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Genetic epidemiology of variants associated with immune escape from global SARS-CoV-2 genomes
Open accessAbstract
Many antibody and immune escape variants in SARS-CoV-2 are now documented in literature. The availability of SARS-CoV-2 genome sequences enabled us to investigate the occurrence and genetic epidemiology of the variants globally. Our analysis suggests that a number of genetic variants associated with immune escape have emerged in global populations.
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Reinfection can be common in settings where escape variants such as beta (B.1.351), gamma (P.1), and delta (B.1.617.2) are present.
“Because reinfection can be common in settings where escape variants such as beta (B.1.351), gamma (P.1), and delta (B.1.617.2) are present,28, 29, 30”
From Estimating global, regional, and national daily and cumulative infections with SARS-CoV-2 through Nov 14, 2021: a statistical analysis (2022) · cites this paper as [29]
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Tegally, H., Wilkinson, E., Giovanetti, M., Iranzadeh, A., Fonseca, V., Giandhari, J., Doolabh, D., Pillay, S., San, E. J., Msomi, N., et al. (2020) · doi:10.1101/2020.12.21.20248640 · Cited by 2,535
Spread of a SARS-CoV-2 variant through Europe in the summer of 2020
Hodcroft, E. B., Zuber, M., Nadeau, S., Vaughan, T. G., Crawford, K. H. D., Althaus, C. L., Reichmuth, M. L., Bowen, J. E., Walls, A. C., Corti, D., et al. (2021) · Nature · doi:10.1038/s41586-021-03677-y · Cited by 425
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Research works printed but not linked: 6
- Weisblum Y , Schmidt F , Zhang F , DaSilva J , Poston D , Lorenzi JCC , et al. Escape from neutralizing antibodies by SARS-CoV-2 spike protein variants. 2020 Oct 28 [cited 2020 Dec 22]; https://elifesciences.org/articles/613121 · DOI
- Rophina M , Pandhare K , Mangla M , Shamnath A , Jolly B , Sethi M , et al. FaviCoV - a comprehensive manually curated resource for functional genetic variants in SARS-CoV-2. 2020 Nov 17 https://doi.org/10.31219/osf.io/wp5tx · DOI
- Yuelong Shu JM . GISAID: Global initiative on sharing all influenza data - from vision to reality. Eurosurveillance [Internet]. 2017 Mar 30 [cited 2020 Dec 9];22(13). https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5388101/ · DOI · Paper page
- Crispell J , Balaz D , Gordon SV . HomoplasyFinder: a simple tool to identify homoplasies on a phylogeny. Microbial Genomics [Internet]. 2019 Jan [cited 2020 Dec 9];5(1). https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6412054/ · DOI
- Shang E , Axelsen PH . The Potential for SARS-CoV-2 to Evade Both Natural and Vaccine-induced Immunity [Internet]. Cold Spring Harbor Laboratory. 2020 [cited 2020 Dec 24]. p. 2020.12.13.422567. https://www.biorxiv.org/content/10.1101/2020.12.13.422567v1.abstract · DOI
- Gupta V , Bhoyar RC , Jain A , Srivastava S , Upadhayay R , Imran M , et al. Asymptomatic reinfection in two healthcare workers from India with genetically distinct SARS-CoV-2. Clin Infect Dis [Internet]. [cited 2020 Dec 9]; https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7543380/ · DOI
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Barber, R. M., Sorensen, R. J. D., Pigott, D. M., Bisignano, C., Carter, A., Amlag, J. O., Collins, J. K., Abbafati, C., Adolph, C., Allorant, A., et al. (2022) · The Lancet · doi:10.1016/s0140-6736(22)00484-6 · Cited by 298
Metadata
- Authors
- Jolly, B., Rophina, M., Shamnath, A., Imran, M., Bhoyar, R. C., Divakar, M. K., Rani, P. R., Ranjan, G., Sehgal, P., Chandrasekhar, P., Afsar, S., Lakshmi, J. V., Surekha, A., Sivasubbu, S., & Scaria, V.
- Affiliations
- Institute of Genomics and Integrative Biology (IN)
- Kurnool Medical College (IN)
- Corresponding author
- Scaria, Vinod
- ORCID
- Venue
- bioRxiv (Cold Spring Harbor Laboratory)
- Publisher
- openRxiv
- Published
- 2020-12-26
- OpenAlex
- W3116594776
- Cited by
- 17
- References
- 2
- Citations by year
- 2022: 2 · 2021: 15
- Type
- posted content
- Language
- en
- Open access
- green
- doi.org
- Locations
- bioRxiv (Cold Spring Harbor Laboratory) (acceptedVersion)
- Funders
- Council of Scientific and Industrial Research, India
- Topics
- Health Sciences › Medicine › Infectious Diseases › SARS-CoV-2 and COVID-19 Research
- Physical Sciences › Mathematics › Modeling and Simulation › COVID-19 epidemiological studies
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Evolution and Genetic Dynamics
- Keywords
- SARS-CoV-2, immune escape mutations, antibody escape, genetic epidemiology, viral genome sequence, SARS-CoV-2 variants
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