Spike S2 Subunit: Possible Target for Detecting Novel SARS-CoV-2 Variants with Multiple Mutations
Abstract
:1. Introduction
2. Materials and Methods
2.1. Clinical Specimens and Nucleic Acid Extraction
2.2. Primers and Probe Design
2.3. The Validation of S2 Primers and Probe
2.4. Checking for Mismatch in Primers and Probe
2.5. Statistical Analysis
2.6. Ethical Statement
3. Results
3.1. The Validation of S2 Primers and Probe
3.2. Mutations within the Binding Site of S2 Primers and Probe
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Primer | Lineage | Country | Mutation in Primer | Mutation in 3′ End | Number Sequences | Frequency (Total 230,821) |
---|---|---|---|---|---|---|
S2F | BA.1.1.7 | India | 18 | 5 | 1 | 0.0004% |
Unassigned | India | 5 | 5 | 1 | 0.0004% | |
B.1.1 | Turkey | 4 | 4 | 1 | 0.0004% | |
B.1.1 | Turkey | 3 | 3 | 1 | 0.0004% | |
BA.1 | Turkey | 3 | 2 | 1 | 0.0004% | |
B.1.1 | Turkey | 2 | 2 | 1 | 0.0004% | |
BA.5.3.2 | Germany | 4 | 1 | 1 | 0.0004% | |
1 | 1 | 65 | 0.0282% | |||
S2R | Unassigned | USA | 4 | 4 | 1 | 0.0004% |
B.1.1.529 | USA | 4 | 3 | 1 | 0.0004% | |
BA.2 | Turkey | 3 | 3 | 1 | 0.0004% | |
BA.1 | Turkey | 3 | 1 | 1 | 0.0004% | |
1 | 1 | 171 | 0.0741% | |||
S2Pr | BA.1 | Turkey | 4 | 4 | 1 | 0.0004% |
BE.1 | Turkey | 3 | 3 | 1 | 0.0004% | |
BA.2.12.1 | USA | 3 | 3 | 1 | 0.0004% | |
BA.1 | USA | 2 | 2 | 1 | 0.0004% | |
1 | 1 | 44 | 0.0191% |
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Ponpinit, T.; Joyjinda, Y.; Ampoot, W.; Yomrat, S.; Virojanapirom, P.; Ruchisrisarod, C.; Saraya, A.W.; Hemachudha, P.; Hemachudha, T. Spike S2 Subunit: Possible Target for Detecting Novel SARS-CoV-2 Variants with Multiple Mutations. Trop. Med. Infect. Dis. 2024, 9, 50. https://doi.org/10.3390/tropicalmed9020050
Ponpinit T, Joyjinda Y, Ampoot W, Yomrat S, Virojanapirom P, Ruchisrisarod C, Saraya AW, Hemachudha P, Hemachudha T. Spike S2 Subunit: Possible Target for Detecting Novel SARS-CoV-2 Variants with Multiple Mutations. Tropical Medicine and Infectious Disease. 2024; 9(2):50. https://doi.org/10.3390/tropicalmed9020050
Chicago/Turabian StylePonpinit, Teerada, Yutthana Joyjinda, Weenassarin Ampoot, Siriporn Yomrat, Phatthamon Virojanapirom, Chanida Ruchisrisarod, Abhinbhen W. Saraya, Pasin Hemachudha, and Thiravat Hemachudha. 2024. "Spike S2 Subunit: Possible Target for Detecting Novel SARS-CoV-2 Variants with Multiple Mutations" Tropical Medicine and Infectious Disease 9, no. 2: 50. https://doi.org/10.3390/tropicalmed9020050
APA StylePonpinit, T., Joyjinda, Y., Ampoot, W., Yomrat, S., Virojanapirom, P., Ruchisrisarod, C., Saraya, A. W., Hemachudha, P., & Hemachudha, T. (2024). Spike S2 Subunit: Possible Target for Detecting Novel SARS-CoV-2 Variants with Multiple Mutations. Tropical Medicine and Infectious Disease, 9(2), 50. https://doi.org/10.3390/tropicalmed9020050