Detection of enterovirus in environmental waters: A new optimized method compared to commercial real-time RT-qPCR kits

Journal of Virological Methods

Volumn 209, Issue , 2014, Pages 47-54

  Wurtzer, Sebastien ^a   Prevost, Benoit ^b   Lucas, Francoise S ^b   Moulin, Laurent ^a  

^a Eau de Paris DRDQE R and D biologie ^*  (France)

^b UNIVERSITÉ PARIS EST CRÉTEIL   (France)

Author keywords

Enterovirus; Inhibition; Real time RT qPCR; Surface water; Virus detection; Wastewater

Indexed keywords

SURFACE WATER;

ACCURACY; ARTICLE; CONTROLLED STUDY; ENTEROVIRUS; ENVIRONMENTAL MONITORING; GENOTYPE; LIMIT OF DETECTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION SYSTEM; PREDICTIVE VALUE; REAL TIME POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RIVER; SENSITIVITY AND SPECIFICITY; VALIDITY; VIRUS DETECTION; VIRUS ISOLATION; VIRUS LOAD; WASTE WATER MANAGEMENT; WATER CONTAMINATION; WATER POLLUTION; WATER SAMPLING; COMPARATIVE STUDY; EVALUATION STUDY; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; PROCEDURES;

ENTEROVIRUS; REAL-TIME POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; WATER MICROBIOLOGY;

EID: 84907553366     PISSN: 01660934     EISSN: 18790984     Source Type: Journal    
DOI: 10.1016/j.jviromet.2014.08.016     Document Type: Article

References (35)

