Детекция коронавируса SARS-CoV-2 с помощью RT-LAMP
26.01.2024
Авторы:
Название:
Детекция коронавируса SARS-CoV-2 с помощью RT-LAMP
Страницы:
272-290
Несмотря на то, что «золотым стандартом» для диагностики нового коронавируса SARS-CoV-2 остается ОТ-ПЦР, все активнее начинает применяться обратно-транскрипционная петлевая изотермическая амплификация (RT-LAMP). Она имеет определенные преимущества ввиду изотермичности процесса и относительной простоты детекции лампликонов. Это позволяет позиционировать эту реакцию как проводимую по месту лечения, в том числе применительно к выявлению SARS-CoV-2. Способы детекции результатов любой разновидности LAMP можно подразделить на специфичные (прямые), рассчитанные на использование гибридизационных зондов, и косвенные, при которых контролируется общее накопление лампликонов или побочных продуктов реакции (пирофосфата и протонов). Для обнаружения генетического материала SARS-CoV-2 в клинических образцах с помощью RT-LAMP предложено большое количество вариантов, основанных на разных способах детекции. Важным является обеспечение высокой специфичности любых вариантов LAMP, которая зависит от качества подбора праймеров, осуществляемого с помощью компьютерных программ.
- Акимкин В.Г., Петров В.В., Красовитов К.В., Борисова Н.И., Котов И.А., Родионова Е.Н., Черкашина А.С., Кондрашева Л.Ю., Тиванова Е.В., Хафизов К.Ф. Молекулярные методы диагностики новой коронавирусной инфекции: сравнение петлевой изотермической амплификации и полимеразной цепной реакции // Вопросы вирусологии. 2021. Т.66(6). С.417-424. DOI:10.36233/0507-4088-86 2. Гарафутдинов Р.Р., Мавзютов А.Р., Алексеев Я.И., Воробьев А.А., Никоноров Ю.М., Чубукова О.В., Матниязов Р.Т., Баймиев Ан.Х., Максимов И.В., Кулуев Б.Р., Баймиев Ал.Х., Чемерис А.В. Бетакоронавирусы человека и их высокочувствительная детекция с помощью ПЦР и прочих методов амплификации // Biomics. 2020. Т.12(1). С. 121-179. DOI: 10.31301/2221-6197.bmcs.2020-7 3. Гарафутдинов Р.Р., Мавзютов А.Р., Никоноров Ю.М., Чубукова О.В., Матниязов Р.Т., Баймиев Ан.Х., Максимов И.В., Мифтахов И.Ю., Халикова Е.Ю., Кулуев Б.Р., Баймиев Ал.Х., Чемерис А.В. Бетакоронавирус SARS-CoV-2, его геном, разнообразие генотипов и молекулярно-биологические меры борьбы с ним // Biomics. 2020. Т.12(2). С. 242-271. DOI: 10.31301/2221-6197.bmcs.2020-15 4. Гарафутдинов Р.Р., Чемерис Д.А., Мавзютов А.Р., Ахметзянова Л.У., Давлеткулов Т.М., Губайдуллин И.М., Чемерис А.В. Петлевая LAMP амплификация нуклеиновых кислот. I. Два десятилетия развития и совершенствования // Biomics. 2021. Т.13(2). С. 176-226. DOI: 10.31301/2221-6197.bmcs.2021-14 5. Мавзютов А.Р., Гарафутдинов Р.Р., Халикова Е.Ю., Газизов Р.Р., Баймиев Ан.Х., Никоноров Ю.М., Максимов И.В., Кулуев Б.Р., Баймиев Ал.Х., Чемерис А.В. Загадки нового коронавируса SARS-CoV-2 // Biomics. 2021. Т.13(1). С. 75-99. DOI: 10.31301/2221-6197.bmcs.2021-7 6. Мавзютов А.Р., Гарафутдинов Р.Р., Халикова Е.Ю., Юлдашев Р.А., Хусаинова Р.И., Чубукова О.В., Гималов Ф.Р., Матниязов Р.Т., Алексеев Я.И., Воробьев А.А., Вершинина З.Р., Мифтахов И.Ю., Никоноров Ю.М., Максимов И.В., Кулуев Б.Р., Баймиев Ан.Х., Баймиев Ал.Х., Чемерис А.В. Проблемные аспекты диагностики коронавирусной инфекции SARS-CoV-2 с помощью обратно-транскрипционной ПЦР // Biomics. 2020. Т.12(4). С. 564-590. DOI: 10.31301/2221-6197.bmcs.2020-50 7. Сахабутдинова А.Р., Чемерис А.В., Гарафутдинов Р.Р. Обнаружение специфических РНК-мишеней с помощью мультимеризации // Биохимия. 