Reliable typing of MERS-CoV variants with a small genome fragment

Journal of Clinical Virology : the Official Publication of the Pan American Society for Clinical Virology
Saskia L SmitsMarion P G Koopmans

Abstract

Middle East Respiratory Syndrome coronavirus (MERS-CoV) is an emerging pathogen that causes lower respiratory tract infection in humans. Camels are the likely animal source for zoonotic infection, although exact transmission modes remain to be determined. Human-to-human transmission occurs sporadically. The wide geographic distribution of MERS-CoV among dromedary camels and ongoing transmissions to humans provides concern for the evolution of a MERS-CoV variant with efficient human-to-human transmission capabilities. Phylogenetic analysis of MERS-CoV has occurred by analysis of full-length genomes or multiple concatenated genome fragments, which is time-consuming, costly and limited to high viral load samples. To develop a simple, reliable MERS-CoV variant typing assay to facilitate monitoring of MERS-CoV diversity in animals and humans. Phylogenetic analysis of presently known full-length MERS-CoV genomes was performed to identify genomic regions with sufficient phylogenetic content to allow reliable MERS-CoV variant typing. RT-PCR assays targeting these regions were designed and optimized. A reverse-transcription PCR assay for MERS-CoV targeting a 615 bp spike fragment provides a phylogenetic clustering of MERS-CoV variants c...Continue Reading

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Citations

Feb 2, 2016·Current Opinion in Virology·Chantal Bem ReuskenBart L Haagmans
Dec 18, 2015·Euro Surveillance : Bulletin Européen Sur Les Maladies Transmissibles = European Communicable Disease Bulletin·Daniel Kw ChuMalik Peiris
Dec 24, 2015·Virology Journal·Ian M Mackay, Katherine E Arden
Feb 7, 2015·Virus Research·Ian M Mackay, Katherine E Arden
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Jan 5, 2017·Emerging Microbes & Infections·Mohamed A AliGhazi Kayali
Mar 3, 2018·Viruses·Aasiyah Chafekar, Burtram C Fielding
May 14, 2017·Frontiers of Medicine·Ali A RabaanJaffar A Al-Tawfiq
Dec 23, 2015·Emerging Infectious Diseases·Abdullah AssiriJohn T Watson
Oct 11, 2020·Vaccines·Nongluk Sriwilaijaroen, Yasuo Suzuki
May 2, 2021·Virology Journal·Mohamed A FarragFahad N Almajhdi
May 10, 2021·Zoonoses and Public Health·Yuan-Qing PanLi Xing

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Datasets Mentioned

BETA
JX869059

Methods Mentioned

BETA
PCR

Software Mentioned

BioEdit
PhyML
Seaview
FastGroupII
UpE
MAFFT

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