Rapid QPCR-based assay for fecal Bacteroides spp. as a tool for assessing fecal contamination in recreational waters

Water Research

Volumn 43, Issue 19, 2009, Pages 4828-4837

  Converse, Reagan R ^a   Blackwood, A Denene ^a   Kirs, Marek ^b   Griffith, John F ^c   Noble, Rachel T ^a  

^a University of North Carolina at Chapel Hill   (United States)

^b CAWTHRON INSTITUTE   (New Zealand)

^c SOUTHERN CALIFORNIA COASTAL WATER RESEARCH PROJECT   (United States)

Author keywords

Bacteroides; Enterococcus speciation; Fecal indicator bacteria; Microbial source tracking; Quantitative PCR

Indexed keywords

BACILLI; CONTAMINATION; MICROFILTRATION; POLYMERASE CHAIN REACTION; RNA; SEWAGE; WATER FILTRATION; WATER POLLUTION;

BACTEROIDES; E. COLI; ENTEROCOCCUS SPECIATION; FAECAL INDICATOR BACTERIA; FECAL CONTAMINATION; HUMAN FAECAL; MICROBIAL SOURCE TRACKING; PCR ASSAY; QUANTITATIVE PCR; RECREATIONAL WATER;

ESCHERICHIA COLI;

RNA 16S;

BATHING WATER; BIOASSAY; CONCENTRATION (COMPOSITION); DETECTION METHOD; EXPERIMENTAL STUDY; FECAL COLIFORM; FILTRATION; GENETIC ANALYSIS; MEMBRANE; PERFORMANCE ASSESSMENT; POLYMERASE CHAIN REACTION; SPECIATION (BIOLOGY); TRACKING; WATER POLLUTION;

ARTICLE; BACTERIUM CULTURE; BACTEROIDES; CONCENTRATION (PARAMETERS); CONTROLLED STUDY; ENTEROCOCCUS; ENTEROCOCCUS CASSELIFLAVUS; ENTEROCOCCUS FAECALIS; ENTEROCOCCUS FAECIUM; ESCHERICHIA COLI; FECAL COLIFORM; FECES ANALYSIS; INOCULATION; MEMBRANE FILTER; NONHUMAN; POLYMERASE CHAIN REACTION; PREDICTION; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; RECREATION; SENSITIVITY AND SPECIFICITY; SEWAGE; WASTE WATER MANAGEMENT; WATER CONTAMINATION; WATER SAMPLING;

ANIMALIA; BACTEROIDES; BACTEROIDES SP.; ENTEROCOCCUS; ENTEROCOCCUS CASSELIFLAVUS; ENTEROCOCCUS FAECALIS; ENTEROCOCCUS FAECIUM; ENTEROCOCCUS SP.; ESCHERICHIA COLI;

EID: 71549166026     PISSN: 00431354     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.watres.2009.06.036     Document Type: Article

References (44)

