Research and Prospect of Loop-mediated Isothermal Amplification Assay as a Rapid Gene Screening Method

doi:10.13560/j.cnki.biotech.bull.1985.2018-0412

Abstract

Abstract:

Loop-mediated isothermal amplification（LAMP）is a novel diagnostic technique requiring only simple isothermal heating device to efficiently amplify the targeted specific genes. Due to the high sensitivity and fastness,LAMP has showed to be a potential gene diagnostic tool since its discovery. In recent years,this technology is widely adopted in molecular diagnostics,involving the detection of bacteria,viruses,parasites,animal and plant GMO inspection and other food component determination. More and more researchers regard LAMP as an alternative method instead of PCR for clinical gene diagnosis. However,the lacking of normalized upstream and downstream technologies,such as fast nucleic acid extraction,ideal reaction systems,effective measures against cross contamination,portable detection devices and so on,leads to significant obstacles in its application for on-site diagnosis. To better meet the need of fast detection,many researches targeting to resolve the above associated problems have get primary results. In this article,we define LAMP as an early screening technique according to the demands of rapid clinical diagnosis. Further,we review the current research status and the limit of the related technologies involving fast nucleic acid extraction,optimized detection solutions,avoidance of false-positive results,re-check and determination of the results,the platform of field LAMP performance,and prospect the future technology development and application,aiming at highlighting the future research and development and promoting the constant improvement and clinical application of LAMP.

Key words: loop-mediated isothermal amplification, early screening technique, on-site diagnosis

YUAN Xiang-fen, LÜ Ji-zhou, WU Shao-qiang, WANG Qiao-li, ZHAO Hong. Research and Prospect of Loop-mediated Isothermal Amplification Assay as a Rapid Gene Screening Method[J]. Biotechnology Bulletin, 2018, 34(10): 64-70.