1. Bae S., Wuertz S. Survival of host-associated bacteroidales cells and their relationship with Enterococcus spp., Campylobacter jejuni, Salmonella enterica serovar Typhimurium, and adenovirus in freshwater microcosms as measured by propidium monoazide-quantitative PCR. Appl. Environ. Microbiol. 2012, 78:922-932.
2. Blaise-Boisseau S., Hennechart-Collette C., Guillier L., Perelle S. Duplex real-time qRT-PCR for the detection of hepatitis A virus in water and raspberries using the MS2 bacteriophage as a process control. J. Virol. Methods 2010, 166:48-53.
3. Borchardt M.A., Spencer S.K., Kieke B.A., Lambertini E., Loge F.J. Viruses in nondisinfected drinking water from municipal wells and community incidence of acute gastrointestinal illness. Environ. Health Perspect. 2012, 120:1272-1279.
4. Cashdollar J.L., Brinkman N.E., Griffin S.M., McMinn B.R., Rhodes E.R., Varughese E.A., Grimm A.C., Parshionikar S.U., Wymer L., Fout G.S. Development and evaluation of EPA method 1615 for detection of enterovirus and norovirus in water. Appl. Environ. Microbiol. 2013, 79:215-223.
5. European Food Safety Authority Trends and Sources of Zoonoses, Zoonotic Agents and Food-borne Outbreaks in 2008. European Centre for Disease Prevention and Control 2010, pp. 410.
6. Fittipaldi M., Rodriguez N.J., Codony F., Adrados B., Penuela G.A., Morato J. Discrimination of infectious bacteriophage T4 virus by propidium monoazide real-time PCR. J. Virol. Methods 2010, 168:228-232.
7. Fout G.S., Brinkman N.E., Cashdollar J.L., Griffin S.M., McMinn B.R., Rhodes E.R., Varughese E.A., Karim M.R., Grimm A.C., Spencer B., Borchardt M.A. Method 1615: Measurement of Enterovirus and Norovirus Occurrence in Water by Culture and RT-qPCR 2012.
8. Gibson K.E., Schwab K.J. Detection of bacterial indicators and human and bovine enteric viruses in surface water and groundwater sources potentially impacted by animal and human wastes in Lower Yakima Valley Washington. Appl. Environ. Microbiol. 2011, 77:355-362.
9. Gibson K.E., Schwab K.J., Spencer S.K., Borchardt M.A. Measuring and mitigating inhibition during quantitative real time PCR analysis of viral nucleic acid extracts from large-volume environmental water samples. Water Res. 2012, 46:4281-4291.
10. Grabow W.O.K. Overview of health-related water virology. Human Viruses in Water 2007, 1-25. A. Bosch (Ed.).
11. Guescini M., Sisti D., Rocchi M.B., Stocchi L., Stocchi V. A new real-time PCR method to overcome significant quantitative inaccuracy due to slight amplification inhibition. BMC Bioinf. 2008, 9:326.
12. Hamza I.A., Jurzik L., Uberla K., Wilhelm M. Methods to detect infectious human enteric viruses in environmental water samples. Int. J. Hyg. Environ. Health. 2011, 214:424-436.
13. Hata A., Katayama H., Kitajima M., Visvanathan C., Nol C., Furumai H. Validation of internal controls for extraction and amplification of nucleic acids from enteric viruses in water samples. Appl. Environ. Microbiol. 2011, 77:4336-4343.
14. He J.W., Jiang S. Quantification of enterococci and human adenoviruses in environmental samples by real-time PCR. Appl. Environ. Microbiol. 2005, 71:2250-2255.
15. Hoorfar J., Malorny B., Abdulmawjood A., Cook N., Wagner M., Fach P. Practical considerations in design of internal amplification controls for diagnostic PCR assays. J. Clin. Microbiol. 2004, 42:1863-1868.
16. Ijzerman M.M., Dahling D.R., Fout G.S. A method to remove environmental inhibitors prior to the detection of waterborne enteric viruses by reverse transcription-polymerase chain reaction. J. Virol. Methods 1997, 63:145-153.
17. Jofre J. Indicators of waterborne enteric viruses. Human Viruses in Water 2007, 227-249. A. Bosch (Ed.).
18. Jothikumar N., Cliver D.O., Mariam T.W. Immunomagnetic capture PCR for rapid concentration and detection of hepatitis A virus from environmental samples. Appl. Environ. Microbiol. 1998, 64:504-508.
19. Martin-Latil S., Hennechart-Collette C., Guillier L., Perelle S. Duplex RT-qPCR for the detection of hepatitis E virus in water, using a process control. Int. J. Food Microbiol. 2012, 157:167-173.
20. Mattison K., Brassard J., Gagne M.J., Ward P., Houde A., Lessard L., Simard C., Shukla A., Pagotto F., Jones T.H., Trottier Y.L. The feline calicivirus as a sample process control for the detection of food and waterborne RNA viruses. Int. J. Food Microbiol. 2009, 132:73-77.
21. Mons C., Dumetre A., Gosselin S., Galliot C., Moulin L. Monitoring of Cryptosporidium and Giardia river contamination in Paris area. Water Res. 2009, 43:211-217.
22. Moulin L., Richard F., Stefania S., Goulet M., Gosselin S., Goncalves A., Rocher V., Paffoni C., Dumetre A. Contribution of treated wastewater to the microbiological quality of Seine River in Paris. Water Res. 2010, 44:5222-5231.
23. Nix W.A., Oberste M.S., Pallansch M.A. Sensitive, seminested PCR amplification of VP1 sequences for direct identification of all enterovirus serotypes from original clinical specimens. J. Clin. Microbiol. 2006, 44:2698-2704.
24. Nuanualsuwan S., Cliver D.O. Pretreatment to avoid positive RT-PCR results with inactivated viruses. J. Virol. Methods 2002, 104:217-225.
25. Parshionikar S., Laseke I., Fout G.S. Use of propidium monoazide in reverse transcriptase PCR to distinguish between infectious and noninfectious enteric viruses in water samples. Appl. Environ. Microbiol. 2010, 76:4318-4326.
26. Radstrom P., Lofstrom C., Lovenklev M., Knutsson R., Wolffs P. Strategies for overcoming PCR inhibition. CSH Protoc. 2008, 2008. pdb top 20.
27. Rajal V.B., McSwain B.S., Thompson D.E., Leutenegger C.M., Kildare B.J., Wuertz S. Validation of hollow fiber ultrafiltration and real-time PCR using bacteriophage PP7 as surrogate for the quantification of viruses from water samples. Water Res. 2007, 41:1411-1422.
28. Rodriguez R.A., Thie L., Gibbons C.D., Sobsey M.D. Reducing the effects of environmental inhibition in quantitative real-time PCR detection of adenovirus and norovirus in recreational seawaters. J. Virol. Methods 2012, 181:43-50.
29. Schiff G.M., Stefanovic G.M., Young E.C., Pennekamp J.K. Determination of a Minimal Infectious Dose of an Enterovirus in Drinking Water 1983, United States Environmental Protection Agency.
30. Schiff G.M., Stefanovic G.M., Young E.C., Sander D.S., Pennekamp J.K., Ward R.L. Studies of echovirus-12 in volunteers: determination of minimal infectious dose and the effect of previous infection on infectious dose. J. Infect. Dis. 1984, 150:858-866.
31. Seitz S.R., Leon J.S., Schwab K.J., Lyon G.M., Dowd M., McDaniels M., Abdulhafid G., Fernandez M.L., Lindesmith L.C., Baric R.S., Moe C.L. Norovirus infectivity in humans and persistence in water. Appl. Environ. Microbiol. 2011, 77:6884-6888.
32. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol. Biol. Evol. 2013, 30:2725-2729.
33. Teunis P.F., Lodder W.J., Heisterkamp S.H., de Roda Husman A.M. Mixed plaques: statistical evidence how plaque assays may underestimate virus concentrations. Water Res. 2005, 39:4240-4250.
34. Wilson I.G. Inhibition and facilitation of nucleic acid amplification. Appl. Environ. Microbiol. 1997, 63:3741-3751.
35. Wu J., Long S.C., Das D., Dorner S.M. Are microbial indicators and pathogens correlated? A statistical analysis of 40 years of research. J. Water Health 2011, 9:265-278.