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Chapter 3.4.4 : Methods of Targeting Animal Sources of Fecal Pollution in Water

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Abstract:

The determination of fecal pollution sources in waters is essential in the management of catchments. Although traditional microbial water analyses using indicator microorganisms have been used for water-health management for more than a century, it is known that they cannot provide information about the origin of fecal pollution. The distinction between anthropogenic and non-anthropogenic (animal) fecal pollution in water would greatly support assessment of health risks based on knowledge of the host-specificity of many pathogens. For example, human sewage could constitute a higher health risk to humans than wastewater of animal origin. However, there are some exceptions because some pathogens can infect and cause clinical disease in both humans and animals. Therefore, the fecal pollution source assessment could support different water management strategies, treatment measures and policies to prevent or decrease fecal inputs in water and remediation at the source.

In this chapter, proposed chemical and biological MST indicators for the determination of animal fecal sources are discussed. The biological indicators are grouped based on the phylogenetic description of the proposed target (eukarya, bacteria, and virus). A comprehensive description for each proposed target is provided and the developed methodologies employed are presented. Emphasis is placed on the validation and applicability of each proposed method and animal-MST indicator. New molecular approaches for animal-NST targets based on metagenomics are also presented. Finally, MST assay implementation, their contribution to the assessment of maximum fecal load of water bodies and their relationship to traditional microbial indicators and water-borne pathogens is examined.

Citation: Blanch A, Ballesté E, Weidhaas J, Santo Domingo J, Ryu H. 2016. Methods of Targeting Animal Sources of Fecal Pollution in Water, p 3.4.4-1-3.4.4-28. In Yates M, Nakatsu C, Miller R, Pillai S (ed), Manual of Environmental Microbiology, Fourth Edition. ASM Press, Washington, DC. doi: 10.1128/9781555818821.ch3.4.4
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References

/content/book/10.1128/9781555818821.ch3.4.4
1. Schoen M, Ashbolt N. 2010. Assessing pathogen risk to swimmers at non-sewage impacted recreational beaches. Environ Sci Technol 44 : 2286 2291.[PubMed][CrossRef]
2. Schoen M, Soller J, Ashbolt N. 2011. Evaluating the importance of faecal sources in human-impacted waters. Water Res 45 : 2670 2680.[PubMed][CrossRef]
3. Morse S, Mazet J, Woolhouse M, Parrish C, Carroll D, Karesh W, Zambrana-Torrelio C, Lipkin W, Daszak P. 2012. Prediction and prevention of the next pandemic zoonosis. Lancet 380 : 1956 1965.[PubMed][CrossRef]
4. Hagedorn C, Weisberg S. 2009. Chemical-based fecal source tracking methods: current status and guidelines for evaluation. Rev Environ Sci Biotechnol 8 : 275 287.[CrossRef]
5. Leeming R, Ball A, Ashbolt N, Nichols P. 1996. Using faecal sterols from humans and animals to distinguish faecal pollution in receiving waters. Water Res 30 : 2893 2900.[CrossRef]
6. Jaffrezic A, Jardé E, Pourcher A-M, Gourmelon M, Caprais M-P, Heddadj D, Cottinet P, Bilal M, Derrien M, Marti R, Mieszkin S. 2011. Microbial and chemical markers: runoff transfer in animal manure–amended soils. J Environ Qual 40 : 959 968.[PubMed][CrossRef]
7. Tyagi P, Edwards D, Coyne M. 2008. Use of serol and bile acid biomarkers to identify domesticated animal sources of fecal pollution. Water Air Soil Poll 187 : 263 274.[CrossRef]
8. Tyagi P, Edwards D, Coyne M. 2009. Fecal sterol and bile acid biomarkers: runoff concentrations in animal waste-amended pastures. Water Air Soil Poll 198 : 45 54.[CrossRef]