2023. Т.88(5). С.832-840. DOI:10.31857/S032097252305010X 8. Хафизов К.Ф., Петров В.В., Красовитов К.В., Золкина М.В., Акимкин В.Г. Экспресс-диагностика новой коронавирусной инфекции с помощью реакции петлевой изотермической амплификации // Вопросы вирусол. 2021. Т. 66(1). С. 17-28. doi: 10.36233/0507-4088-42 9. Чемерис А.В., Магданов Э.Г., Гарафутдинов Р.Р., Вахитов В.А. Как исключить появление ложно-позитивных результатов при проведении полимеразной цепной реакции? // Вестн. биотехнол. физ.-хим. биол. 2012. Т. 8(3). С. 34-45. 10. Чемерис Д.А., Кирьянова О.Ю., Губайдуллин И.М., Чемерис А.В. Дизайн праймеров для полимеразной цепной реакции (краткий обзор компьютерных программ и баз данных) // Biomics. 2016. Т. 8(3). С. 215-238. 11. Чемисова О.С., Цырулина О.А., Трухачев А.Л., Носков А.К. Сравнительный анализ методов изотермической амплификации нуклеиновых кислот // Журнал микробиологии, эпидемиологии и иммунобиологии. 2022. Т.99(1). С.126–138. DOI:10.36233/0372-9311-176 12. Agarwal S, Hamidizadeh M, Bier FF. Detection of Reverse Transcriptase LAMP-Amplified Nucleic Acid from Oropharyngeal Viral Swab Samples Using Biotinylated DNA Probes through a Lateral Flow Assay // Biosensors (Basel). 2023. V.13(11). 988. doi:10.3390/bios13110988 13. Ahsan A., Usman M., Ullah I., Zahur A.B., Malik A.R. Molecular diagnostic assays for the detection of peste des petits ruminants virus: a concise review // Vet. Sci.: Res. Rev. 2017. V. 3(3):53-57. doi:10.17582/journal.vsrr/2017.3.3.53.57 14. Akhmetzianova LU, Davletkulov TM, Sakhabutdinova AR, Chemeris AV, Gubaydullin IM, Garafutdinov RR. LAMPrimers iQ: New primer design software for loop-mediated isothermal amplification (LAMP) // Anal Biochem. 2024. V.684. 115376. doi:10.1016/j.ab.2023.115376 15. Akter J, Smith WJM, Gebrewold M, Kim I, Simpson SL, Bivins A, Ahmed W. Evaluation of colorimetric RT-LAMP for screening of SARS-CoV-2 in untreated wastewater // Sci Total Environ. 2024. V.907. 167964. doi:10.1016/j.scitotenv.2023.167964 16. Alhamid G, Tombuloglu H, Al-Suhaimi E. Development of loop-mediated isothermal amplification (LAMP) assays using five primers reduces the false-positive rate in COVID-19 diagnosis. Sci Rep. 2023. V.13(1). 5066. doi:10.1038/s41598-023-31760-z 17. Amoah ID, Mthethwa NP, Pillay L, Deepnarain N, Pillay K, Awolusi OO, Kumari S, Bux F. RT-LAMP: A Cheaper, Simpler and Faster Alternative for the Detection of SARS-CoV-2 in Wastewater // Food Environ Virol. 2021. V.13(4). P.447-456. doi:10.1007/s12560-021-09489-7 18. Artik Y, Coşğun AB, Cesur NP, Hızel N, Uyar Y, Sur H, Ayan A. Comparison of COVID-19 laboratory diagnosis by commercial kits: Effectivity of RT-PCR to the RT-LAMP // J Med Virol. 2022. V.94(5). P.1998-2007. doi:10.1002/jmv.27559 19. Baek YH, Um J, Antigua KJC, Park JH, Kim Y, Oh S, Kim YI, Choi WS, Kim SG, Jeong JH, Chin BS, Nicolas HDG, Ahn JY, Shin KS, Choi YK, Park JS, Song MS. Development of a reverse transcription-loop-mediated isothermal amplification as a rapid early-detection method for novel SARS-CoV-2 // Emerg Microbes Infect. 2020. V.9(1). P.998-1007. doi:10.1080/22221751.2020.1756698 20. Becherer L., Borst N., Bakheit M., Frischmann S., Zengerle R., von Stetten F. Loop-mediated isothermal amplification (LAMP) – review and classification of methods for sequence-specific detection // Anal. Methods. 