Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron
The prolonged global spread and community transmission of severe acute respiratory syndrome virus 2 (SARS-CoV-2) has led to the emergence of variants and brought questions regarding disease severity and vaccine effectiveness. We conducted simple bioinformatics on the spike gene of a representative o...
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| Format: | Article |
| Language: | English |
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Wiley
2022-01-01
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| Series: | Biochemistry Research International |
| Online Access: | http://dx.doi.org/10.1155/2022/2164749 |
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| author | Gusti Ngurah Mahardika Nyoman B. Mahendra Bayu K. Mahardika Ida B. K. Suardana Made Pharmawati |
| author_facet | Gusti Ngurah Mahardika Nyoman B. Mahendra Bayu K. Mahardika Ida B. K. Suardana Made Pharmawati |
| author_sort | Gusti Ngurah Mahardika |
| collection | DOAJ |
| description | The prolonged global spread and community transmission of severe acute respiratory syndrome virus 2 (SARS-CoV-2) has led to the emergence of variants and brought questions regarding disease severity and vaccine effectiveness. We conducted simple bioinformatics on the spike gene of a representative of each variant. The data show that a number of polymorphic amino acids are located mostly on the amino-terminal side of the S1/S2 cleavage site. The Omicron variant diverges from the others, with the highest number of amino acid substitutions, including the receptor-binding site (RBS), epitopes, S1/S2 cleavage site, fusion peptide, and heptad repeat 1. The current sharp global increase in the frequency of the Omicron genome constitutes evidence of its high community transmissibility. In conclusion, the proposed guideline could give an immediate insight of the probable biological nature of any variant of SARS-Cov-2. As the Omicron diverged the farthest from the original pandemic strain, Wuhan-Hu-1, we expect different epidemiological and clinical patterns of Omicron cases. On vaccine efficacy, slight changes in some epitopes while others are conserved should not lead to a significant reduction in the effectiveness of an approved vaccine. |
| format | Article |
| id | doaj-art-d54b9bdb635e475f86eeba88ec03fe44 |
| institution | OA Journals |
| issn | 2090-2255 |
| language | English |
| publishDate | 2022-01-01 |
| publisher | Wiley |
| record_format | Article |
| series | Biochemistry Research International |
| spelling | doaj-art-d54b9bdb635e475f86eeba88ec03fe442025-08-20T02:19:58ZengWileyBiochemistry Research International2090-22552022-01-01202210.1155/2022/2164749Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including OmicronGusti Ngurah Mahardika0Nyoman B. Mahendra1Bayu K. Mahardika2Ida B. K. Suardana3Made Pharmawati4The Animal Biomedical and Molecular Biology LaboratoryThe Department of Obstetrics and GenecologyThe Animal Biomedical and Molecular Biology LaboratoryVirology LaboratoryThe Biology Study ProgramThe prolonged global spread and community transmission of severe acute respiratory syndrome virus 2 (SARS-CoV-2) has led to the emergence of variants and brought questions regarding disease severity and vaccine effectiveness. We conducted simple bioinformatics on the spike gene of a representative of each variant. The data show that a number of polymorphic amino acids are located mostly on the amino-terminal side of the S1/S2 cleavage site. The Omicron variant diverges from the others, with the highest number of amino acid substitutions, including the receptor-binding site (RBS), epitopes, S1/S2 cleavage site, fusion peptide, and heptad repeat 1. The current sharp global increase in the frequency of the Omicron genome constitutes evidence of its high community transmissibility. In conclusion, the proposed guideline could give an immediate insight of the probable biological nature of any variant of SARS-Cov-2. As the Omicron diverged the farthest from the original pandemic strain, Wuhan-Hu-1, we expect different epidemiological and clinical patterns of Omicron cases. On vaccine efficacy, slight changes in some epitopes while others are conserved should not lead to a significant reduction in the effectiveness of an approved vaccine.http://dx.doi.org/10.1155/2022/2164749 |
| spellingShingle | Gusti Ngurah Mahardika Nyoman B. Mahendra Bayu K. Mahardika Ida B. K. Suardana Made Pharmawati Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron Biochemistry Research International |
| title | Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron |
| title_full | Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron |
| title_fullStr | Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron |
| title_full_unstemmed | Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron |
| title_short | Annotating Spike Protein Polymorphic Amino Acids of Variants of SARS-CoV-2, Including Omicron |
| title_sort | annotating spike protein polymorphic amino acids of variants of sars cov 2 including omicron |
| url | http://dx.doi.org/10.1155/2022/2164749 |
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