Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the country
Background: Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) has been proven to be lethal to human health, which affects almost every corner of the world. The objectives of this study were to add context to the global data and international genomic consortiums, and to give insight into t...
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2021-03-01
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| Series: | International Journal of Infectious Diseases |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S120197122032573X |
| _version_ | 1818717943117119488 |
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| author | Samira Al-Mahruqi Adil Al-Wahaibi Abdul Latif Khan Amina Al-Jardani Sajjad Asaf Hanan Alkindi Samiha Al-Kharusi Ahmed N. Al-Rawahi Ahmed Al-Rawahi Majid Al-Salmani Intisar Al-Shukri Aisha Al-Busaidi Seif Salem Al-Abri Ahmed Al-Harrasi |
| author_facet | Samira Al-Mahruqi Adil Al-Wahaibi Abdul Latif Khan Amina Al-Jardani Sajjad Asaf Hanan Alkindi Samiha Al-Kharusi Ahmed N. Al-Rawahi Ahmed Al-Rawahi Majid Al-Salmani Intisar Al-Shukri Aisha Al-Busaidi Seif Salem Al-Abri Ahmed Al-Harrasi |
| author_sort | Samira Al-Mahruqi |
| collection | DOAJ |
| description | Background: Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) has been proven to be lethal to human health, which affects almost every corner of the world. The objectives of this study were to add context to the global data and international genomic consortiums, and to give insight into the efficiency of the contact tracing system in Oman. Methods: We combined epidemiological data and whole-genome sequence data from 94 samples of SARS-CoV-2 in Oman to understand the origins, genetic variation, and transmissibility. The whole-genome size of sequence data was obtained through a customized SARS-COV-2 research panel. Amplifier methods ranged from 26 Kbp to 30 Kbp and were submitted to GISAID. Findings: The study found that P323L (94.7%) is the most common mutation, followed by D614G (92.6%) Spike protein mutation. A unique mutation, I280V, was first reported in Oman and was associated with a rare lineage, B.1.113 (10.6%). In addition, the study revealed a good agreement between genetic and epidemiological data. Interpretation: Oman’s robust surveillance system was very efficient in guiding the outbreak investigation processes in the country, the study illustrates the future importance of molecular epidemiology in leading the national response to outbreaks and pandemics. |
| first_indexed | 2024-12-17T19:43:11Z |
| format | Article |
| id | doaj.art-0474d0ec65354f3bb104d8c3063e6dc9 |
| institution | Directory Open Access Journal |
| issn | 1201-9712 |
| language | English |
| last_indexed | 2024-12-17T19:43:11Z |
| publishDate | 2021-03-01 |
| publisher | Elsevier |
| record_format | Article |
| series | International Journal of Infectious Diseases |
| spelling | doaj.art-0474d0ec65354f3bb104d8c3063e6dc92022-12-21T21:34:56ZengElsevierInternational Journal of Infectious Diseases1201-97122021-03-01104139149Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the countrySamira Al-Mahruqi0Adil Al-Wahaibi1Abdul Latif Khan2Amina Al-Jardani3Sajjad Asaf4Hanan Alkindi5Samiha Al-Kharusi6Ahmed N. Al-Rawahi7Ahmed Al-Rawahi8Majid Al-Salmani9Intisar Al-Shukri10Aisha Al-Busaidi11Seif Salem Al-Abri12Ahmed Al-Harrasi13Directorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, OmanDirectorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, OmanNatural and Medical Sciences Research Center, University of Nizwa, P.O. Box 33, PC 616 Nizwa, OmanDirectorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, OmanNatural and Medical Sciences Research Center, University of Nizwa, P.O. Box 33, PC 616 Nizwa, OmanDirectorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, OmanDirectorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, OmanNatural and Medical Sciences Research Center, University of Nizwa, P.O. Box 33, PC 616 Nizwa, OmanNatural and Medical Sciences Research Center, University of Nizwa, P.O. Box 33, PC 616 Nizwa, OmanNatural and Medical Sciences Research Center, University of Nizwa, P.O. Box 33, PC 616 Nizwa, OmanDirectorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, OmanDirectorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, OmanDirectorate General for Disease Surveillance and Control, Ministry of Health, Sultanate of Oman, P.O. Box 393, PC 100 Muscat, Oman; Corresponding authors.Natural and Medical Sciences Research Center, University of Nizwa, P.O. Box 33, PC 616 Nizwa, Oman; Corresponding authors.Background: Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) has been proven to be lethal to human health, which affects almost every corner of the world. The objectives of this study were to add context to the global data and international genomic consortiums, and to give insight into the efficiency of the contact tracing system in Oman. Methods: We combined epidemiological data and whole-genome sequence data from 94 samples of SARS-CoV-2 in Oman to understand the origins, genetic variation, and transmissibility. The whole-genome size of sequence data was obtained through a customized SARS-COV-2 research panel. Amplifier methods ranged from 26 Kbp to 30 Kbp and were submitted to GISAID. Findings: The study found that P323L (94.7%) is the most common mutation, followed by D614G (92.6%) Spike protein mutation. A unique mutation, I280V, was first reported in Oman and was associated with a rare lineage, B.1.113 (10.6%). In addition, the study revealed a good agreement between genetic and epidemiological data. Interpretation: Oman’s robust surveillance system was very efficient in guiding the outbreak investigation processes in the country, the study illustrates the future importance of molecular epidemiology in leading the national response to outbreaks and pandemics.http://www.sciencedirect.com/science/article/pii/S120197122032573XSARS-CoV-2COVID-19 epidemiologyPhylogenomic analysisCladeMutationOman |
| spellingShingle | Samira Al-Mahruqi Adil Al-Wahaibi Abdul Latif Khan Amina Al-Jardani Sajjad Asaf Hanan Alkindi Samiha Al-Kharusi Ahmed N. Al-Rawahi Ahmed Al-Rawahi Majid Al-Salmani Intisar Al-Shukri Aisha Al-Busaidi Seif Salem Al-Abri Ahmed Al-Harrasi Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the country International Journal of Infectious Diseases SARS-CoV-2 COVID-19 epidemiology Phylogenomic analysis Clade Mutation Oman |
| title | Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the country |
| title_full | Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the country |
| title_fullStr | Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the country |
| title_full_unstemmed | Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the country |
| title_short | Molecular epidemiology of COVID-19 in Oman: A molecular and surveillance study for the early transmission of COVID-19 in the country |
| title_sort | molecular epidemiology of covid 19 in oman a molecular and surveillance study for the early transmission of covid 19 in the country |
| topic | SARS-CoV-2 COVID-19 epidemiology Phylogenomic analysis Clade Mutation Oman |
| url | http://www.sciencedirect.com/science/article/pii/S120197122032573X |
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