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Comparative analysis of the genome structure and organization of the Middle East respiratory syndrome coronavirus (MERS-CoV) 2012 to 2019 revealing evidence for virus strain barcoding, zoonotic transmission, and selection pressure.
Rev Med Virol. 2021 01; 31(1):1-12.RM

Abstract

The Middle East respiratory syndrome coronavirus (MERS-CoV) emerged in late 2012 in Saudi Arabia. For this study, we conducted a large-scale comparative genome study of MERS-CoV from both human and dromedary camels from 2012 to 2019 to map any genetic changes that emerged in the past 8 years. We downloaded 1309 submissions, including 308 full-length genome sequences of MERS-CoV available in GenBank from 2012 to 2019. We used bioinformatics tools to describe the genome structure and organization of the virus and to map the most important motifs within various regions/genes throughout the genome over the past 8 years. We also monitored variations/mutations among these sequences since its emergence. Our phylogenetic analyses suggest that the cluster within African camels is derived by S gene. We identified some prominent motifs within the ORF1ab, S gene and ORF-5, which may be used for barcoding the African camel lineages of MERS-CoV. Furthermore, we mapped some sequence patterns that support the zoonotic origin of the virus from dromedary camels. Other sequences identified selection pressures, particularly within the N gene and the 5' UTR. Further studies are required for careful monitoring of the MERS-CoV genome to identify any potential significant mutations in the future.

Authors+Show Affiliations

Department of Biological Sciences, College of Science, King Faisal University, Al-Ahsa, Saudi Arabia.Department of Microbiology, College of Veterinary Medicine, King Faisal University, Al-Ahsa, Saudi Arabia. Department of Virology, Faculty of Veterinary Medicine, Kafrelsheikh University, Kafr el-Sheikh, Egypt.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't
Review

Language

eng

PubMed ID

32803835

Citation

Ba Abduallah, Mohamed M., and Maged Gomaa Hemida. "Comparative Analysis of the Genome Structure and Organization of the Middle East Respiratory Syndrome Coronavirus (MERS-CoV) 2012 to 2019 Revealing Evidence for Virus Strain Barcoding, Zoonotic Transmission, and Selection Pressure." Reviews in Medical Virology, vol. 31, no. 1, 2021, pp. 1-12.
Ba Abduallah MM, Hemida MG. Comparative analysis of the genome structure and organization of the Middle East respiratory syndrome coronavirus (MERS-CoV) 2012 to 2019 revealing evidence for virus strain barcoding, zoonotic transmission, and selection pressure. Rev Med Virol. 2021;31(1):1-12.
Ba Abduallah, M. M., & Hemida, M. G. (2021). Comparative analysis of the genome structure and organization of the Middle East respiratory syndrome coronavirus (MERS-CoV) 2012 to 2019 revealing evidence for virus strain barcoding, zoonotic transmission, and selection pressure. Reviews in Medical Virology, 31(1), 1-12. https://doi.org/10.1002/rmv.2150
Ba Abduallah MM, Hemida MG. Comparative Analysis of the Genome Structure and Organization of the Middle East Respiratory Syndrome Coronavirus (MERS-CoV) 2012 to 2019 Revealing Evidence for Virus Strain Barcoding, Zoonotic Transmission, and Selection Pressure. Rev Med Virol. 2021;31(1):1-12. PubMed PMID: 32803835.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Comparative analysis of the genome structure and organization of the Middle East respiratory syndrome coronavirus (MERS-CoV) 2012 to 2019 revealing evidence for virus strain barcoding, zoonotic transmission, and selection pressure. AU - Ba Abduallah,Mohamed M, AU - Hemida,Maged Gomaa, Y1 - 2020/08/17/ PY - 2020/06/09/received PY - 2020/07/09/revised PY - 2020/07/10/accepted PY - 2020/8/18/pubmed PY - 2021/2/9/medline PY - 2020/8/18/entrez KW - MERS-CoV KW - bioinformatics KW - coronaviruses KW - evolution KW - genome KW - organization KW - phylogenetic analysis SP - 1 EP - 12 JF - Reviews in medical virology JO - Rev Med Virol VL - 31 IS - 1 N2 - The Middle East respiratory syndrome coronavirus (MERS-CoV) emerged in late 2012 in Saudi Arabia. For this study, we conducted a large-scale comparative genome study of MERS-CoV from both human and dromedary camels from 2012 to 2019 to map any genetic changes that emerged in the past 8 years. We downloaded 1309 submissions, including 308 full-length genome sequences of MERS-CoV available in GenBank from 2012 to 2019. We used bioinformatics tools to describe the genome structure and organization of the virus and to map the most important motifs within various regions/genes throughout the genome over the past 8 years. We also monitored variations/mutations among these sequences since its emergence. Our phylogenetic analyses suggest that the cluster within African camels is derived by S gene. We identified some prominent motifs within the ORF1ab, S gene and ORF-5, which may be used for barcoding the African camel lineages of MERS-CoV. Furthermore, we mapped some sequence patterns that support the zoonotic origin of the virus from dromedary camels. Other sequences identified selection pressures, particularly within the N gene and the 5' UTR. Further studies are required for careful monitoring of the MERS-CoV genome to identify any potential significant mutations in the future. SN - 1099-1654 UR - https://www.unboundmedicine.com/medline/citation/32803835/Comparative_analysis_of_the_genome_structure_and_organization_of_the_Middle_East_respiratory_syndrome_coronavirus__MERS_CoV__2012_to_2019_revealing_evidence_for_virus_strain_barcoding_zoonotic_transmission_and_selection_pressure_ L2 - https://doi.org/10.1002/rmv.2150 DB - PRIME DP - Unbound Medicine ER -