9. Blanch AR, Belanche-Munoz L, Bonjoch X, Ebdon J, Gantzer C, Lucena F, Ottoson J, Kourtis C, Iversen A, Kuhn I, Moce L, Muniesa M, Schwartzbrod J, Skraber S, Papageorgiou GT, Taylor H, Wallis J, Jofre J. 2006. Integrated analysis of established and novel microbial and chemical methods for microbial source tracking. Appl Environ Microbiol 72 : 5915 5926.[PubMed][CrossRef]
10. Furtula V, Osachoff H, Derksen G, Juahir H, Colodey A, Chambers P. 2012. Inorganic nitrogen, sterols and bacterial source tracking as tools to characterize water quality and possible contamination sources in surface water. Water Res 46 : 1079 1092.[PubMed][CrossRef]
11. Jardé E, Gruau G, Mansuy-Huault L. 2007. Detection of manure-derived organic compounds in rivers draining agricultural areas of intensive manure spreading. Appl Geochem 22 : 1814 1824.[CrossRef]
12. Standley LJ, Kaplan LA, Smith D. 2000. Molecular tracers of organic matter sources to surface water resources. Environ Sci Technol 34 : 3124 3130.[CrossRef]
13. Noblet JA, Young DL, Zeng EY, Ensari S. 2004. Use of fecal steroids to infer the sources of fecal Indicator bacteria in the lower Santa Ana river watershed, California: sewage is unlikely a significant source. Environ Sci Technol 38 : 6002 6008.[PubMed][CrossRef]
14. Isobe KO, Tarao M, Zakaria MP, Chiem NH, Minh LY, Takada H. 2002. Quantitative application of fecal sterols using gas chromatography–mass spectrometry to investigate fecal pollution in tropical waters: western Malaysia and Mekong Delta, Vietnam. Environ Sci Technol 36 : 4497 4507.[PubMed][CrossRef]
15. Leeming R, Nichols PD. 1996. Concentrations of coprostanol that correspond to existing bacterial indicator guideline limits. Water Res 30 : 2997 3006.[CrossRef]
16. Gilpin BJ, James T, Nourozi F, Saunders D, Scholes P, Savill MG. 2003. The use of chemical and molecular microbial indicators for faecal source identification. Water Sci Technol 47 : 39 43.[PubMed]
17. Evershed Richard P, Bethell Philip H. 1996. Application of multimolecular biomarker techniques to the identification of fecal material in archaeological soils and sediments, p. 157 172. In Archaeological Chemistry. ACS Symposium Series, vol. 625. American Chemical Society, Washington, DC.
18. Simpson IA, van Bergen PF, Perret V, Elhmmali MM, Roberts DJ, Evershed RP. 1999. Lipid biomarkers of manuring practice in relict anthropogenic soils. Holocene 9 : 223 229.[CrossRef]
19. Seurinck S, Verstraete W, Siciliano S. 2005. Microbial source tracking for identification of fecal pollution. Rev Environ Sci Biotechnol 4 : 19 37.[CrossRef]
20. Elhmmali MM, Roberts DJ, Evershed RP. 1999. Combined analysis of bile acids and sterols/atanols from riverine particulates to assess sewage discharges and other fecal sources. Environ Sci Technol 34 : 39 46.[CrossRef]
21. Elhmmali MM, Roberts DJ, Evershed RP. 1997. Bile acids as a new class of sewage pollution indicator. Environ Sci Technol 31 : 3663 3668.[CrossRef]
22. Bilal M, Jaffrezic A, Dudal Y, Le Guillou C, Menasseri S, Walter C. 2010. Discrimination of farm waste contamination by fluorescence spectroscopy coupled with multivariate analysis during a biodegradation study. J Agric Food Chem 58 : 3093 3100.[PubMed][CrossRef]
23. Baker A. 2002. Fluorescence properties of some farm wastes: implications for water quality monitoring. Water Res 36 : 189 195.[PubMed][CrossRef]
24. Düreth S, Herrmann R, Pecher K. 1986. Tracing faecal pollution by coprostanol and intestinal bacteria in an ice-covered finnish lake loaded with both industrial and domestic sewage. Water Air Soil Poll 28 : 131 149.
25. Caldwell JM, Payment P, Villemur R,. 2011. Mitochondrial DNA as source tracking markers of fecal contamination, p. 642. In Hagedorn C, Blanch AR, Harwood VJ (eds), Microbial Source Tracking: Methods, Applications and Case Studies. Springer, New York.