1. Alderisio K.A., and DeLuca N. Seasonal enumeration of fecal coliform bacteria from the feces of ring-billed gulls (Larus delawarensis) and Canada geese (Branta Canadensis). Applied and Environmental Microbiology 65 12 (1999) 5628-5630
2. Anderson K.L., Whitlock J.E., and Harwood V.J. Persistence and differential survival of fecal indicator bacteria in subtropical waters and sediments. Applied and Environmental Microbiology 71 6 (2005) 3041-3048
3. Bernhard A.E., and Field K.G. A PCR assay to discriminate human and ruminant feces on the basis of host differences in Bacteroides-Prevotella genes encoding 16S rRNA. Applied and Environmental Microbiology 66 (2000) 4571-4574
4. Cabelli V.J., Dufour A.P., Levin M.A., McCabe L.J., and Haberman P.W. Relationship of microbial indicators to health-effects at marine bathing beaches. American Journal of Public Health 69 7 (1979) 690-696
5. Cabelli V.J. Microbial indicator systems for assessing water quality. Journal of Microbiology 48 6 (1982) 613-618
6. Carson C.A., Christiansen J.M., Yampara-Iquise H., Benson V.W., Baffaut C., Davis J.V., Broz R.R., Kurtz W.B., Rogers W.M., and Fales W.H. Specificity of a Bacteroides thetaiotamicron marker for human feces. Applied and Environmental Microbiology 71 8 (2005) 4945-4949
7. Chern, E.C., Varma, M., Shively, D., Byappanahalli, M.N., Whitman, R., Zepp, R., Haugland, R.A., 2008. Analysis of Enterococci and Bacteroidales fecal indicator bacteria in a Lake Michigan tributary by real-time quantitative PCR. In: 108th General Meeting of the American Society for Microbiology, June 1-5, Boston, MA.
8. Devriese L.A., Pot B., Kersters K., Lauwers S., and Haesebrouck F. Acidification of methyl-α-d-glucopyranoside: a useful test to differentiate Enterococcus casseliflavus and Enterococcus gallinarum from Enterococcus faecium species group and from Enterococcus faecalis. Journal of Clinical Microbiology 34 10 (1996) 2607-2608
9. Dick L.K., and Field K.G. Rapid estimation of numbers of fecal Bacteroidetes by use of a quantitative PCR assay for 16S rRNA genes. Applied and Environmental Microbiology 70 (2004) 5695-5697
10. Dufour A.P. Bacterial indicators of recreational water-quality. Canadian Journal of Public Health 75 1 (1984) 49-56
11. Ferguson D.M., Moore D.F., Getrich M.A., and Zhowandai M.H. Enumeration and speciation of Enterococci found in marine and intertidal sediments and coastal water in southern California. Journal of Applied Microbiology 99 (2005) 598-608
12. Griffith, J.F., Cao, Y., McGee, C.D., Weisberg, S.B. Evaluation of rapid methods and novel indicators for assessing microbiological beach water quality. Water Research, submitted for publication.
13. Haile R.W., Witte J.S., Gold M., Cressey R., McGee C., Millikan R.C., Glasser A., Harawa N., Ervin C., Harmon P., Harper J., Dermand J., Alamilla J., Barrett K., Nides M., and Wang G.Y. The health effects of swimming in ocean water contaminated by storm drain runoff. Epidemiology 10 4 (1999) 355-363
14. Haugland R.A., Siefring S.C., Wymer L.J., Brenner K.P., and Dufour A.P. Comparison of Enterococcus measurements in freshwater at two recreational beaches by quantitative polymerase chain reaction and membrane filter culture analysis. Water Research 39 (2005) 559-568
15. Jiang S.C., and Chu W. PCR detection of pathogenic viruses in southern California urban rivers. Journal of Applied Microbiology 97 1 (2004) 17-28
16. Kildare B.J., Leutenegger C.M., McSwain B.S., Bambic D.G., Rajal V.B., and Wuertz S. 16S rRNA-based assays for quantitative detection of universal, human-, cow-, and dog-specific fecal Bacteroidales: a Bayesian approach. Water Research 41 16 (2007) 3701-3715
17. Kleinheinz G.T., McDermott C.M., and Chomeau V. Evaluation of avian waste and bird counts as predictors of Escherichia coli contamination at Door County, Wisconsin beaches. Journal of Great Lakes Research 32 1 (2006) 117-123
18. Kreader C.A. Design and evaluation of Bacteroides DNA probes for the specific detection of human fecal pollution. Applied and Environmental Microbiology 61 4 (1995) 1171-1179
19. Kreader C.A. Persistence of PCR-detectable Bacteroides distasonis from human feces in river water. Applied and Environmental Microbiology 64 10 (1998) 4103-4105
20. Layton A., McKay L., Williams D., Garrett V., Gentry R., and Sayler G. Development of Bacteroides 16S rRNA gene TaqMan-based real-time PCR assays for estimation of total, human, and bovine fecal pollution in water. Applied and Environmental Microbiology 72 (2006) 4214-4224
21. Leclerc H., Devriese L.A., and Mossel D.A.A. Taxonomical changes in intestinal (faecal) Enterococci and Streptococci: consequences on their use as indicators of faecal contamination in drinking water. Journal of Applied Bacteriology 81 (1996) 459-466
