DETECTION OF WATERBORNE PATHOGENS BY LOOP-MEDIATED ISOTHERMAL AMPLIFICATION (LAMP)
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摘要: 微生物指标是水质安全的重要指标之一,但是由于技术原因,大部分病原微生物并未被纳入水质监测中。目前各类水质标准中只有病原指示微生物的指标,然而这些指标与病原微生物的相关性并不理想。因此,开发快速简便的病原微生物检测技术是改进水质生物检测和监测的关键。环介导等温扩增技术是一种快速检测DNA且不依赖昂贵检测设备的PCR技术。尝试利用该技术检测水中的8种常见指示菌和病原菌:总大肠杆菌、沙门氏菌、鲍氏志贺氏菌、大肠埃希氏菌O157∶H7、小肠耶尔森氏菌、嗜肺军团菌、绿脓杆菌和结核杆菌,获得了针对其中5种细菌的毒力基因的特异性引物和最优等温PCR条件。环介导等温扩增技术的灵敏度可在45min内检测出100个基因拷贝,并能在原污水中对病原菌进行定性检测。
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关键词:
- 水质指标 /
- 病原菌 /
- 等温PCR /
- 环介导等温扩增(LAMP)
Abstract: Microbiological index is important to water safety, while the measurement of pathogenic bacteria in water is not included in the water quality monitoring due to the technique barrier. Most water quality standards contain only indicator microorganisms. However, the correlation between these indicators and real pathogens is not good enough to guarantee the safety. Therefore, developing fast and simple pathogen detection technologies is the key to improve microbiological monitoring in water. Loop-mediated isothermal amplification is a fast PCR technology to detect DNA independent of expensive PCR machine. This study attempted to detect 8 prevalent indicators and pathogenic bacteria: total coliform, Salmonella enterica, Shigella flexneri, Escherichia coli O157∶H7, Yesinia enterocolitica, Legionella pneumophila, Pseudomonas aeruginosa, Mycobacterium tuberculosis, by LAMP. The primers and PCR conditions of five of them were successfully optimized. The sensitivity of LAMP was to detect 100 gene copies within 45 minutes, and this technology can be applied in the detection of pathogens in raw wastewater. -
[1] STANWELL-SMITH R. Waterborne zoonoses: identification,causes and control[J].Public Health,2006,120(5):477-478. [2] BRIDLE H.Overview of Waterborne Pathogens[M].Bridle H.Waterborne Pathogens.Amsterdam;Academic Press,2014:9-40. [3] MEHLE N,GUTIERREZ-AGUIRRE I,KUTNJAK D,et al.Water-mediated Transmission of Plant,Animal,and Human Viruses[M].Malmstrom CM.Environmental Virology and Virus Ecology,2018:85-128. [4] WHO.Preventing Diarrhoea Through Better Water Sanitation and Hygiene[M].WHO,2014. [5] HLAVSA M C,CIKESH B L,ROBERTS V A,et al.Outbreaks associated with treated recreational water-united states,2000—2014[J].MMWR Morbidity and Mortality Weekly Report,2018,67(19):547-551. [6] SCALLAN E,HOEKSTRA R M,ANGULO F J,et al.Foodborne illness acquired in the United States:major pathogens [J].Emerging Infectious Diseases,2011,17(1):7-15. [7] BOSCH S,TAUXE R V,BEHRAVESH C B.Turtle-associated salmonellosis,united states,2006—2014[J].Emerging Infectious Diseases,2016,22(7):1149-1155. [8] BALDURSSON S,KARANIS P.Waterborne transmission of protozoan parasites:review of worldwide outbreaks-an update 2004—2010[J].Water Research,2011,45(20):6603-6614. [9] GALL A M,MARINAS B J,LU Y,et al.Waterborne viruses:a barrier to safe drinking water[J].PLoS Pathogens,2015,11(6):e1004867. [10] MOREIRA N A,BONDELIND M.Safe drinking water and waterborne outbreaks[J].Journal of Water and Health,2017,15(1):83-96. [11] 陈亚楠,王亚炜,魏源送,等.不同功能地表水体中病原微生物指示物的标准比较[J].环境科学学报,2015,35(2):337-351. [12] A global overview of national regulations and standards for drinking-water quality[S].WHO,2018. [13] 国家环境保护总局.地表水环境质量标准:GB 3838—2002[S].北京,2002. [14] 国家质量监督检验检疫总局.城市污水再生利用景观环境用水水质:GB/T 18921—2002[S].2002. [15] 中华人民共和国卫生部,中国国家标准化管理委员会.