26. Martellini A, Payment P, Villemur R. 2005. Use of eukaryotic mitochondrial DNA to differentiate human, bovine, porcine and ovine sources in fecally contaminated surface water. Water Res 39 : 541 548.[PubMed][CrossRef]
27. Balleste E, Bonjoch X, Belanche LA, Blanch AR. 2010. Molecular indicators used in the development of predictive models for microbial source tracking. Appl Environ Microbiol 76 : 1789 1795.[PubMed][CrossRef]
28. Caldwell JM, Levine JF. 2009. Domestic wastewater influent profiling using mitochondrial real-time PCR for source tracking animal contamination. J Microbiol Meth 77 : 17 22.[CrossRef]
29. Caldwell JM, Raley ME, Levine JF. 2007. Mitochondrial multiplex real-time PCR as a source tracking method in fecal-contaminated effluents. Environ Sci Technol 41 : 3277 3283.[PubMed][CrossRef]
30. Schill WB, Mathes MV. 2008. Real-time PCR detection and quantification of nine potential sources of fecal contamination by analysis of mitochondrial cytochrome b targets. Environ Sci Technol 42 : 5229 5234.[PubMed][CrossRef]
31. Kortbaoui R, Locas A, Imbeau M, Payment P, Villemur R. 2009. Universal mitochondrial PCR combined with species-specific dot-blot assay as a source-tracking method of human, bovine, chicken, ovine, and porcine in fecal-contaminated surface water. Water Res 43 : 2002 2010.[PubMed][CrossRef]
32. Baker-Austin C, Morris J, Lowther JA, Rangdale R, Lees DN. 2009. Rapid identification and differentiation of agricultural faecal contamination sources using multiplex PCR. Lett Appl Microbiol 49 : 529 532.[PubMed][CrossRef]
33. Baker-Austin C, Rangdale R, Lowther J, Lees D. 2010. Application of mitochondrial DNA analysis for microbial source tracking purposes in shellfish harvesting waters. Water Sci Technol 61 : 1 7.[PubMed][CrossRef]
34. Bernhard AE, Field KG. 2000. A PCR assay To discriminate human and ruminant feces on the basis of host differences in Bacteroides- Prevotella genes encoding 16S rRNA. Appl Environ Microbiol 66 : 4571 4574.[PubMed][CrossRef]
35. Ahmed W, Powell D, Goonetilleke A, Gardner T. 2008. Detection and source identification of faecal pollution in non-sewered catchment by means of host-specific molecular markers. Water Sci Technol 58 : 579 586.[PubMed][CrossRef]
36. Shanks OC, White K, Kelty CA, Hayes S, Sivaganesan M, Jenkins M, Varma M, Haugland RA. 2010. Performance assessment PCR-based assays targeting bacteroidales genetic markers of bovine fecal pollution. Appl Environ Microbiol 76 : 1359 1366.[PubMed][CrossRef]
37. Balleste E, Blanch AR. 2010. Persistence of Bacteroides species populations in a river as measured by molecular and culture techniques. Appl Environ Microbiol 76 : 7608 7616.[PubMed][CrossRef]
38. Walters SP, Field KG. 2009. Survival and persistence of human and ruminant-specific faecal Bacteroidales in freshwater microcosms. Environ Microbiol 11 : 1410 1421.[PubMed][CrossRef]
39. Fremaux B, Gritzfeld J, Boa T, Yost CK. 2009. Evaluation of host-specific Bacteroidales 16S rRNA gene markers as a complementary tool for detecting fecal pollution in a prairie watershed. Water Res 43 : 4838 4849.[PubMed][CrossRef]
40. Gawler AH, Beecher JE, Brandao J, Carroll NM, Falcao L, Gourmelon M, Masterson B, Nunes B, Porter J, Rince A, Rodrigues R, Thorp M, Walters JM, Meijer WG. 2007. Validation of host-specific Bacteriodales 16S rRNA genes as markers to determine the origin of faecal pollution in Atlantic Rim countries of the European Union. Water Res 41 : 3780 3784.[PubMed][CrossRef]
41. Gourmelon M, Caprais MP, Segura R, Le Mennec C, Lozach S, Piriou JY, Rince A. 2007. Evaluation of two library-independent microbial source tracking methods to identify sources of fecal contamination in French estuaries. Appl Environ Microbiol 73 : 4857 4866.[PubMed][CrossRef]
42. Kildare BJ, Leutenegger CM, McSwain BS, Bambic DG, Rajal VB, Wuertz S. 2007. 16S rRNA-based assays for quantitative detection of universal, human-, cow-, and dog-specific fecal Bacteroidales: a Bayesian approach. Water Res 41 : 3701 3715.[PubMed][CrossRef]