References

[1] Notomi T, Okayama H, Masubuchi H, et al.Loop-mediated isothermal amplification of DNA[J]. Nucleic Acids Res, 2000, 28(12):E63.
[2] Ahmad F, Stedtfeld RD, Waseem H, et al.Most probable number-loop mediated isothermal amplification(MPN-LAMP)for quantifying waterborne pathogens in < 25 min[J]. Microbiol Methods, 2017, 132:27-33.
[3] Dou M, Sanjay ST, Dominguez DC, et al.Multiplexed instrument-free meningitis diagnosis on a polymer/paper hybrid microfluidic biochip[J]. Biosensors & Bioelectronics, 2017, 87:865-873.
[4] Lee D, Kim YT, Lee JW, et al.An integrated direct loop-mediated isothermal amplification microdevice incorporated with an immunochromatographic strip for bacteria detection in human whole blood and milk without a sample preparation step[J]. Biosensors & Bioelectronics, 2016, 79:273-279.
[5] Ito M, Watanabe M, Nakagawa N, et al.Rapid detection and typing of influenza A and B by loop-mediated isothermal amplification:comparison with immunochromatography and virus isolation[J]. Journal of Virological Methods, 2006, 135(2):272-275.
[6] Carter C, Akrami K, Hall D, et al.Lyophilized visually readable loop-mediated isothermal reverse transcriptase nucleic acid amplification test for detection Ebola Zaire RNA[J]. Journal of Virological Methods, 2017, 244:32-38.
[7] Cao Z, Wang H, Wang L, et al.Visual detection of west nile virus using reverse transcription loop-mediated isothermal amplification combined with a vertical flow visualization strip[J]. Front Microbiol, 2016, 7(137):554.
[8] Ela H, Kurosaki Y, Yasuda J, et al.Defining the relative performance of isothermal assays that can be used for rapid and sensitive detection of foot-and-mouth disease virus[J]. Journal of Virological Methods, 2017, 249:102-110.
[9] Sun YL, Yen CH, Tu CF.Immunocapture loop-mediated isothermal amplification assays for the detection of canine parvovirus[J]. Journal of Virological Methods, 2017, 249:94-101.
[10] James HE, Ebert K, Mcgonigle R, et al.Detection of African swine fever virus by loop-mediated isothermal amplification[J]. Journal of Virological Methods, 2010, 164(1):68-74.
[11] Ling C, Jiao Z, Liu D, et al.One-step reverse transcription loop-mediated isothermal amplification for the detection of Maize chlorotic mottle virus, in maize[J]. Journal of Virological Methods, 2017, 240:49-53.
[12] Lee S, Kim H, Lee JY, et al.Development of rapid and highly sensitive detection of Bean common mosaic necrosis virus in leguminous crops using loop-mediated isothermal amplification assay[J]. Journal of Virological Methods, 2017, 249:117-120.
[13] Fukuta S, Mizukami Y, Ishida A, et al.Real-time loop-mediated isothermal amplification for the CaMV-35S promoter as a screening method for genetically modified organisms[J]. European Food Research & Technology, 2004, 218(5):496-500.
[14] Sasaki Y, Komatsu K, Nagumo S.Rapid detection of Panax ginseng by loop-mediated isothermal amplification and its application to authentication of ginseng[J]. BPharm Bull, 2008, 31(9):1806-1808.
[15] Khamlor T, Pongpiachan P, Parnpai R, et al.Bovine embryo sex determination by multiplex loop-mediated isothermal amplification[J]. Theriogenology, 2015, 83(5):891-896.
[16] Ali N, Rcp R, Adt C, et al.Current nucleic acid extraction methods and their implications to point-of-care diagnostics[J]. Biomed Res Int, 2017, 2017(12):1-13.
[17] Camp JV, Nowotny N.Rapid detection of European orthobunyaviruses by reverse transcription loop-mediated isothermal amplification assays[J]. Journal of Virological Methods, 2016, 236:252-257.
[18] Feng N, Zhou Y, Fan Y, et al.Yersinia pestis detection by loop-mediated isothermal amplification combined with magnetic bead capture of DNA[J]. Braz J Microbiol, 2018, 49(1):128-137.
[19] Liu CC, Geva E, Mauk M, et al.An isothermal amplification reactor with an integrated isolation membrane for point-of-care detection of infectious diseases[J]. The Analyst, 2011, 136(10):2069-2076.
[20] Yamamura M, Makimura, Ota Y.Evaluation of a new rapid molecular diagnostic system for Plasmodium falciparum combined with DNA filter paper, loop-mediated isothermal amplification, and melting curve analysis[J]. Jpn J Infect Dis, 2009, 62(1):20-25.
