Rapid detection of human fecal contamination in estuarine environments by PCR targeting of Bifidobacterium adolescentis

Journal of Microbiological Methods

Volumn 68, Issue 1, 2007, Pages 76-81

  King, Eric L ^a   Bachoon, Dave S ^a   Gates, Keith W ^b  

^a GEORGIA COLLEGE AND STATE UNIVERSITY   (United States)

^b UNIVERSITY OF GEORGIA   (United States)

Author keywords

Bifidobacteria; Estuaries; Fecal source tracking; Human feces; PCR; Water microbiology

Indexed keywords

BACTERIAL DNA; RIVER WATER;

ARTICLE; BACTERIAL COUNT; BACTERIUM CONTAMINATION; BACTERIUM CULTURE; BACTERIUM DETECTION; BIFIDOBACTERIUM ADOLESCENTIS; COLONY FORMING UNIT; DNA EXTRACTION; ENTEROCOCCUS; ESTUARY; FECES; GENETIC MARKER; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RIVER; SEWAGE EFFLUENT; UNITED STATES; WATER POLLUTION; WATER SAMPLING;

ANIMALS; BIFIDOBACTERIUM; COLONY COUNT, MICROBIAL; DNA, BACTERIAL; FECES; GEORGIA; HUMANS; POLYMERASE CHAIN REACTION; RIVERS; RNA, RIBOSOMAL, 16S; SEWAGE; WATER MICROBIOLOGY; WATER POLLUTION;

BIFIDOBACTERIUM; BIFIDOBACTERIUM ADOLESCENTIS;

EID: 33846020572     PISSN: 01677012     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mimet.2006.06.008     Document Type: Article

References (27)

