. College of Health Solutions, Arizona State University, Phoenix, AZ 85004, USA. College of Public Service and Community Solutions, Arizona State University, Tempe, AZ 85004, USA.

MeSH

AnimalsCamelusChiropteraCommunity-Acquired InfectionsCoronavirus InfectionsCross InfectionDisease OutbreaksDisease ReservoirsGenome, ViralHumansMiddle East Respiratory Syndrome CoronavirusMutationMutation RatePhylogeographySaudi Arabia

Pub Type(s)

Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

32422937

Citation

Chen, Xin, et al. "The Phylogeography of MERS-CoV in Hospital Outbreak-Associated Cases Compared to Sporadic Cases in Saudi Arabia." Viruses, vol. 12, no. 5, 2020.
Chen X, Adam DC, Chughtai AA, et al. The Phylogeography of MERS-CoV in Hospital Outbreak-Associated Cases Compared to Sporadic Cases in Saudi Arabia. Viruses. 2020;12(5).
Chen, X., Adam, D. C., Chughtai, A. A., Stelzer-Braid, S., Scotch, M., & MacIntyre, C. R. (2020). The Phylogeography of MERS-CoV in Hospital Outbreak-Associated Cases Compared to Sporadic Cases in Saudi Arabia. Viruses, 12(5). https://doi.org/10.3390/v12050540
Chen X, et al. The Phylogeography of MERS-CoV in Hospital Outbreak-Associated Cases Compared to Sporadic Cases in Saudi Arabia. Viruses. 2020 05 14;12(5) PubMed PMID: 32422937.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - The Phylogeography of MERS-CoV in Hospital Outbreak-Associated Cases Compared to Sporadic Cases in Saudi Arabia. AU - Chen,Xin, AU - Adam,Dillon Charles, AU - Chughtai,Abrar Ahmad, AU - Stelzer-Braid,Sacha, AU - Scotch,Matthew, AU - MacIntyre,Chandini Raina, Y1 - 2020/05/14/ PY - 2020/04/14/received PY - 2020/05/11/revised PY - 2020/05/12/accepted PY - 2020/5/20/entrez PY - 2020/5/20/pubmed PY - 2020/9/17/medline KW - MERS-CoV KW - epidemiology KW - hospital outbreaks KW - nosocomial KW - phylogenetics KW - phylogeography JF - Viruses JO - Viruses VL - 12 IS - 5 N2 - This study compared the phylogeography of MERS-CoV between hospital outbreak-associated cases and sporadic cases in Saudi Arabia. We collected complete genome sequences from human samples in Saudi Arabia and data on the multiple risk factors of human MERS-CoV in Saudi Arabia reported from 2012 to 2018. By matching each sequence to human cases, we identified isolates as hospital outbreak-associated cases or sporadic cases. We used Bayesian phylogenetic methods including temporal, discrete trait analysis and phylogeography to uncover transmission routes of MERS-CoV isolates between hospital outbreaks and sporadic cases. Of the 120 sequences collected between 19 June 2012 and 23 January 2017, there were 64 isolates from hospital outbreak-associated cases and 56 from sporadic cases. Overall, MERS-CoV is fast evolving at 7.43 × 10[-4] substitutions per site per year. Isolates from hospital outbreaks showed unusually fast evolutionary speed in a shorter time-frame than sporadic cases. Multiple introductions of different MERS-CoV strains occurred in three separate hospital outbreaks. MERS-CoV appears to be mutating in humans. The impact of mutations on viruses transmissibility in humans is unknown. SN - 1999-4915 UR - https://www.unboundmedicine.com/medline/citation/32422937/The_Phylogeography_of_MERS_CoV_in_Hospital_Outbreak_Associated_Cases_Compared_to_Sporadic_Cases_in_Saudi_Arabia_ DB - PRIME DP - Unbound Medicine ER -