生活饮用水卫生标准:GB 5749—2006[S].2006. [16] BRIANCESCO R.Microbial indicators and fresh water quality assessment[J].Annalidell’ Istituto Superiore Sanità,2005,41(3):353-358. [17] RAMIREZ-CASTILLO F Y,LOERA-MURO A,JACQUES M,et al.Waterborne pathogens:detection methods and challenges[J].Pathogens,2015,4(2):307-334. [18] DESHMUKH R A,JOSHI K,BHAND S,et al.Recent developments in detection and enumeration of waterborne bacteria:a retrospective minireview[J].Microbiology Open,2016,5(6):901-922. [19] LI L J,QIN T,LI Y,et al.Prevalence and molecular characteristics of waterborne pathogen legionella in industrial cooling tower environments[J].International Journal of Environmental Research and Public Health,2015,12(10):12605-12617. [20] GOMI R,MATSUDA T,FUJIMORI Y,et al.Characterization of pathogenic escherichia coli in River Water by simultaneous detection and sequencing of 14 virulence genes[J].Environmental Science & Technology,2015,49(11):6800-6807. [21] FUKUSHIMA H,TSUNOMORI Y,SEKI R.Duplex real-time SYBR green PCR assays for detection of 17 species of food or waterborne pathogens in stools[J].Journal of Clinical Microbiology,2003,41(11):5134-5146. [22] GARCES-SANCHEZ G,WILDERER P A,MUNCH J C,et al.Evaluation of two methods for quantification of hsp70 mRNA from the waterborne pathogen Cryptosporidium parvum by reverse transcription real-time PCR in environmental samples[J].Water Research,2009,43(10):2669-2678. [23] LIU L,CLOUTIER M,CRAIOVAN E,et al.Quantitative real-time PCR-based assessment of tile drainage management influences on bacterial pathogens in tile drainage and groundwater[J].Science of the Total Environment,2018,624:1586-1597. [24] KANG L H,OH S H,PARK J W,et al.Simultaneous detection of waterborne viruses by multiplex real-time PCR[J].Journal of Microbiology,2013,51(5):671-675. [25] MITCHELL S L,GEORGE K S.Evaluation of the COVID19 ID NOW EUA assay[J].Journal of Clinical Virology,2020,128:104429. [26] MORI Y,NOTOMI T.Loop-mediated isothermal amplification (LAMP):expansion of its practical application as a tool to achieve universal health coverage[J].Journal of Infection and Chemotherapy,2020,26(1):13-17. [27] 谷晓红,谭晴晴,刘艳艳,等.利用环介导等温扩增技术快速检测饮用水中的大肠杆菌[J].山东农业科学,2017,49(1):130-135. [28] 罗鸿斌.水环境中诺如病毒RT-LAMP快速检测方法的建立及应用[J].安徽农业科学,2017,45(15):57-59,84. [29] 杨丽.环介导等温扩增技术(LAMP)检测三种典型肠病毒方法的建立及其在水环境中的应用[D].武汉:华中农业大学,2011. [30] NEB.Loop-mediated Isothermal Amplification (LAMP)[M].NEB.2015. [31] NOTOMI T,OKAYAMA H,MASUBUCHI H,et al.Loop-mediated isothermal amplification of DNA[J].Nucleic Acids Research,2000,28(12):E63. [32] 赵晓芸,卢静芳,苑宏英,等.污水处理厂进出水中两种特征性病原菌水平及灭活特性[J].环境与健康杂志,2013,30(12):1084-1086. [33] 崔祁嘉.城市景观娱乐水体人类细菌病原菌多样性及风险研究[D].北京:清华大学,2017. [34] BEJ A K,DICESARE J L,HAFF L,et al.Detection of Escherichia coli and Shigella spp.in water by using the polymerase chain reaction and gene probes for uid[J].Appied and Environmental Microbiology,1991,57(4):1013-1017. [35] IQBAL S,ROBINSON J,DEERE D,et al.Efficiency of the polymerase chain reaction amplification of the uid gene for detection of Escherichia coli in contaminated water[J].Letters Applied in Microbiology,1997,24(6):498-502. [36] WEST S E,KAYE S A,HAMOOD A N,et al.Characterization of Pseudomonas aeruginosa mutants that are deficient in exotoxin A synthesis and are altered in expression of regA,a positive regulator of exotoxin A[J].Infection and Immunity,1994,62(3):897-903. [37] FRANK D W,STOREY D G,HINDAHL M S,et al.Differential regulation by iron of regA and toxA transcript accumulation in Pseudomonas aeruginosa[J].Journal of Bacteriology,1989,171(10):5304-5313. [38] BONETTA S,PIGNATA C,LORENZI E,et al.Detection of pathogenic Campylobacter,E.coli O157∶H7 and Salmonella spp.in wastewater by PCR assay[J].2016,23(15):15302-15309. [39] BONETTA S,BORELLI E,BONETTA S,et al.Development of a PCR protocol