2020. V. 12(6). P.717-746. doi:10.1039/C9AY02246E 21. Bektaş A, Chapela I. Loop-mediated isothermal amplification of single pollen grains // J. Integr. Plant Biol. 2014. V. 56(8). P.741-748. doi:10.1111/jipb.12191 22. Bhadra S, Jiang YS, Kumar MR, Johnson RF, Hensley LE, Ellington AD. Real-time sequence-validated loop-mediated isothermal amplification assays for detection of Middle East respiratory syndrome coronavirus (MERS-CoV) // PLoS One. 2015. V.10(4). e0123126. doi:10.1371/journal.pone.0123126 23. Borah Slater K, Ahmad M, Poirier A, Stott A, Siedler BS, Brownsword M, Mehat J, Urbaniec J, Locker N, Zhao Y, La Ragione R, Silva SRP, McFadden J. Development of a loop-mediated isothermal amplification (LAMP)-based electrochemical test for rapid detection of SARS-CoV-2 // iScience. 2023. V.26(9). 107570. doi:10.1016/j.isci.2023.107570 24. Choi G, Moehling TJ, Meagher RJ. Advances in RT-LAMP for COVID-19 testing and diagnosis // Expert Rev Mol Diagn. 2023. V.23(1). P.9-28. doi:10.1080/14737159.2023.2169071 25. Chow FW, Chan TT, Tam AR, Zhao S, Yao W, Fung J, Cheng FK, Lo GC, Chu S, Aw-Yong KL, Tang JY, Tsang CC, Luk HK, Wong AC, Li KS, Zhu L, He Z, Tam EWT, Chung TW, Wong SCY, Que TL, Fung KS, Lung DC, Wu AK, Hung IF, Woo PC, Lau SK. A Rapid, Simple, Inexpensive, and Mobile Colorimetric Assay COVID-19-LAMP for Mass On-Site Screening of COVID-19 // Int J Mol Sci. 2020. V.21(15). 5380. doi:10.3390/ijms21155380 26. Colbert AJ, Lee DH, Clayton KN, Wereley ST, Linnes JC, Kinzer-Ursem TL. PD-LAMP smartphone detection of SARS-CoV-2 on chip // Anal Chim Acta. 2022. V.1203. 339702. doi:10.1016/j.aca.2022.339702 27. Das D, Lin CW, Chuang HS. On-chip screening of SARS-CoV-2 cDNA by LAMP-integrated rotational diffusometry // Talanta. 2024. V.267. 125253. doi:10.1016/j.talanta.2023.125253 28. de Oliveira KG , Estrela PFN , Mendes GM , Dos Santos CA , Silveira-Lacerda EP , Duarte GRM . Rapid molecular diagnostics of COVID-19 by RT-LAMP in a centrifugal polystyrene-toner based microdevice with end-point visual detection // Analyst. 2021. V.146(4). P.1178-1187. doi:10.1039/d0an02066d 29. Dong Y, Zhao Y, Li S, Wan Z, Lu R, Yang X, Yu G, Reboud J, Cooper JM, Tian Z, Zhang C. Multiplex, Real-Time, Point-of-care RT-LAMP for SARS-CoV-2 Detection Using the HFman Probe // ACS Sens. 2022. V.7(3). P.730-739. doi:10.1021/acssensors.1c02079 30. Enosawa M, Kageyama S, Sawai K, Watanabe K, Notomi T, Onoe S, Mori Y, Yokomizo Y. Use of loop-mediated isothermal amplification of the IS900 sequence for rapid detection of cultured Mycobacterium avium subsp. Paratuberculosis // J Clin Microbiol. 2003. V.41(9). P.4359-4365. doi:10.1128/JCM.41.9.4359-4365.2003 31. Fu Q, Pang X, Su Z, Yang Y, Liu Y, Zhang Z, Fu Y, Wang J, Zhou J. Rapid On-Site Detection of SARS-CoV-2 Using RT-LAMP Assay with a Portable Low-Cost Device // Biosensors (Basel). 2023. V.13(7). 724. doi:10.3390/bios13070724 32. Garafutdinov RR, Chemeris DA, Sakhabutdinova AR, Moiseev KV, Urmancheev SF, Mikhaylenko CI, Privalov LY, Chemeris AV. Convective polymerase chain reaction in standard microtubes // Anal Biochem. 2022. V.641. 114565. doi:10.1016/j.ab.2022.114565 33. García-Bernalt Diego J, Fernández-Soto P, Domínguez-Gil M, Belhassen-García M, Bellido JLM, Muro A. A Simple, Affordable, Rapid, Stabilized, Colorimetric, Versatile RT-LAMP Assay to Detect SARS-CoV-2 // Diagnostics (Basel). 2021. V.11(3). 