1. Altschul S.F., Madden T.L., Schäffer A.A., Zhang J., Zhang Z., Miller W., and Lipman D.J. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25 (1997) 3389-3402
2. Amann R.I., Ludwig W., and Schleifer K.-H. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59 (1995) 143-169
3. Antonishyn N.A., McDonald R.R., Chan E.L., Horsman G., Woodmansee C.E., Falk P.S., and Mayhall C.G. Evaluation of fluorescence-based amplified fragment length polymorphism analysis for molecular typing in hospital epidemiology: comparison with pulsed-field gel electrophoresis for typing strains of vancomycin-resistant Enterococcus faecium. J. Clin. Microbiol. 38 (2000) 4058-4065
4. Bernhard A.E., and Field K.G. A PCR assay to discriminate human and ruminant feces on the basis of host differences in Bacteroides-Pervotella genes encoding 16S rRNA. Appl. Environ. Microbiol. 66 (2000) 4571-4574
5. Bernhard A.E., and Field K.G. Identification of nonpoint sources of fecal pollution in coastal waters by using host-specific 16S ribosomal DNA genetic markers from fecal anaerobes. Appl. Environ. Microbiol. 66 (2000) 1587-1594
6. Bonjoch X., Ballesté E., and Blanch A.R. Multiplex PCR with 16S rRNA gene-targeted primers of Bifidobacterium spp. to identify sources of fecal pollution. Appl. Environ. Microbiol. 70 (2004) 3171-3175
7. Carson C.A., Shear B.L., Ellersieck M.R., and Schnell J.D. Comparison of ribotyping and repetitive extregenic palindromic-PCR for identification of fecal Escherichia coli from humans and animals. Appl. Environ. Microbiol. 69 (2003) 1836-1839
8. Chen F., Wang K., Kan J., Bachoon D.S., Lu J., Lau S., and Campbell L. Phylogenetic diversity of Synechococcus in the Chesapeake Bay revealed by ribulose-1,5-bisphosphate carboxylase-oxygenase (RuBisCO) large subunit gene (rbcL) sequences. Aquat. Microb. Ecol. 36 (2004) 153-164
9. Crane S.R., and Moore J.A. A management strategy to reduce bacterial pollution in shellfish areas: a case study. Environ. Manag. 10 (1986) 41-51
10. Griffith J.F., Weisberg S.B., and McGee C.D. Evaluation of microbial source tracking methods using mixed fecal sources in aqueous test samples. J. Water Health 1 4 (2003) 141-151
11. Gueimonde M., Tölkkö S., Korpimäki T., and Salminen S. New real-time quantitative PCR procedure for quantification of Bifidobacteria in human fecal samples. Appl. Environ. Microbiol. 70 (2004) 4165-4169
12. Hobbie J.E., Daley R.J., and Jasper S. Use of nuclepore filters for counting bacteria by fluorescence microscopy. Appl. Environ. Microbiol. 33 (1977) 1225-1228
13. Kinzelman J., Ng C., Jackson E., Gradus S., and Bagley R. Enterococci as indicators of Lake Michigan recreational water quality: comparison of two methodologies and their impacts on public health regulatory events. Appl. Environ. Microbiol. 69 (2003) 92-96
14. Langendijk P.S., Schut F., Jansen G.J., Raangs G.C., Kamphuis G.R., Wilkinson M.H.F., and Welling G.W. Quantitative fluorescence in situ hybridization of Bifidobacterium spp. with genus-specific rRNA-targeted probes and its application in fecal samples. Appl. Environ. Microbiol. 61 (1995) 3069-3075
15. Long S.C., Arango C., and Plummer J.D. An optimized enumeration method for sorbitol-fermenting Bifidobacteria in water samples. Can. J. Microbiol. 51 5 (2005) 413-422
16. Malathum K., Singh K.V., Weinstock G.M., and Murray B.E. Repetitive sequence-based PCR versus pulsed-field gel electrophoresis for typing of Enterococcus faecalis at the subspecies level. J. Clin. Microbiol. 36 (1998) 211-215
17. Matsuki T., Watanabe K., Fujimoto J., Kado Y., Takada T., Matsumoto K., and Tanaka R. Quantitative PCR with 16S rRNA-gene-targeted species-specific primers for analysis of human intestinal Bifidobacteria. Appl. Environ. Microbiol. 70 (2004) 167-173
18. McDonald J.L., Hartel P.G., Gentit L.C.., Belcher C.N., Gates K.W., Rodgers K., Fisher J.A., Smith K.A., and Payne K.A. Identifying Sources of Fecal Contamination Inexpensively with Targeted Sampling and Bacterial Source Tracking. J. Environ. Qual. 35 (2006) 889-897
19. Mullie C., Odou M.F., Singer E., Romond M.B., and Izard D. Multiplex PCR using 16S rRNA gene-targeted primers for the identification of Bifidobacteria from human origin. FEMS Microbiol. Lett. 222 1 (2003) 129-136
20. Nebra Y., Bonjoch X., and Blanch A.R. Use of Bifidobacterium dentium as an indicator of the origin of fecal water pollution. Appl. Environ. Microbiol. 69 5 (2003) 2651-2656
21. Ritter K.J., Carruthers E., Carson C.A., Ellender R.D., Harwood V.J., Kingsley K., Nakatsu C., Sadowsky M., Shear B., West B., Whitlock J.E., Wiggins B.A., and Wilbur J.D. Assessment of statistical methods used in library-based approaches to microbial source tracking. J. Water Health 1 4 (2003) 209-223
22. Scott T.M., Rose J.B., Jenkins T.M., Farrah S.R., and Lukasik J. Microbial source tracking: current methodology and future directions. Appl. Environ. Microbiol. 68 (2002) 5796-5803
23. Stewart J.R., Ellender R.D., Gooch J.A., Jiang S., Myoda S.P., and Weisberg S.B. Recommendations for microbial source tracking: lessons from a methods comparison study. J. Water Health 1 4 (2003) 225-231
24. Takai K., Moser D.P., DeFlaun M., Onstott T.C., and Fredrickson J.K. Archaeal diversity in waters from deep South African gold mines. Appl. Environ. Microbiol. 67 (2001) 5750-5760
25. Tsiodras S., Gold H.S., Coakley E.P.G., Wennersten C., Moellering Jr. R.C., and Eliopoulos G.M. Diversity of domain V of 23S rRNA gene sequence in different Enterococcus species. J. Clin. Microbiol. 39 (2000) 3991-3993
26. U.S. Environmental Protection Agency. Method 1600: Membrane Filter Test Method for Enterococci in Water. EPA 821/R-97/004 (1997), Office of Water, Washington, D.C.
27. Wheeler A.L., Hartel P.G., Godfrey D.G., Hill J.L., and Segars W.I. Potential of Eneterococcus faecalis as a human fecal indicator for microbial source tracking. J. Environ. Qual. 31 (2002) 1286-1293