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Вопросы вирусологии. 2021; 66: 17-28

Экспресс-диагностика новой коронавирусной инфекции с помощью реакции петлевой изотермической амплификации

Хафизов К. Ф., Петров В. В., Красовитов К. В., Золкина М. В., Акимкин В. Г.

https://doi.org/10.36233/0507-4088-42

Аннотация

В настоящем обзоре представлены основные принципы применения реакции петлевой изотермической амплификации (loop-mediated isothermal amplification, LAMP) для экспресс-диагностики коронавирусной инфекции, вызванной SARS-CoV-2. Кратко описаны базовые технические детали метода, наиболее популярные способы специфической и неспецифической детекции продуктов амплификации, обсуждены первые опубликованные работы по использованию рассматриваемой технологии для выявления фрагментов молекулы нуклеиновой кислоты вируса SARS-CoV-2, в том числе разрабатываемые в Российской Федерации. Для доступных тестов на базе LAMP перечислены основные аналитические характеристики наборов, которые нередко сравнимы с параметрами тест-систем на основе метода полимеразной цепной реакции с обратной транскрипцией (ОТ-ПЦР), а в ряде случаев превосходят их. Обсуждены преимущества и ограничения этого подхода в сравнении с другими способами молекулярной диагностики (в первую очередь ОТ-ПЦР), а также перспективы развития технологии для выявления возбудителей других инфекций.

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Problems of Virology. 2021; 66: 17-28

Rapid diagnostics of novel coronavirus infection by loop-mediated isothermal amplification

Khafizov K. F., Petrov V. V., Krasovitov K. V., Zolkina M. V., Akimkin V. G.

https://doi.org/10.36233/0507-4088-42

Abstract

This review presents the basic principles of application of the loop-mediated isothermal amplification (LAMP) reaction for the rapid diagnosis of coronavirus infection caused by SARS-CoV-2. The basic technical details of the method, and the most popular approaches of specific and non-specific detection of amplification products are briefly described. We also discuss the first published works on the use of the method for the detection of the nucleic acid of the SARS-CoV-2 virus, including those being developed in the Russian Federation. For commercially available and published LAMP-based assays, the main analytical characteristics of the tests are listed, which are often comparable to those based on the method of reverse transcription polymerase chain reaction (RT-PCR), and in some cases are even superior. The advantages and limitations of this promising methodology in comparison to other methods of molecular diagnostics, primarily RT-PCR, are discussed, as well as the prospects for the development of technology for the detection of other infectious agents.

References

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8. Broughton J.P., Deng X., Yu G., Fasching C.L., Servellita V, Singh J., et al. CRISPR-Cas12-based detection of SARS-CoV-2. Nat. Biotechnol. 2020; 38(7): 870-4. https://doi.org/10.1038/s41587-020-0513-4.

9. Schmid-Burgk J.L., Schmithausen R.M., Li D., Hollstein R., Ben-Shmuel A., Israeli O., et al. LAMP-Seq: population-scale COVID-19 diagnostics using combinatorial barcoding. bioRxiv. 2020.04.06.025635. https://doi.org/10.1101/2020.04.06.025635.

10. Hueston L., Kok J., Guibone A., McDonald D., Hone G., Goodwin J., et al. The antibody response to SARS-CoV-2 infection. Open Forum Infect. Dis. 2020; 7(9): ofaa387. https://doi.org/10.1093/ofid/ofaa387.

11. Kiselev D., Matsvay A., Abramov I., Dedkov V., Shipulin G., Khafizov K. Current trends in diagnostics of viral infections of unknown etiology. Viruses. 2020; 12(2): 211. https://doi.org/10.3390/v12020211.

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13. Compton J. Nucleic acid sequence-based amplification. Nature. 1991; 350(6313): 91-2. https://doi.org/10.1038/350091a0.

14. Piepenburg O., Williams C.H., Stemple D.L., Armes N.A. DNA detection using recombination proteins. PLoS Biol. 2006; 4(7): e204. https://doi.org/10.1371/journal.pbio.0040204.

15. Vincent M., Xu Y., Kong H. Helicase-dependent isothermal DNA amplification. EMBO Rep. 2004; 5(8): 795-800. https://doi. org/10.1038/sj.embor.7400200.

16. Notomi T. Loop-mediated isothermal amplification of DNA. Nucleic Acids Research. 2000; 28(12): E63. https://doi.org/10.1093/nar/28.12.e63.

17. Thompson D., Lei Y. Mini review: Recent progress in RT-LAMP enabled COVID-19 detection. Sens. Actuators Rep. 2020; 2(1): 100017. https://doi.org/10.1016/j.snr.2020.100017.

18. Francois P., Tangomo M., Hibbs J., Bonetti E.J., Boehme C.C., Notomi T., et al. Robustness of a loop-mediated isothermal amplification reaction for diagnostic applications. FEMS Immunol. Med Microbiol. 2011; 62(1): 41-8. https://doi.org/10.1111j.1574-695X.2011.00785.x.

19. Rodel J., Egerer R., Suleyman A., Sommer-Schmid B., Baier M., Henke A., et al. Use of the variplex™ SARS-CoV-2 rT-LAMP as a rapid molecular assay to complement RT-PCR for COVID-19 diagnosis. J. Clin. Virol. 2020; 132: 104616. https://doi.org/10.1016/).jcv.2020.104616.

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