22. Noble, R.T., Blackwood, A.D., Griffith, J.F., McGee, C.D., Weisberg, S.B. Comparison of rapid QPCR-based and culture-based methods for enumeration of Enterococcus spp. and Escherichia coli in recreational waters. Applied and Environmental Microbiology, submitted for publication.
23. Noble R.T., and Fuhrman J.A. Use of SYBR Green 1 for rapid epifluorescence counts of marine viruses and bacteria. Aquatic Microbial Ecology 14 (1998) 113-118
24. Noble R.T., and Fuhrman J.A. Enteroviruses detected in the coastal waters of Santa Monica Bay, CA: low correlation to bacterial indicators. Hydrobiologia 460 (2001) 175-184
25. Okabe S., Okayama N., Savichtcheva O., and Ito T. Identification and quantification of host-specific Bacteroides-Prevotella 16S rRNA genetic markers for assessment of fecal pollution in freshwaters. Applied Microbiology and Biotechnology 74 (2007) 890-901
26. Pfaffl M.W. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Research 29 9 (2001) e45
27. Pinto B., Pierotti R., Canale G., and Reali D. Characterization of 'faecal Streptococci' as indicators of faecal pollution and distribution in the environments. Letters in Applied Microbiology 29 (1999) 258-263
28. Ram J.L., Thompson B., Turner C., Nechvatal J.M., Sheehan H., and Bobrin J. Identification of pets and raccoons as sources of bacterial contamination of urban storm sewers using a sequence-based bacterial source tracking method. Water Research 41 (2007) 3605-3614
29. Reischer G.H., Kasper D.C., Steinborn R., Farnleitner A.H., and Mach R.L. A quantitative real-time PCR assay for the highly sensitive and specific detection of human faecal influence in spring water from a large alpine catchment area. Letters in Applied Microbiology 44 (2007) 351-356
30. Santo Domingo J.W., Siefring S.D., and Haugland R.A. Real-time PCR method to detect Enterococcus faecalis in water. Biotechnology Letters 25 (2003) 261-265
31. Savichtcheva O., and Okabe S. Alternative indicators of fecal pollution: relations with pathogens and conventional indicators, current methodologies for direct pathogen monitoring and future application perspectives. Water Research 40 (2006) 2463-2476
32. Savichtcheva O., Okayama N., and Okabe S. Relationships between Bacteroides 16S rRNA genetic markers and presence of bacterial enteric pathogens and conventional fecal indicators. Water Research 41 (2007) 16
33. Scott T.M., Jenkins T.M., Lukasik J., and Rose J.B. Potential use of a host associated molecular marker in Enterococcus faecium as an index of human fecal pollution. Environmental Science & Technology 39 1 (2005) 283-287
34. Schwab K.J. Are existing bacterial indicators adequate for determining recreational water illness in waters impacted by nonpoint pollution?. Epidemiology 18 1 (2007) 21-22
35. Seurinck S., Defoirdt T., Verstraete W., and Siciliano S.D. Detection and quantification of the human-specific HF183 Bacteroides 16S rRNA genetic marker with real-time PCR for assessment of human faecal pollution in freshwater. Environmental Microbiology 7 (2005) 249-259
36. Shanks O.C., Atikovic E., Blackwood A.D., Lu J., Noble R.T., Santo Domingo J., Seifring S., Sivaganesan M., and Haugland R.A. Quantitative PCR for detection and enumeration of genetic markers of bovine fecal pollution. Applied and Environmental Microbiology 74 (2008) 745-752
37. Solo-Gabriele H.M., Wolfert M.A., Desmarais T.R., and Palmer C.J. Sources of Escherichia coli in a coastal subtropical environment. Applied and Environmental Microbiology 66 1 (2000) 230-237
38. Stricker A.R., Wilhartitz I., Farnleitner A.H., and Mach R.L. Development of a Scorpion probe-based real-time PCR for the sensitive quantification of Bacteroides sp ribosomal DNA from human and cattle origin and evaluation in spring water matrices. Microbiological Research 163 (2008) 140-147
39. Wade T.J., Pai N., Eisenberg J.N.S., and Colford J.M. Do U.S. Environmental Protection Agency water quality guidelines for recreational waters prevent gastrointestinal illness? A systematic review and meta-analysis. Environmental Health Perspectives 111 8 (2003) 1102-1109
40. Wait D.A., and Sobsey M.D. Comparative survival of enteric viruses and bacteria in Atlantic Ocean seawater. Water Science and Technology 43 (2001) 139-142
41. Wang R.F., Cao W.W., and Cerniglia C.E. PCR detection and quantitation of predominant anaerobic bacteria in human and animal fecal samples. Applied and Environmental Microbiology 62 4 (1996) 1242-1247
42. Watson R.J., and Blackwell B. Purification and characterization of a common soil component which inhibits the polymerase chain reaction. Canadian Journal of Microbiology 46 (2000) 633-642
43. Wheeler A.L., Hartel P.G., Godfrey D.G., Hill J.L., and Segars W.I. Potential of Enterococcus faecalis as a human fecal indicator for microbial source tracking. Journal of Environmental Quality 31 4 (2002) 1286-1293
44. Wilson I.G. Inhibition and facilitation of nucleic acid amplification. Applied and Environmental Microbiology 63 10 (1997) 3741-3751