Русский
Comparative analysis of screening methods for point mutations, by using the detection of SARS-CoV-2 N501Y mutation as an example
DOI: https://dx.doi.org/10.18565/epidem.2021.11.4.31-7
Cherkashina A.S., Golubeva A.G., Solovyeva E.D., Valdokhina A.V., Bulanenko V.P., Petrov V.V., Krasovitov K.V., Esman A.S., Mironov K.O., Rodionova E.N., Shipulina O.Yu., Khafizov K.F., Akimkin V.G.
Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia
Materials and methods. The study was conducted on a batch of samples from patients, which contained SARS-CoV-2 genetic material. The investigators used three methods (Sanger sequencing/fragment analysis, real-time PCR, and loop-mediated isothermal amplification) as the gold standard.
Results. Genotyping-by-sequencing analysis was carried out to examine 372 samples from patients; 54, 7, and 25 samples were found to belong to the Alpha, Beta, and B.1.1.523 genetic variants, respectively. It was shown that both the real-time PCR method and loop-mediated isothermal amplification could be employed to detect SARS-CoV-2 N501Y mutation, by using various samples, including those for various (Alpha, Beta) genetic variants.
Conclusion. The use of PCR-based screening methods makes it possible not only to reduce the economic and time costs of genotyping SARS-CoV-2 samples, but also to increase study coverage, by obtaining results for the samples unsuitable for sequencing.
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About the Autors
Anna S. Cherkashina, Cand. Chem. Sci., Head, Research Group of Genetic Engineering and Biotechnology, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; Cherkashina@pcr.ms; http://orcid. org/0000-0001-7970-7495
Anna G. Golubeva, Laboratory Researcher,. Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; golubeva@cmd.su; http://orcid.org/0000-0002-8266-0170
Elena D. Solovyova, Junior Researcher; Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; solovyova@cmd.su; http://orcid.org/0000-0002-0762-0347
Anna V. Valdokhina, Researcher, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; valdokhina@cmd.su; http://orcid.org/0000-0002-4592-4755
Victoria P. Bulanenko, Researcher, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; bulanenko@cmd.su; http://orcid.org/0000-0001-7055-1762
Vadim V. Petrov, Head, Researcher Group for Development of New Molecular Biological Technologies, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; petrov@pcr.ms; http://orcid.org/0000-0002-3503-2366
Kirill V. Krasovitov, White-Collared Planner, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; krasovitov@cmd.su; http://orcid.org/0000-0001-7237-1810
Anna S. Esman, Researcher, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; esman@cmd.su; http://orcid.org/0000-0002-5456-7649
Konsantin O. Mironov, Dr. Biol. Sci.; Head, Research Group for Development of New Methods for Detection of Genetic Polymorphisms,, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; mironov@pcr.ru; http://orcid.org/0000-0001-8207-9215
Elena N. Rodionova, Head, Initial production Laboratory, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; rodionova@cmd.su; http://orcid.org/0000-0003-0192-1832
Olga Yu. Shipulina, Senior Researcher, Central Researcher Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; Olga.shipulina@pcr.ms; http://orcid.org/0000-0003-4679-6772
Kamil F. Khafizov, Cand. Biol. Sci., Head, Research Group for Development of New Diagnostic Methods Based on Next-Generation Sequencing Technologies, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; khafizov@cmd.su; http://orcid.org/0000-0001-5524-0296
Professor Vasily G. Akimkin, MD, Academician of the Russian Academy of Sciences, Director, Central Research Institute of Epidemiology, Russian Federal Service for Supervision of Consumer Rights Protection and Human Well-Being, Moscow, Russia; crie@pcr.ru; http://orcid.org/ 0000-0003-4228-9044
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