[21] Matovu E, Kuepfer I, Boobo A, et al.Comparative detection of trypanosomal DNA by loop-mediated isothermal amplification and PCR from flinders technology associates cards spotted with patient blood[J]. J Clin Microbiol, 2010, 48(6):2087-2090.
[22] Lu QY, Gerrits van den Ende AHG, Bakkers JMJE, et al. Identification of pseudallescheria and scedosporium species by three molecular methods[J]. J Clin Microbiol, 2010, 49(3):760-767.
[23] Boehme CC, Nabeta P, Henostroza G, et al.Operational feasibility of using loop-mediated isothermal amplification for diagnosis of pulmonary tuberculosis in microscopy centers of developing countries[J]. J Clin Microbiol, 2007, 45(6):1936-1940.
[24] Kok T, Wati S, Bayly B, et al.Comparison of six nucleic acid extraction methods for detection of viral DNA or RNA sequences in four different non-serum specimen types[J]. Journal of Clinical Virology the Official Publication of the Pan American Society for Clinical Virology, 2000, 16(1):59-63.
[25] 初亚男, 封利颖, 张婕妤, 等. 环介导等温扩增技术改进的研究进展[J]. 微生物学通报, 2015, 42(4):729-735.
[26] Mitsunaga S, Shimizu S, Okudaira Y, et al.Improved loop-mediated isothermal amplification for HLA-DRB1 genotyping using RecA and a restriction enzyme for enhanced amplification specificity[J]. Immunogenetics, 2013, 65(6):405-415.
[27] Zyrina NV, Zheleznaya LA, Dvoretsky EV, et al.BspD6I DNA nickase strongly stimulates template-independent synthesis of non-palindromic repetitive DNA by Bst DNA polymerase[J]. Biol Chem, 2007, 388(4):367-372.
[28] Hafner GJ, Yang IC, Wolter LC, et al. Isothermal amplification and multimerization of DNA by Bst DNA polymerase[J]. Biotechniques, 2001, 30(4):852-856, 858, 860.
[29] Curtis KA, Rudolph DL, Owen SM.Sequence-specific detection method for reverse transcription, loop-mediated isothermal amplification of HIV-1[J]. J Med Virol, 2009, 81(6):966-972.
[30] Jiang YS, Bhadra S, Li B, et al.Robust strand exchange reactions for the sequence-specific, real-time detection of nucleic acid amplicons[J]. Anal Chem, 2015, 87(6):3314-3320.
[31] 王彩霞, 冯春燕, 王巧黎, 等. 同时检测贝类派琴虫和包纳米虫的双重LAMP方法的建立[J]. 中国畜牧兽医, 2015, 42(8):1935-1942.
[32] 石素婷. 水生动物疫病病原LAMP检测方法的建立[D]. 太谷:山西农业大学, 2015.
[33] Kasahara K, Ishikawa H, Sato S, et al.Development of multiplex loop-mediated isothermal amplification assays to detect medically important yeasts in dairy products[J]. FEMS Microbiol Lett, 2014, 357(2):208-216.
[34] Tanner NA, Zhang Y, Jr ET.Simultaneous multiple target detection in real-time loop-mediated isothermal amplification.[J]. Biotechniques, 2012, 53(2):81-89.
[35] 周杰, 黄文胜, 邓婷婷, 等. 转基因检测微流控恒温扩增芯片的研制[J]. 现代食品科技, 2017, 33(06):293-302, 270.
[36] Chen C, Liu P, Zhao X, et al.A self-contained microfluidic in-gel loop-mediated isothermal amplification for multiplexed pathogen detection[J]. Sensors & Actuators B Chemical, 2017, 239:1-8.
[37] 袁向芬, 吴绍强, 林祥梅. 四种核酸染料对用LAMP方法检测猪繁殖与呼吸综合征病毒的影响[J]. 中国动物检疫, 2015, 32(2):72-77.
[38] Nimitphak T, Kiatpathomchai WFlegel TW.Shrimp hepatopancreatic parvovirus detection by combining loop-mediated isothermal amplification with a lateral flow dipstick[J]. J Virol Methods, 2008, 154(2):56-60.
[39] 刘威. 现场传染病诊断关键技术的研究及应用[D]. 北京:中国人民解放军军事医学科学院, 2014.
[440] Wang Y, Liu D, Deng J, et al.Loop-mediated isothermal amplification using self-avoiding molecular recognition systems and antarctic thermal sensitive uracil-DNA-glycosylase for detection of nucleic acid with prevention of carryover contamination.[J]. Analytica Chimica Acta, 2017, 996:74-87.
[41] Tone K, Fujisaki R, Yamazaki T, et al.Enhancing melting curve analysis for the discrimination of loop-mediated isothermal amplification products from four pathogenic molds:Use of inorganic pyrophosphatase and its effect in reducing the variance in melting temperature values[J]. Journal of Microbiological Methods, 2016, 132:41-45.
[42] Hataoka Y, Zhang L, Mori Y, et al.Analysis of specific gene by integration of isothermal amplification and electrophoresis on poly(methyl methacrylate)microchips[J]. Anal Chem, 2004, 76(13):3689-3693.