438. doi:10.3390/diagnostics11030438 34. García-Bernalt Diego J, Fernández-Soto P, Márquez-Sánchez S, Santos Santos D, Febrer-Sendra B, Crego-Vicente B, Muñoz-Bellido JL, Belhassen-García M, Corchado Rodríguez JM, Muro A. SMART-LAMP: A Smartphone-Operated Handheld Device for Real-Time Colorimetric Point-of-Care Diagnosis of Infectious Diseases via Loop-Mediated Isothermal Amplification // Biosensors (Basel). 2022. V.12(6). 424. doi:10.3390/bios12060424 35. Grammatikos S, Svoliantopoulos I, Gizeli E. Naked-Eye Detection of LAMP-Produced Nucleic Acids in Saliva Using Chitosan-Capped AuNPs in a Single-Tube Assay // Anal Chem. 2023. V.95(50). P.18514-18521. doi:10.1021/acs.analchem.3c03878 36. He X, Su F, Chen Y, Li Z. Novel reverse transcription-multiple inner primer loop-mediated isothermal amplification (RT-MIPLAMP) for visual and sensitive detection of SARS-CoV-2 // Anal Methods. 2022. V.14(47). P.5012-5018. doi:10.1039/d2ay01330d 37. Hong TC, Mai QL, Cuong DV, Parida M, Minekawa H, Notomi T, Hasebe F, Morita K. Development and evaluation of a novel loop-mediated isothermal amplification method for rapid detection of severe acute respiratory syndrome coronavirus // J Clin Microbiol. 2004. V.42(5). P.1956-1961. DOI:10.1128/jcm.42.5.1956-1961.2004 38. Huang P, Wang H, Cao Z, Jin H, Chi H, Zhao J, Yu B, Yan F, Hu X, Wu F, Jiao C, Hou P, Xu S, Zhao Y, Feng N, Wang J, Sun W, Wang T, Gao Y, Yang S, Xia X. A Rapid and Specific Assay for the Detection of MERS-CoV // Front Microbiol. 2018. V.9. 1101. doi:10.3389/fmicb.2018.01101 39. Jaroenram W, Chatnuntawech I, Kampeera J, Pengpanich S, Leaungwutiwong P, Tondee B, Sirithammajak S, Suvannakad R, Khumwan P, Dangtip S, Arunrut N, Bantuchai S, Nguitragool W, Wongwaroran S, Khanchaitit P, Sattabongkot J, Teerapittayanon S, Kiatpathomchai W. One-step colorimetric isothermal detection of COVID-19 with AI-assisted automated result analysis: A platform model for future emerging point-of-care RNA/DNA disease diagnosis // Talanta. 2022. V.249. 123375. doi:10.1016/j.talanta.2022.123375 40. Jhou YR, Wang CH, Tsai HP, Shan YS, Lee GB. An integrated microfluidic platform featuring real-time reverse transcription loop-mediated isothermal amplification for detection of COVID-19 // Sens Actuators B Chem. 2022. V.358. 131447. doi:10.1016/j.snb.2022.131447 41. Jia B, Li X, Liu W, Lu C, Lu X, Ma L, Li YY, Wei C. GLAPD: Whole Genome Based LAMP Primer Design for a Set of Target Genomes // Front Microbiol. 2019. V.10. 2860. doi:10.3389/fmicb.2019.02860 42. Jones L, Bakre A, Naikare H, Kolhe R, Sanchez S, Mosley YC, Tripp RA. Isothermal amplification and fluorescent detection of SARS-CoV-2 and SARS-CoV-2 variant virus in nasopharyngeal swabs // PLoS One. 2021. V.16(9). e0257563. doi:10.1371/journal.pone.0257563 43. Iijima T, Sakai J, Kanamori D, Ando S, Nomura T, Tisi L, Kilgore PE, Percy N, Kohase H, Hayakawa S, Maesaki S, Hoshino T, Seki M. A New Method to Detect Variants of SARS-CoV-2 Using Reverse Transcription Loop-Mediated Isothermal Amplification Combined with a Bioluminescent Assay in Real Time (RT-LAMP-BART) // Int J Mol Sci. 2023. V.24(13). 10698. doi:10.3390/ijms241310698 44. Kalendar R, Tselykh TV, Khassenov B, Ramanculov EM. Introduction on Using the FastPCR Software and the Related Java Web Tools for PCR and Oligonucleotide Assembly and Analysis // Methods Mol Biol. 2017. V.1620. P.33-64. doi:10.1007/978-1-4939-7060-5_2 45. Kim HE, Schuck A, Park H, Huh HJ, Kang M, Kim YS. Gold nanostructures modified carbon-based electrode enhanced with methylene blue for point-of-care COVID-19 tests using isothermal amplification // Talanta. 