دورية أكاديمية
COMPARISON OF SARS-COV2 GENOME SEQUENCES FROM PAKISTAN WITH GENOME SEQUENCES FROM OTHER COUNTRIES
| العنوان: | COMPARISON OF SARS-COV2 GENOME SEQUENCES FROM PAKISTAN WITH GENOME SEQUENCES FROM OTHER COUNTRIES |
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| المؤلفون: | Muhammad Tariq, Fatima Jehan, Nooria Ali Liaqat, Mehnaz, Umar Farooq |
| المصدر: | Khyber Medical University Journal, Vol 13, Iss 3, Pp 136-41 (2021) |
| بيانات النشر: | Khyber Medical University, 2021. |
| سنة النشر: | 2021 |
| المجموعة: | LCC:Medicine |
| مصطلحات موضوعية: | sars-cov-2, sars-cov-2 variants, whole genome sequencing, phylogenetics, spike protein sars-cov-2, spike protein, receptor binding domain, whole genome, rbd, Medicine |
| الوصف: | OBJECTIVE: To analyze SARS-CoV-2 whole genome reported of Pakistan and compare them with other viral strains collected from other world region to better understand the origin and genetic characterization of the virus. METHODS: All the available genomic information of SARS-CoV-2 including Pakistani strains were collected from various online sources. Phylogenetic analysis of 131 sequences from 11 countries (Brazil, China, India, Italy, Nepal, Pakistan, Spain, Sweden, Taiwan, USA and Viet-Nam) were performed and compared with other related coronaviruses to find the evolution of virus and its origin. Individual SARS-CoV-2 gene, spike (S) glycoprotein and the receptor binding domain (RBD) with closely related coronaviruses were compared to further explore genetic variations and the likely RBD properties of the virus. RESULTS: The analysis shows that genome of all analyzed 131 SARS-CoV-2 strains collected from different geographical area were extremely similar, exhibiting >99% sequence identity. Notably, genome of the SARS-CoV-2 has high similarity (89.1% sequence identity) with the two bat-derived severe acute respiratory syndrome (SARS) like betacoronaviruses, bat-SL-CoVZC45 and bat-SL-CoVZXC21 but was sufficiently divergent from SARS-CoV (82.3% similarity) and MERS-CoV (50% similarity). Phylogenetic analysis shows that the SARS-CoV-2 has relatively similar spike glycoprotein with bat-SL-CoVZC45, however, the RBD was more like that of SARS-CoVGZ02. CONCLUSION: Using different bioinformatics tools, we determined that SARS-CoV-2 has high similarities to bat-derived SARS like betacoronaviruses than SARS-CoV at the whole genome level, however, the RBD was more like that of SARS-CoVGZ02, which shows that they use similar ACE2 as a cell receptor. |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 2305-2643 2305-2651 |
| العلاقة: | https://www.kmuj.kmu.edu.pk/article/view/20999Test; https://doaj.org/toc/2305-2643Test; https://doaj.org/toc/2305-2651Test |
| DOI: | 10.35845/kmuj.2021.20999 |
| الوصول الحر: | https://doaj.org/article/c443efdeb6b64cd19e61ad4a9e988aa8Test |
| رقم الانضمام: | edsdoj.443efdeb6b64cd19e61ad4a9e988aa8 |
| قاعدة البيانات: | Directory of Open Access Journals |
| تدمد: | 23052643 23052651 |
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| DOI: | 10.35845/kmuj.2021.20999 |