43. Silkie SS, Nelson KL. 2009. Concentrations of host-specific and generic fecal markers measured by quantitative PCR in raw sewage and fresh animal feces. Water Res 43 : 4860 4871.[PubMed][CrossRef]
44. Bae S, Wuertz S. 2009. Rapid decay of host-specific fecal Bacteroidales cells in seawater as measured by quantitative PCR with propidium monoazide. Water Res 43 : 4850 4859.[PubMed][CrossRef]
45. Bae S, Wuertz S. 2012. 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 78 : 922 932.[PubMed][CrossRef]
46. Reischer GH, Kasper DC, Steinborn R, Mach RL, Farnleitner AH. 2006. Quantitative PCR method for sensitive detection of ruminant fecal pollution in freshwater and evaluation of this method in alpine karstic regions. Appl Environ Microbiol 72 : 5610 5614.[PubMed][CrossRef]
47. Mieszkin S, Furet JP, Corthier G, Gourmelon M. 2009. Estimation of pig fecal contamination in a river catchment by real-time PCR using two pig-specific Bacteroidales 16S rRNA genetic markers. Appl Environ Microbiol 75 : 3045 3054.[PubMed][CrossRef]
48. Tambalo DD, Fremaux B, Boa T, Yost CK. 2012. Persistence of host-associated Bacteroidales gene markers and their quantitative detection in an urban and agricultural mixed prairie watershed. Water Res 46 : 2891 2904.[PubMed][CrossRef]
49. Sokolova E, Astrom J, Pettersson TJ, Bergstedt O, Hermansson M. 2012. Decay of Bacteroidales genetic markers in relation to traditional fecal indicators for water quality modeling of drinking water sources. Environ Sci Technol 46 : 892 900.[PubMed][CrossRef]
50. Mieszkin S, Yala JF, Joubrel R, Gourmelon M. 2010. Phylogenetic analysis of Bacteroidales 16S rRNA gene sequences from human and animal effluents and assessment of ruminant faecal pollution by real-time PCR. J Appl Microbiol 108 : 974 984.[PubMed][CrossRef]
51. Stricker AR, Wilhartitz I, Farnleitner AH, Mach RL. 2008. 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. Microbiol Res 163 : 140 147.[PubMed][CrossRef]
52. Okabe S, Shimazu Y. 2007. Persistence of host-specific Bacteroides- Prevotella 16S rRNA genetic markers in environmental waters: effects of temperature and salinity. Appl Microbiol Biotechnol 76 : 935 944.[PubMed][CrossRef]
53. Jeong JY, Park HD, Lee KH, Hwang JH, Ka JO. 2010. Quantitative analysis of human and cow-specific 16S rRNA gene markers for assessment of fecal pollution in river waters by real-time PCR. J Microbiol Biotechnol 20 : 245 253.[PubMed]
54. Layton A, McKay L, Williams D, Garrett V, Gentry R, Sayler G. 2006. Development of Bacteroides 16S rRNA gene TaqMan-based real-time PCR assays for estimation of total, human, and bovine fecal pollution in water. Appl Environ Microbiol 72 : 4214 4224.[PubMed][CrossRef]
55. Shanks OC, Santo Domingo JW, Lamendella R, Kelty CA, Graham JE. 2006. Competitive metagenomic DNA hybridization identifies host-specific microbial genetic markers in cow fecal samples. Appl Environ Microbiol 72 : 4054 4060.[PubMed][CrossRef]
56. Shanks OC, Atikovic E, Blackwood AD, Lu J, Noble RT, Domingo JS, Seifring S, Sivaganesan M, Haugland RA. 2008. Quantitative PCR for detection and enumeration of genetic markers of bovine fecal pollution. Appl Environ Microbiol 74 : 745 752.[PubMed][CrossRef]
57. Dick LK, Bernhard AE, Brodeur TJ, Santo Domingo JW, Simpson JM, Walters SP, Field KG. 2005. Host distributions of uncultivated fecal Bacteroidales bacteria reveal genetic markers for fecal source identification. Appl Environ Microbiol 71 : 3184 3191.[PubMed][CrossRef]
58. Lamendella R, Santo Domingo JW, Yannarell AC, Ghosh S, Di Giovanni G, Mackie RI, Oerther DB. 2009. Evaluation of swine-specific PCR assays used for fecal source tracking and analysis of molecular diversity of swine-specific “bacteroidales” populations. Appl Environ Microbiol 75 : 5787 5796.[PubMed][CrossRef]
59. ISO. 1995. ISO 10705-1: Water quality Detection and enumeration of bacteriophages part 1: Enumeration of F-specific RNA bacteriophages. International Organization for Standardization, Geneva.
