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DOI: 10.1055/s-0041-1725143
Concise Update on Genomics of COVID-19: Approach to Its latest Mutations, Escalated Contagiousness, and Vaccine Resistance
Funding None.![](https://www.thieme-connect.de/media/10.1055-s-00046370/202103/lookinside/thumbnails/10-1055-s-0041-1725143_2100009-1.jpg)
Abstract
The novel coronavirus disease 2019 (COVID-19) that started to invade the world from the Chinese fish market, causes an acute respiratory distress syndrome. COVID-19 is a dreadful infectious disease that surfaced only less than 8 months ago and caused the deadly COVID-19 pandemic. In this new species with a positive, single-strand RNA genome and a huge size, from the proteomics point view, there are no changes in sequences of amino acids in NSP7, 13, matrix, or envelope or other proteins including 8b and p6 and excluding NSP2 and NSP3. P6 is a multifunctional golgi–endoplasmic reticulum membrane-associated protein. This complex has a key duty to increase the replication rate of the virus and also causes intrinsic immune system responses by suppressing the signal transducer and activator of transcription factor 1 (STAT 1) translocated to the nucleus. Palmitoylated proteins elevate hydrophobicity which helps in membrane connection. Inside the N-linked glycosylation, moieties oligosaccharide is adhering to Asn-X-Ser/Thr canonical sequence. This helps for exact enfolding and carrying viral proteins by industriously using host's chaperon proteins including calreticulin and calnexin. 2B proteins encourage the internalization of major histocompatibility complex, class-I (MHC-I) protein and meanwhile inhibit their transfer to the surface of the cell as a recognition side. The deubiquitination of severe acute respiratory syndrome-coronavirus-2 (SARS-CoV-2) has precise modification apparatus in the posttranslational stage. In this article, we outlined the recent and up-to-date data on genomic and molecular structures, epidemiology, vaccine development, and, last but not least, the clinical features, diagnostics, and treatment of the novel coronavirus.
Authors' Contributions
A.K. did the conceptualization. A.K. and S.J. jointly performed the investigation under administration and supervision of F.K. and M.Y.A. Manuscript preparation and editing were done by A.K. and M.Y.A.
Publication History
Article published online:
15 March 2021
© 2021. The Author(s). This is an open access article published by Thieme under the terms of the Creative Commons Attribution License, permitting unrestricted use, distribution, and reproduction so long as the original work is properly cited. (https://creativecommons.org/licenses/by/4.0/)
Georg Thieme Verlag KG
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References
- 1 Andersen KG, Rambaut A, Lipkin WI, Holmes EC, Garry RF. The proximal origin of SARS-CoV-2. Nat Med 2020; 26 (04) 450-452
- 2 Jimenez-Guardeño JM, Nieto-Torres JL, DeDiego ML. et al. The PDZ-binding motif of severe acute respiratory syndrome coronavirus envelope protein is a determinant of viral pathogenesis. PLoS Pathog 2014; 10 (08) e1004320
- 3 World Health Organization. Coronavirus disease (COVID-19) weekly epidemiological update and weekly operational update. Accessed August 10, 2020 at: https://www.who.int/emergencies/diseases/novel-coronavirus-2019/situation-reports
- 4 Dursun A. Iran: 6-year-old child dies from coronavirus. Accessed July 24, 2020 at: https://www.aa.com.tr/en/latest-on-coronavirus-outbreak/iran-6-year-old-child-dies-from-coronavirus/1777045
- 5 Increased coronary neonates and the need to change approach to the virus. Accessed August 10, 2020 at: https://www.irna.ir/news/83844807/
- 6 Infection of more than 80 children with coronavirus in Akbar Hospital in Mashhad. Accessed on August 10, 2020 at: https://www.yjc.ir/fa/news/7446820/
- 7 Khodavirdipour A, Keramat F, Hashemi SH, Alikhani MY. SARS-CoV-2; from vaccine development to drug discovery and prevention guidelines. AIMS Mol Sci 2020; 7 (03) 281
- 8 Dong S, Sun J, Mao Z, Wang L, Lu YL, Li J. A guideline for homology modeling of the proteins from newly discovered betacoronavirus, 2019 novel coronavirus (2019-nCoV). J Med Virol 2020; 92 (09) 1542-1548
- 9 Coronavirus death toll climbs in China, and a lockdown widens. Accessed August 10, 2020 at: https://www.nytimes.com/2020/01/23/world/asia/china-coronavirus.html
- 10 Coronavirus latest updates. Accessed August 10, 2020 at: https://www.qatarairways.com/en-qa/travel-alerts/COVID-19-update.html