2023. V.265. 124841. doi:10.1016/j.talanta.2023.124841 46. Kim JH, Kang M, Park E, Chung DR, Kim J, Hwang ES. A Simple and Multiplex Loop-Mediated Isothermal Amplification (LAMP) Assay for Rapid Detection of SARS-CoV // Biochip J. 2019. V.13(4). P.341-351. doi:10.1007/s13206-019-3404-3 47. Kim SH, Lee SY, Kim U, Oh SW. Diverse methods of reducing and confirming false-positive results of loop-mediated isothermal amplification assays: A review // Anal Chim Acta. 2023a. V.1280. 341693. doi:10.1016/j.aca.2023.341693 48. Kline EC, Panpradist N, Hull IT, Wang Q, Oreskovic AK, Han PD, Starita LM, Lutz BR. Multiplex Target-Redundant RT-LAMP for Robust Detection of SARS-CoV-2 Using Fluorescent Universal Displacement Probes // Microbiol Spectr. 2022. V.10(4). e0158321. doi:10.1128/spectrum.01583-21 49. Lai MY, Bukhari FDM, Zulkefli NZ, Ismail I, Mustapa NI, Soh TST, Hassan AH, Peariasamy KM, Lee YL, Suppiah J, Thayan R, Lau YL. Colorimetric detection of SARS-CoV-2 by uracil-DNA glycosylase (UDG) reverse transcription loop-mediated isothermal amplification (RT-LAMP) // Int J Infect Dis. 2022. V.120. P.132-134. doi:10.1016/j.ijid.2022.04.036 50. Lee SH, Baek YH, Kim YH, Choi YK, Song MS, Ahn JY. One-Pot Reverse Transcriptional Loop-Mediated Isothermal Amplification (RT-LAMP) for Detecting MERS-CoV // Front Microbiol. 2017. V.7. 2166. doi:10.3389/fmicb.2016.02166 51. Ludwig KU, Schmithausen RM, Li D, Jacobs ML, Hollstein R, Blumenstock K, Liebing J, Słabicki M, Ben-Shmuel A, Israeli O, Weiss S, Ebert TS, Paran N, Rüdiger W, Wilbring G, Feldman D, Lippke B, Ishorst N, Hochfeld LM, Beins EC, Kaltheuner IH, Schmitz M, Wöhler A, Döhla M, Sib E, Jentzsch M, Moench EC, Borrajo JD, Strecker J, Reinhardt J, Cleary B, Geyer M, Hölzel M, Macrae R, Nöthen MM, Hoffmann P, Exner M, Regev A, Zhang F, Schmid-Burgk JL. LAMP-Seq enables sensitive, multiplexed COVID-19 diagnostics using molecular barcoding // Nat Biotechnol. 2021. V.39(12). P.1556-1562. doi:10.1038/s41587-021-00966-9 52. Minami K, Masutani R, Suzuki Y, Kubota M, Osaka N, Nakanishi T, Nakano T, Ukimura A. Evaluation of SARS-CoV-2 RNA quantification by RT-LAMP compared to RT-qPCR // J Infect Chemother. 2021. V.27(7). P.1068-1071. doi:10.1016/j.jiac.2021.05.004 53. Mori Y, Nagamine K, Tomita N, Notomi T. Detection of loop-mediated isothermal amplification reaction by turbidity derived from magnesium pyrophosphate formation // Biochem Biophys Res Commun. 2001. V.289(1). P.150-154. doi:10.1006/bbrc.2001.5921 54. Mytzka N, Arbaciauskaite S, Sandetskaya N, Mattern K, Kuhlmeier D. A fully integrated duplex RT-LAMP device for the detection of viral infections // Biomed Microdevices. 2023. V.25(4). 36. doi:10.1007/s10544-023-00676-w 55. Nagamine K, Hase T, Notomi T. Accelerated reaction by loop-mediated isothermal amplification using loop primers // Mol Cell Probes. 2002. V.16(3). P.223-229. doi:10.1006/mcpr.2002.0415 56. Natoli ME, Kundrod KA, Chang MM, Smith CA, Paul S, Coole JB, Butlin NG, Tanner NA, Baker E, Schmeler KM, Richards-Kortum R. Improving Performance of a SARS-CoV-2 RT-LAMP Assay for Use With a Portable Isothermal Fluorimeter: Towards a Point-of-Care Molecular Testing Strategy // J Biomol Tech. 2021. V.32(3). P.180-185. doi:10.7171/jbt.21-3203-013 57. Nguyen HA, Choi H, Lee NY. A Rotatable Paper Device Integrating Reverse Transcription Loop-Mediated Isothermal Amplification and a Food Dye for Colorimetric Detection of Infectious Pathogens // Biosensors (Basel). 