COVID-19 and mutations a threat level assessment

Robinson, Jared; Banerjee, Indrajit; Leclézio, Alexandra; Sathian, Brijesh

doi:10.3126/nje.v11i1.35659

Cited by 13 publications

(8 citation statements)

References 18 publications

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“… 2021 ), and mutations of the virus (Robinson et al. 2021 ), the control of this epidemic is still facing great difficulties and challenges (Eaton 2021 ). It is worth noting that the COVID-19 epidemic, which was first reported in Wuhan, was successfully controlled within a few months.…”

Section: Introductionmentioning

confidence: 99%

Modeling and Evaluation of the Joint Prevention and Control Mechanism for Curbing COVID-19 in Wuhan

et al. 2022

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The spread of COVID-19 in Wuhan was successfully curbed under the strategy of “Joint Prevention and Control Mechanism.” To understand how this measure stopped the epidemics in Wuhan, we establish a compartmental model with time-varying parameters over different stages. In the early stage of the epidemic, due to resource limitations, the number of daily reported cases may lower than the actual number. We employ a dynamic-based approach to calibrate the accumulated clinically diagnosed data with a sudden jump on February 12 and 13. The model simulation shows reasonably good match with the adjusted data which allows the prediction of the cumulative confirmed cases. Numerical results reveal that the “Joint Prevention and Control Mechanism” played a significant role on the containment of COVID-19. The spread of COVID-19 cannot be inhibited if any of the measures was not effectively implemented. Our analysis also illustrates that the Fangcang Shelter Hospitals are very helpful when the beds in the designated hospitals are insufficient. Comprised with Fangcang Shelter Hospitals, the designated hospitals can contain the transmission of COVID-19 more effectively. Our findings suggest that the combined multiple measures are essential to curb an ongoing epidemic if the prevention and control measures can be fully implemented.

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Section: Introductionmentioning

confidence: 99%

Modeling and Evaluation of the Joint Prevention and Control Mechanism for Curbing COVID-19 in Wuhan

et al. 2022

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“…This is a well-established fact that over time viruses undergo genetic drift due to selection, resulting in a number of predominant variants that provide a challenge to any pandemic response. Although SARS-CoV-2 spreads rapidly, very little is known about the transmissibility and pathogenicity of the virus 12 . Therefore, thorough investigation and monitoring of the genetic sequences of SARS-CoV-2 are necessary to track its evolution; these data can reveal distinct epidemiological characteristics of the pathogen and should yield sufficient information for the design of therapeutics and vaccines 13 , 14 .…”

Section: Introductionmentioning

confidence: 99%

Whole-genome analysis and mutation pattern of SARS-CoV-2 during first and second wave outbreak in Gwangju, Republic of Korea

Chatterjee

Kim

Lee

et al. 2022

Sci Rep

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To investigate the specific genomic features and mutation pattern, whole and near-complete SARS-CoV-2 genome sequences were analyzed. Clinical samples were collected from 18 COVID-19–positive patients and subjected to nucleic acid purification. Cell culture was performed to extract various SARS-CoV-2 isolates. Whole-genome analysis was performed using next-generation sequencing, and phylogenetic analyses were conducted to determine genetic diversity of the various SARS-CoV-2 isolates. The next-generation sequencing data identified 8 protein-coding regions with 17 mutated proteins. We identified 51 missense point mutations and deletions in 5′ and 3′ untranslated regions. The phylogenetic analysis revealed that V and GH are the dominant clades of SARS-CoV-2 circulating in the Gwangju region of South Korea. Moreover, statistical analysis confirmed a significant difference between viral load (P < 0.001) and number of mutations (P < 0.0001) in 2 mutually exclusive SARS-CoV-2 clades which indicates frequent genomic alterations in SARS-CoV-2 in patients with high viral load. Our results provide an in-depth analysis of SARS-COV-2 whole genome which we believe, can shed light in the understanding of SARS-COV-2 pathogenesis and mutation pattern which can aid in the development of prevention methods as well as future research into the pathogenesis of SARS-CoV-2 and therapeutic development.

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“…A well-established fact is that all viruses undergo genetic drift over time due to selection pressure and give rise to a number of variants that challenge any pandemic response [ 41 , 42 ] Therefore, understanding the current variants are crucial in restricting the mode of transmission and developing new therapeutics against them. Multiple variants have been identified around the world so far including B.1.1.7 [ 43 ], B.1.351 [ 44 ], P.1 [ 45 ], B.1.427/B.1.429 [ 46 ] and B.1.617 [ 47 ].…”

Section: Introductionmentioning

confidence: 99%

Wave-wise comparative genomic study for revealing the complete scenario and dynamic nature of COVID-19 pandemic in Bangladesh

et al. 2021

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As the COVID-19 pandemic continues to ravage across the globe and take millions of lives and like many parts of the world, the second wave of the pandemic hit Bangladesh, this study aimed at understanding its causative agent, SARS-CoV-2 at the genomic and proteomic level and provide precious insights about the pathogenesis, evolution, strengths and weaknesses of the virus. As of Mid-June 2021, over 1500 SARS-CoV-2 genomesequences have been deposited in the GISAID database from Bangladesh which were extracted and categorized into two waves. By analyzing these genome sequences, it was discovered that the wave-2 samples had a significantly greater average rate of mutation/sample (30.79%) than the wave-1 samples (12.32%). Wave-2 samples also had a higher frequency of deletion, and transversion events. During the first wave, the GR clade was the most predominant but it was replaced by the GH clade in the latter wave. The B.1.1.25 variant showed the highest frequency in wave-1 while in case of wave-2, the B.1.351.3 variant, was the most common one. A notable presence of the delta variant, which is currently at the center of concern, was also observed. Comparison of the Spike protein found in the reference and the 3 most common lineages found in Bangladesh namely, B.1.1.7, B.1.351, B.1.617 in terms of their ability to form stable complexes with ACE2 receptor revealed that B.1.617 had the potential to be more transmissible than others. Importantly, no indigenous variants have been detected so far which implies that the successful prevention of import of foreign variants can diminish the outbreak in the country.

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COVID-19 and mutations a threat level assessment

Cited by 13 publications

References 18 publications

Modeling and Evaluation of the Joint Prevention and Control Mechanism for Curbing COVID-19 in Wuhan

Modeling and Evaluation of the Joint Prevention and Control Mechanism for Curbing COVID-19 in Wuhan

Whole-genome analysis and mutation pattern of SARS-CoV-2 during first and second wave outbreak in Gwangju, Republic of Korea

Wave-wise comparative genomic study for revealing the complete scenario and dynamic nature of COVID-19 pandemic in Bangladesh

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