- 11 Tan J, Liu S, Zhuang L. et al. Transmission and clinical characteristics of asymptomatic patients with SARS-CoV-2 infection. Future Virol 2020
- 12 Bhowmick GD, Dhar D, Nath D. et al. Coronavirus disease 2019 (COVID-19) outbreak: some serious consequences with urban and rural water cycle. NPJ Clean Water 2020; 3 (01) 1-8
- 13 Schoeman D, Fielding BC. Coronavirus envelope protein: current knowledge. Virol J 2019; 16 (01) 69
- 14 Lan J, Ge J, Yu J. et al. Structure of the SARS-CoV-2 spike receptor-binding domain bound to the ACE2 receptor. Nature 2020; 581 (7807): 215-220
- 15 Greaney AJ, Starr TN, Gilchuk P, Zost SJ, Binshtein E, Loes AN. et al. Complete mapping of mutations to the SARS-CoV-2 spike receptor-binding domain that escape antibody recognition. Cell host & microbe 2021; 29 (01) 44-57
- 16 Young BE, Fong SW, Chan YH. et al. Effects of a major deletion in the SARS-CoV-2 genome on the severity of infection and the inflammatory response: an observational cohort study. Lancet 2020; 396 (10251): 603-611
- 17 Wise J. Covid-19: New coronavirus variant is identified in UK. BMJ 2020; 371: m4857
- 18 Even more contagious? Here's what you need to know about the mutating virus now in California. Accessed February 14, 2021 at: https://www.capradio.org/articles/2021/01/04/even-more-contagious-heres-what-you-need-to-know-about-the-mutating-virus-now-in-california/
- 19 McBride CE, Machamer CE. Palmitoylation of SARS-CoV S protein is necessary for partitioning into detergent-resistant membranes and cell-cell fusion but not interaction with M protein. Virology 2010; 405 (01) 139-148
- 20 Du Y, Zuckermann FA, Yoo D. Myristoylation of the small envelope protein of porcine reproductive and respiratory syndrome virus is non-essential for virus infectivity but promotes its growth. Virus Res 2010; 147 (02) 294-299
- 21 Merad M, Martin JC. Pathological inflammation in patients with COVID-19: a key role for monocytes and macrophages. Nat Rev Immunol 2020; 20: 355-362
- 22 Farag NS, Breitinger U, Breitinger HG, El Azizi MA. Viroporins and inflammasomes: a key to understand virus-induced inflammation. Int J Biochem Cell Biol 2020; 122: 105738
- 23 Fung TS, Liu DX. Post-translational modifications of coronavirus proteins: roles and function. Future Virol 2018; 13 (06) 405-430
- 24 Watanabe Y, Berndsen ZT, Raghwani J. et al. Vulnerabilities in coronavirus glycan shields despite extensive glycosylation. Nat Commun 2020; 11 (01) 2688
- 25 Xiong Y, Liu Y, Cao L. et al. Transcriptomic characteristics of bronchoalveolar lavage fluid and peripheral blood mononuclear cells in COVID-19 patients. Emerg Microbes Infect 2020; 9 (01) 761-770
- 26 Recommendations for investigational COVID-19 convalescent plasma. Accessed August 10, 2020 at: https://www.fda.gov/vaccines-blood-biologics/investigational-new-drug-ind-or-device-exemption-ide-process-cber/recommendations-investigational-covid-19-convalescent-plasma
- 27 Antirheumatic drug linked to reduced ventilator time for patients with severe COVID-19. Accessed August 19, 2020 at: https://news.ki.se/approved-drug-reduces-ventilator-time-for-patients-with-severe-covid-19
- 28 Wang J, Wang Z. Strengths, weaknesses, opportunities and threats (Swot) analysis of china's prevention and control strategy for the covid-19 epidemic. Int J Environ Res Public Health 2020; 17 (07) 2235
- 29 World Health Organization. Coronavirus disease (COVID-19) advice for the public. Accessed August 10, 2020 at: https://www.who.int/emergencies/diseases/novel-coronavirus-2019/advice-for-public#:~:text=To%20protect%20yourself%20and%20others,sanitizers%20out%20of%20children's%20reach
- 30 Takian A, Raoofi A, Kazempour-Ardebili S. COVID-19 battle during the toughest sanctions against Iran. Lancet 2020; 395 (10229): 1035-1036
- 31 Iranian think tank rejects herd immunity as a way to tackle COVID-19. Accessed August 29, 2020 at: https://www.tasnimnews.com/en/news/2020/07/22/2312382/iranian-think-tank-rejects-herd-immunity-as-a-way-to-tackle-covid-19
- 32 Orlowski EJW, Goldsmith DJA. Four months into the COVID-19 pandemic, Sweden's prized herd immunity is nowhere in sight. J R Soc Med 2020; 113 (08) 292-298
- 33 Coronavirus vaccine tracker. Accessed August 10, 2020 at: https://www.nytimes.com/interactive/2020/science/coronavirus-vaccine-tracker.html
- 34 Pfizer-BioNTech vaccine not affected by mutation seen in contagious coronavirus variant, study indicates. Accessed February 9, 2021 at: https://www.statnews.com/2021/01/08/pfizer-biontech-vaccine-mutation-contagious/