60. U.S. EPA. 2001. Method 1601: Male-specific (F+) and somatic coliphage in water by two-step enrichment procedure, vol. 821-R-01-030. U.S. EPA, Office of Water, Washington, DC.
61. U.S. EPA. 2001. Method 1602. Male-specific (F+) and somatic coliphage in water by single agar layer (SAL) procedure, vol. 821-R-01-029. U.S. EPA, Office of Water, Washington, DC.
62. Duran AE, Muniesa M, Mendez X, Valero F, Lucena F, Jofre J. 2002. Removal and inactivation of indicator bacteriophages in fresh waters. J Appl Microbiol 92 : 338 347.[PubMed][CrossRef]
63. Muniesa M, Payan A, Moce-Llivina L, Blanch AR, Jofre J. 2009. Differential persistence of F-specific RNA phage subgroups hinders their use as single tracers for faecal source tracking in surface water. Water Res 43 : 1559 1564.[PubMed][CrossRef]
64. Long SC, Sobsey MD. 2004. A comparison of the survival of F+RNA and F+DNA coliphages in lake water microcosms. J Water Health 2 : 15 22.[PubMed]
65. Okabe S, Okayama N, Savichtcheva O, Ito T. 2007. Quantification of host-specific Bacteroides- Prevotella 16S rRNA genetic markers for assessment of fecal pollution in freshwater. Appl Microbiol Biotechnol 74 : 890 901.[PubMed][CrossRef]
66. Marti R, Mieszkin S, Solecki O, Pourcher AM, Hervio-Heath D, Gourmelon M. 2011. Effect of oxygen and temperature on the dynamic of the dominant bacterial populations of pig manure and on the persistence of pig-associated genetic markers, assessed in river water microcosms. J Appl Microbiol 111 : 1159 1175.[PubMed][CrossRef]
67. Fremaux B, Boa T, Yost CK. 2010. Quantitative real-time PCR assays for sensitive detection of Canada goose-specific fecal pollution in water sources. Appl Environ Microbiol 76 : 4886 4889.[PubMed][CrossRef]
68. Gomez-Donate M, Balleste E, Muniesa M, Blanch AR. 2012. New molecular quantitative PCR assay for detection of host-specific bifidobacteriaceae suitable for microbial source tracking. Appl Environ Microbiol 78 : 5788 5795.[PubMed][CrossRef]
69. Marti R, Dabert P, Pourcher AM. 2009. Pig manure contamination marker selection based on the influence of biological treatment on the dominant fecal microbial groups. Appl Environ Microbiol 75 : 4967 4974.[PubMed][CrossRef]
70. Weidhaas J, Macbeth T, Olsen R, Sadowsky M, Norat D, Harwood V. 2010. Identification of a poultry litter-specific DNA marker gene and development of a 16S rRNA-based quantitative PCR assay. J Appl Microbiol 109 : 334 347.[PubMed]
71. Weidhaas J, Macbeth T, Olsen R, Harwood V. 2011. Correlation of Quantitative PCR for a Poultry-Specific Brevibacterium Marker Gene with Bacterial and Chemical Indicators of Water Pollution in a Watershed Impacted by Land Application of Poultry Litter. App Environ Microbiol 77 : 2094 2102.[CrossRef]
72. ISO. 2001. ISO 10705-4: Water quality. Detection and enumeration of bacteriophages part 4: Enumeration of bacteriophages infecting Bacteroides fragilis. International Organization for Standardization, Geneva.
