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Related Concept Videos

Single Nucleotide Polymorphisms-SNPs01:05

Single Nucleotide Polymorphisms-SNPs

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A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...
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Author Spotlight: A Pseudotype Virus System for Assessing Omicron Subvariants and Neutralizing Antibodies in SARS-CoV-2 Research
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SARS-CoV-2 Omicron BA.2.75 Variant May Be Much More Infective than Preexisting Variants Based on In Silico Model.

Aki Sugano1,2, Yutaka Takaoka2,3,4,5,6,7, Haruyuki Kataguchi3,4

  • 1Center for Clinical Research, Toyama University Hospital, Toyama 930-0194, Japan.

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|October 27, 2022
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Summary
This summary is machine-generated.

The Omicron BA.2.75 variant shows the greatest evolutionary distance and highest binding affinity to human cells, suggesting it may spread more easily than other SARS-CoV-2 variants.

Keywords:
COVID-19SARS-CoV-2docking affinityevolutionary distancespike protein

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Area of Science:

  • Virology
  • Computational Biology
  • Molecular Modeling

Background:

  • Previous research established a mathematical model using molecular simulation to predict SARS-CoV-2 variant infectivity.
  • Newer SARS-CoV-2 variants, including Omicron BA.4/5 and BA.2.75, emerged, necessitating updated risk assessments.

Purpose of the Study:

  • To predict the relative infectivity risk of new SARS-CoV-2 variants, specifically Omicron BA.4/5 and BA.2.75.
  • To analyze the evolutionary distance of the spike (S) gene and molecular docking affinity with human ACE2 for these variants.

Main Methods:

  • Molecular simulation analysis was employed to determine the evolutionary distance of the S gene for BA.4/5 and BA.2.75 from the original Wuhan strain.
  • Molecular docking simulations were performed to assess the binding affinity of the spike proteins of these variants to human angiotensin-converting enzyme 2 (ACE2).

Main Results:

  • The Omicron BA.2.75 variant exhibited the longest evolutionary distance of the S gene from the Wuhan variant.
  • BA.2.75 also demonstrated the highest docking affinity to ACE2, with a higher ratio compared to the Wuhan variant.
  • These findings were compared against previously analyzed variants.

Conclusions:

  • The Omicron BA.2.75 variant possesses the greatest evolutionary divergence and strongest binding affinity to ACE2 among the studied SARS-CoV-2 variants.
  • These molecular characteristics suggest a potentially higher transmissibility for the BA.2.75 variant compared to previously circulating strains.