for the detection of Escherichia coli O157:H7 and Salmonella spp.in surface water[J].Environmental Monitoring and Assessment,2011,177(1):493-503. [40] GALAN J E,CURTISS R,3RD.Distribution of the invA,-B,-C,and-D genes of Salmonella typhimurium among other Salmonella serovars:invA mutants of Salmonella typhi are deficient for entry into mammalian cells[J].Infection and Immunity,1991,59(9):2901-2908. [41] GALAN J E,GINOCCHIO C,COSTEAS P.Molecular and functional characterization of the Salmonella invasion gene invA:homology of InvA to members of a new protein family[J].Journal of Bacteriology,1992,174(13):4338-4349. [42] GRUAS C,LLAMBI S,ARRUGA M V.Detection of Legionella spp.and Legionella pneumophila in water samples of Spain by specific real-time PCR[J].Archives of Microbiology,2014,196(1):63-71. [43] SETHABUTR O,VENKATESAN M,MURPHY G S,et al.Detection of Shigellae and enteroinvasive Escherichia coli by amplification of the invasion plasmid antigen H DNA sequence in patients with dysentery[J].The Journal of Infectious Diseases,1993,167(2):458-461. [44] HARTMAN A B,VENKATESAN M,OAKS E V,et al.Sequence and molecular characterization of a multicopy invasion plasmid antigen gene,ipaH,of Shigella flexneri [J].Journal of Bacteriology,1990,172(4):1905-1915. [45] IBRAHIM A,LIESACK W,GRIFFITHS M W,et al.Development of a highly specific assay for rapid identification of pathogenic strains of Yersinia enterocolitica based on PCR amplification of the Yersinia heat-stable enterotoxin gene (yst)[J].Journal of Clinical Microbiology,1997,35(6):1636-1638. [46] CREMONESI P,PISANI L F,LECCHI C,et al.Development of 23 individual TaqMan(R) real-time PCR assays for identifying common foodborne pathogens using a single set of amplification conditions[J].Food Microbiology,2014,43:35-40. [47] 生态环境部.水质粪大肠菌群的测定多管发酵法:HJ 347.2—2018[S].2018. [48] 生态环境部.水质粪大肠菌群的测定滤膜法:HJ 347.1—2018[S].2018. [49] 生态环境部.水质粪大肠菌群的测定酶底物法:HJ 1001—2018[S].2018. [50] MARTZY R,KOLM C,BRUNNER K,et al.A loop-mediated isothermal amplification (LAMP) assay for the rapid detection of Enterococcus spp.in water[J].Water Research,2017,122:62-69. [51] WANG D G,YU J H,WANG Y Z,et al.Development of a real-time loop-mediated isothermal amplification (LAMP) assay and visual LAMP assay for detection of African swine fever virus (ASFV)[J].Journal of Virological Methods,2020,276:113775. [52] MORI Y,NAGAMINE K,TOMITA N,et al.Detection of loop-mediated isothermal amplification reaction by turbidity derived from magnesium pyrophosphate formation[J].Biochemical Biophysical Research Communications,2001,289(1):150-154. [53] ORIVE G,LERTXUNDI U,BARCELO D.Early SARS-CoV-2 outbreak detection by sewage-based epidemiology[J].Science of the Total Environment,2020,732:139298. [54] 尹红果,方福如,商栩.LAMP技术在水体病原微生物检测中的应用[J].浙江农业科学,2017,58(8):1440-1443. [55] LIN X Y,HUANG X,URMANN K,et al.Digital loop-mediated isothermal amplification on a commercial membrane[J].ACS Sensors,2019,4(1):242-249. [56] GIBSON K E,SCHWAB K J,SPENCER S K,et al.Measuring and mitigating inhibition during quantitative real time PCR analysis of viral nucleic acid extracts from large-volume environmental water samples[J].Water Research,2012,46(13):4281-4291. [57] SHI X J,LIU G,ZHANG M Y,et al.Membrane-sensitive bacterial DNA extractions and absolute quantitation of recovery efficiencies[J].Science of the Total Environment,2020,708:135125. [58] JIANG S C,HAN M Y,CHANDRASEKARAN S,et al.Assessing the water quality impacts of two Category-5 hurricanes on St.Thomas,Virgin Islands[J]. Water Research, 2020, 171:115440.
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