73. Payan A, Ebdon J, Taylor H, Gantzer C, Ottoson J, Papageorgiou GT, Blanch AR, Lucena F, Jofre J, Muniesa M. 2005. Method for isolation of Bacteroides bacteriophage host strains suitable for tracking sources of fecal pollution in water. Appl Environ Microbiol 71 : 5659 5662.[PubMed][CrossRef]
74. Gomez-Donate M, Payan A, Cortes I, Blanch AR, Lucena F, Jofre J, Muniesa M. 2011. Isolation of bacteriophage host strains of Bacteroides species suitable for tracking sources of animal faecal pollution in water. Environ Microbiol 13 : 1622 1631.[PubMed][CrossRef]
75. Ley V, Higgins J, Fayer R. 2002. Bovine enteroviruses as indicators of fecal contamination. Appl Environ Microbiol 68 : 3455 3461.[PubMed][CrossRef]
76. Jimenez-Clavero MA, Escribano-Romero E, Mansilla C, Gomez N, Cordoba L, Roblas N, Ponz F, Ley V, Saiz JC. 2005. Survey of bovine enterovirus in biological and environmental samples by a highly sensitive real-time reverse transcription-PCR. Appl Environ Microbiol 71 : 3536 3543.[PubMed][CrossRef]
77. Jimenez-Clavero MA, Fernandez C, Ortiz JA, Pro J, Carbonell G, Tarazona JV, Roblas N, Ley V. 2003. Teschoviruses as indicators of porcine fecal contamination of surface water. Appl Environ Microbiol 69 : 6311 6315.[PubMed][CrossRef]
78. Maluquer de Motes C, Clemente-Casares P, Hundesa A, Martin M, Girones R. 2004. Detection of bovine and porcine adenoviruses for tracing the source of fecal contamination. Appl Environ Microbiol 70 : 1448 1454.[PubMed][CrossRef]
79. Hundesa A, Maluquer de Motes C, Albinana-Gimenez N, Rodriguez-Manzano J, Bofill-Mas S, Sunen E, Girones R. 2009. Development of a qPCR assay for the quantification of porcine adenoviruses as an MST tool for swine fecal contamination in the environment. J Virol Meth 158 : 130 135.[CrossRef]
80. Wong K, Xagoraraki I. 2010. Quantitative PCR assays to survey the bovine adenovirus levels in environmental samples. J Appl Microbiol 109 : 605 612.[PubMed]
81. Hundesa A, Maluquer de Motes C, Bofill-Mas S, Albinana-Gimenez N, Girones R. 2006. Identification of human and animal adenoviruses and polyomaviruses for determination of sources of fecal contamination in the environment. Appl Environ Microbiol 72 : 7886 7893.[CrossRef]
82. Wong K, Xagoraraki I. 2011. Evaluating the prevalence and genetic diversity of adenovirus and polyomavirus in bovine waste for microbial source tracking. Appl Microbiol Biotechnol 90 : 1521 1526.[PubMed][CrossRef]
83. Hundesa A, Bofill-Mas S, Maluquer de Motes C, Rodriguez-Manzano J, Bach A, Casas M, Girones R. 2010. Development of a quantitative PCR assay for the quantitation of bovine polyomavirus as a microbial source-tracking tool. J Virol Meth 163 : 385 389.[CrossRef]
84. Tobe SS, Linacre AMT. 2008. A technique for the quantification of human and non-human mammalian mitochondrial DNA copy number in forensic and other mixtures. Forensic Sci Int Genet 2 : 249 256.[CrossRef]
85. Xiao L, Morgan UM, Fayer R, Thompson RCA, Lal AA. 2000. Cryptosporidium Systematics and Implications for Public Health. Trends Parasitol 16 : 287 292.[CrossRef]
86. Xiao L, Fayer R, Ryan U, Upton SJ. 2004. Cryptosporidium Taxonomy: Recent Advances and Implications for Public Health. Clin Microbiol Rev 17 : 72 97.[PubMed][CrossRef]