2022. V.12(7). 488. doi:10.3390/bios12070488 58. Notomi T., Okayama H., Masubuchi H., Yonekawa T., Watanabe K., Amino N., Hase T. Loop-mediated isothermal amplification of DNA // Nucleic Acids Res. 2000. V.28(12). E63. DOI:10.1093/nar/28.12.e63 59. O'Halloran DM. STITCHER: A web resource for high-throughput design of primers for overlapping PCR applications // Biotechniques. 2015. V.58(6). P.325-328. doi:10.2144/000114301 60. O'Halloran DM, Uriagereka-Herburger I, Bode K. STITCHER 2.0: primer design for overlapping PCR applications // Sci Rep. 2017. V.7. 45349. doi:10.1038/srep45349 61. Papadakis G, Pantazis AK, Fikas N, Chatziioannidou S, Tsiakalou V, Michaelidou K, Pogka V, Megariti M, Vardaki M, Giarentis K, Heaney J, Nastouli E, Karamitros T, Mentis A, Zafiropoulos A, Sourvinos G, Agelaki S, Gizeli E. Portable real-time colorimetric LAMP-device for rapid quantitative detection of nucleic acids in crude samples // Sci Rep. 2022. V.12(1). 3775. doi:10.1038/s41598-022-06632-7 62. Papamatthaiou S, Boxall-Clasby J, Douglas EJA, Jajesniak P, Peyret H, Mercer-Chalmers J, Kumar VKS, Lomonossoff GP, Reboud J, Laabei M, Cooper JM, Kasprzyk-Hordern B, Moschou D. LoCKAmp: lab-on-PCB technology for <3 minute virus genetic detection // Lab Chip. 2023. V.23(20). P.4400-4412. doi:10.1039/d3lc00441d 63. Park GS, Ku K, Baek SH, Kim SJ, Kim SI, Kim BT, Maeng JS. Development of Reverse Transcription Loop-Mediated Isothermal Amplification Assays Targeting Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) // J Mol Diagn. 2020. V.22(6). P.729-735. doi:10.1016/j.jmoldx.2020.03.006 64. Poon LL, Leung CS, Tashiro M, Chan KH, Wong BW, Yuen KY, Guan Y, Peiris JS. Rapid detection of the severe acute respiratory syndrome (SARS) coronavirus by a loop-mediated isothermal amplification assay // Clin Chem. 2004. 50(6). P.1050-1052. doi:10.1373/clinchem.2004.032011 65. Poon L.L., Wong B.W., Chan K.H., Ng S.S., Yuen K.Y., Guan Y., Peiris J.S. Evaluation of real-time reverse transcriptase PCR and real-time loop-mediated amplification assays for severe acute respiratory syndrome coronavirus detection // Journal of Clinical Microbiology. 2005. V. 43 (7). P. 3457-9. doi:10.1128/JCM.43.7.3457-3459.2005 66. Pourakbari R, Gholami M, Shakerimoghaddam A, Khiavi FM, Mohammadimehr M, Khomartash MS. Comparison of RT-LAMP and RT-qPCR assays for detecting SARS-CoV-2 in the extracted RNA and direct swab samples // J Virol Methods. 2024. V.324. 114871. doi:10.1016/j.jviromet.2023.114871 67. Rioboó-Legaspi P, González-López A, Beltrán-Sánchez JF, Cima-Cabal MD, García-Suárez MM, Sánchez AJG, Fernández-Otero T, Haro JG, Costa-Rama E, Fernández-Abedul MT. Phenol red as electrochemical indicator for highly sensitive quantification of SARS-CoV-2 by loop-mediated isothermal amplification detection // Talanta. 2024. V.266(1). 124963. doi:10.1016/j.talanta.2023.124963 68. Rivas-Macho A, Sorarrain A, Marimón JM, Goñi-de-Cerio F, Olabarria G. Extraction-Free Colorimetric RT-LAMP Detection of SARS-CoV-2 in Saliva // Diagnostics (Basel). 2023. V.13(14). 2344. doi:10.3390/diagnostics13142344 69. Rodríguez-Penedo A, Rioboó-Legaspi P, González-López A, Lores-Padín A, Pereiro R, García-Suárez MDM, Cima-Cabal MD, Costa-Rama E, Fernández B, Fernández-Abedul MT. Electrocatalytic Palladium Nanoclusters as Versatile Indicators of Bioassays: Rapid Electroanalytical Detection of SARS-CoV-2 by Reverse Transcription Loop-Mediated Isothermal Amplification // Adv Healthc Mater. 2023. V.12(12). e2202972. doi:10.1002/adhm.202202972 70. Sakhabutdinova AR, Gazizov RR, Chemeris AV, Garafutdinov RR. Reverse transcriptase-free detection of viral RNA using Hemo Klentaq DNA polymerase // Anal Biochem. 2022. V.659. 114960. doi:10.1016/j.ab.2022.114960 71. Sakhabutdinova AR, Kamalov MI, Salakhieva DV, Mavzyutov AR, Garafutdinov RR. Inhibition of nonspecific polymerase activity using Poly(Aspartic) acid as a model anionic polyelectrolyte // Anal Biochem. 2021. V.628. 114267. doi:10.1016/j.ab.2021.114267 72. Salinas NR, Little DP. Electric LAMP: Virtual Loop-Mediated Isothermal AMPlification // ISRN Bioinform. 2012. 2012. 696758. doi:10.5402/2012/696758 73. Sherrill-Mix S, Hwang Y, Roche AM, Glascock A, Weiss SR, Li Y, Haddad L, Deraska P, Monahan C, Kromer A, Graham-Wooten J, Taylor LJ, Abella BS, Ganguly A, Collman RG, Van Duyne GD, Bushman FD. Detection of SARS-CoV-2 RNA using RT-LAMP and molecular beacons // Genome Biol. 2021. V.22(1). 169. doi:10.1186/s13059-021-02387-y 74. Shirato K, Yano T, Senba S, Akachi S, Kobayashi T, Nishinaka T, Notomi T, Matsuyama S. Detection of Middle East respiratory syndrome coronavirus using reverse transcription loop-mediated isothermal amplification (RT-LAMP) // Virol J. 2014. V.11. 139. doi:10.1186/1743-422X-11-139 75. Shirshikov FV, Pekov YA, Miroshnikov KA. MorphoCatcher: a multiple-alignment based web tool for target selection and designing taxon-specific primers in the loop-mediated isothermal amplification method // Peer J. 2019. V.7. e6801. doi:10.7717/peerj.6801 76. Stranieri A, Lauzi S, Giordano A, Paltrinieri S. Reverse transcriptase loop-mediated isothermal amplification for the detection of feline coronavirus // J Virol Methods. 2017. V.243. P.105-108. doi:10.1016/j.jviromet.2017.01.009 77. Su F, He X, Zhang P, Wang H, Li Z. Water-soluble polythiophene-based colorimetry for the quick and accurate detection of SARS-CoV-2 RNA // Talanta. 2023. V.256. 124320. doi:10.1016/j.talanta.2023.124320 78. Talap J, Shen M, Yu L, Zeng S, Cai S. RT-LAMP assay combining multi-fluorescent probes for SARS-CoV-2 RNA detection and variant differentiation // Talanta. 2022. V.248. 123644. doi:10.1016/j.talanta.2022.123644 79. Tamanaha E, Zhang Y, Tanner NA. Profiling RT-LAMP tolerance of sequence variation for SARS-CoV-2 RNA detection // PLoS One. 2022. V.17(3). e0259610. doi:10.1371/journal.pone.0259610 80. Tang Z, Nouri R, Dong M, Yang J, Greene W, Zhu Y, Yon M, Nair MS, Kuchipudi SV, Guan W. Rapid detection of novel coronavirus SARS-CoV-2 by RT-LAMP coupled solid-state nanopores // Biosens Bioelectron. 2022. V.197. 113759. doi:10.1016/j.bios.2021.113759 81. Tarim EA, Oksuz C, Karakuzu B, Appak O, Sayiner AA, Tekin HC. Electromechanical RT-LAMP device for portable SARS-CoV-2 detection // Talanta. 2023. V.254. 124190. doi:10.1016/j.talanta.2022.124190 82. Tomita N., Mori Y., Kanda H., Notomi T. Loop-mediated isothermal amplification (LAMP) of gene sequences and simple visual detection of products // Nature Protocols. 2008. V.3(5). P.877-882. doi:10.1038/nprot.2008.57 83. Torezin Mendonça G, Cassaboni Stracke M, de Oliveira Coelho B, Bruna Soligo Sanchuki H, Klassen de Oliveira V, Klerynton Marchini F, Lucíola Zanette D, Nóbrega Aoki M, Ribeiro Viana E, Blanes L. A new RT-LAMP-on-a-Chip Instrument for SARS-CoV-2 diagnostics // Microchem J. 2022. V.180. 107600. doi:10.1016/j.microc.2022.107600 84. Torres C, Vitalis EA, Baker BR, Gardner SN, Torres MW, Dzenitis JM. LAVA: an open-source approach to designing LAMP (loop-mediated isothermal amplification) DNA signatures // BMC Bioinformatics. 2011. V.12. 240. doi:10.1186/1471-2105-12-240 85. Varlamov DA, Blagodatskikh KA, Smirnova EV, Kramarov VM, Ignatov KB. Combinations of PCR and Isothermal Amplification Techniques Are Suitable for Fast and Sensitive Detection of SARS-CoV-2 Viral RNA // Front Bioeng Biotechnol. 2020. V.8. 604793. doi:10.3389/fbioe.2020.604793 86. Wang H, Cong F, Zeng F, Lian Y, Liu X, Luo M, Guo P, Ma J. Development of a real time reverse transcription loop-mediated isothermal amplification method (RT-LAMP) for detection of a novel swine acute diarrhea syndrome coronavirus (SADS-CoV) // J Virol Methods. 2018. V.260. P.45-48. doi:10.1016/j.jviromet.2018.06.010 87. Weisgerber DW, Langer K, Servellita V, Xu P, Chiu CY, Abate AR. Viral load quantitation at the point-of-care with shaken digital droplet RT-LAMP // Lab Chip. 2023. V.23(15). P.3479-3486. doi:10.1039/d3lc00096f 88. Werbajh S, Larocca L, Carrillo C, Stolowicz F, Ogas L, Pallotto S, Cassará S, Mammana L, Zapiola I, Bouzas MB, Vojnov AA. Colorimetric RT-LAMP Detection of Multiple SARS-CoV-2 Variants and Lineages of Concern Direct from Nasopharyngeal Swab Samples without RNA Isolation // Viruses. 2023. V.15(9). 1910. doi:10.3390/v15091910 89. Yan C, Cui J, Huang L, Du B, Chen L, Xue G, Li S, Zhang W, Zhao L, Sun Y, Yao H, Li N, Zhao H, Feng Y, Liu S, Zhang Q, Liu D, Yuan J. Rapid and visual detection of 2019 novel coronavirus (SARS-CoV-2) by a reverse transcription loop-mediated isothermal amplification assay // Clin Microbiol Infect. 2020. V.26(6). P.773-779. doi:10.1016/j.cmi.2020.04.001 90. Yang A.K., Lu H., Wu S.Y., Kwok H.C., Ho H.P., Yu S., Cheung A.K., Kong S.K. Detection of Panton-Valentine Leukocidin DNA from methicillin-resistant Staphylococcus aureus by resistive pulse sensing and loop-mediated isothermal amplification with gold nanoparticles // Anal. Chim. Acta. 2013. V. 782:46-53. doi:10.1016/j.aca.2013.04.004. 91. Yang K.L.A., Wu S.Y., Kwok H.C., Ho H.P., Kong S.K. Using Loop-mediated Isothermal DNA Amplification (LAMP) and Spectral Surface Plasmon Resonance (SPR) to Detect Methicillin-resistance S. aureus (MRSA) // Proc. Int. Conf. Biomed. Engin. Biotechnol. iCBEB. 2012. 647-650. doi:10.1109/iCBEB.2012.462 92. Yang T, Li D, Yan Y, Ettoumi FE, Wu RA, Luo Z, Yu H, Lin X. Ultrafast and absolute quantification of SARS-CoV-2 on food using hydrogel RT-LAMP without pre-lysis // J Hazard Mater. 2023. V.442. 130050. doi:10.1016/j.jhazmat.2022.130050 93. Ye H, Nowak C, Liu Y, Li Y, Zhang T, Bleris L, Qin Z. Plasmonic LAMP: Improving the Detection Specificity and Sensitivity for SARS-CoV-2 by Plasmonic Sensing of Isothermally Amplified Nucleic Acids // Small. 2022. V.18(12). e2107832. doi:10.1002/smll.202107832 94. Yu L, Wu S, Hao X, Dong X, Mao L, Pelechano V, Chen W-H, Yin X. Rapid Detection of COVID-19 Coronavirus Using a Reverse Transcriptional Loop-Mediated Isothermal Amplification (RT-LAMP) Diagnostic Platform // Clinical Chemistry. 2020. V.66(7). P.975–977. doi:10.1093/clinchem/hvaa102 95. Zhang Y, Ren G, Buss J, Barry AJ, Patton GC, Tanner NA. Enhancing colorimetric loop-mediated isothermal amplification speed and sensitivity with guanidine chloride // Biotechniques. 2020. V.69(3). P.178-185. doi:10.2144/btn-2020-0078