87. Slavin D. 1955. Cryptosporidium meleagridis (sp. nov.). J Comp Pathol 65 : 262 266.[PubMed][CrossRef]
88. Current WL, Garcia LS. 1991. Cryptosporidiosis. Clin Microbiol Rev 4 : 325 358.[PubMed]
89. Dubey JP, Speers CA, Fayer R. 1990. Cryptosporidiosis of Man and Animals. CRC Press, New York.
90. Cama VA, Bern C, Sulaiman IM, Gilman RH, Ticona E, Vivar A, Kawai V, Vargas D, Zhou L, Xiao L. 2003. Cryptosporidium species and genotypes in HIV-positive patients in Lima, Peru. J Eukaryot Microbiol 50( Suppl) : 531 533.[PubMed]
91. Feng Y, Zhao X, Chen J, Jin W, Zhou X, Li N, Wang L, Xiao L. 2011. Occurrence, source, and human infection potential of cryptosporidium and Giardia spp. in source and tap water in shanghai, China. Appl Environ Microbiol 77 : 3609 3616.[PubMed][CrossRef]
92. Jellison KL, Lynch AE, Ziemann JM. 2009. Source tracking identifies deer and geese as vectors of human-infectious Cryptosporidium genotypes in an urban/suburban watershed. Environ Sci Technol 43 : 4267 4272.[PubMed][CrossRef]
93. Nichols RA, Connelly L, Sullivan CB, Smith HV. 2010. Identification of Cryptosporidium species and genotypes in Scottish raw and drinking waters during a one-year monitoring period. Appl Environ Microbiol 76 : 5977 5986.[CrossRef]
94. Oates SC, Miller MA, Hardin D, Conrad PA, Melli A, Jessup DA, Dominik C, Roug A, Tinker MT, Miller WA. 2012. Prevalence, environmental loading, and molecular characterization of Cryptosporidium and Giardia isolates from domestic and wild animals along the central California coast. Appl Environ Microbiol 78 : 8762 8772.[PubMed][CrossRef]
95. Yang W, Chen P, Villegas EN, Landy RB, Kanetsky C, Cama V, Dearen T, Schultz CL, Orndorff KG, Prelewicz GJ, Brown MH, Young KR, Xiao L. 2008. Cryptosporidium source tracking in the Potomac River watershed. Appl Environ Microbiol 74 : 6495 6504.[PubMed][CrossRef]
96. Cama VA, Bern C, Roberts J, Cabrera L, Sterling CR, Ortega Y, Gilman RH, Xiao L. 2008. Cryptosporidium species and subtypes and clinical manifestations in children. Peru Emerg Infect Dis 14 : 1567 1574.[PubMed][CrossRef]
97. Sulaiman IM, Hira PR, Zhou L, Al-Ali FM, Al-Shelahi FA, Shweiki HM, Iqbal J, Khalid N, Xiao L. 2005. Unique endemicity of cryptosporidiosis in children in Kuwait. J Clin Microbiol 43 : 2805 2809.[PubMed][CrossRef]
98. Xiao L, Bern C, Limor J, Sulaiman I, Roberts J, Checkley W, Cabrera L, Gilman RH, Lal AA. 2001. Identification of 5 types of Cryptosporidium parasites in children in Lima, Peru. J Infect Dis 183 : 492 497.[PubMed][CrossRef]
99. Caccio SM, Thompson RC, McLauchlin J, Smith HV. 2005. Unravelling Cryptosporidium and Giardia epidemiology. Trends Parasitol 21 : 430 437.[PubMed][CrossRef]
100. Feng Y, Xiao L. 2011. Zoonotic potential and molecular epidemiology of Giardia species and giardiasis. Clin Microbiol Rev 24 : 110 140.[PubMed][CrossRef]
101. Monis PT, Caccio SM, Thompson RC. 2009. Variation in Giardia: towards a taxonomic revision of the genus. Trends Parasitol 25 : 93 100.[PubMed][CrossRef]
102. Thompson RC, Monis PT. 2004. Variation in Giardia: implications for taxonomy and epidemiology. Adv Parasitol 58 : 69 137.[CrossRef]
103. Wielinga CM, Thompson RC. 2007. Comparative evaluation of Giardia duodenalis sequence data. Parasitol 134 : 1795 1821.[CrossRef]
104. Almeida A, Pozio E, Caccio SM. 2010. Genotyping of Giardia duodenalis cysts by new real-time PCR assays for detection of mixed infections in human samples. Appl Environ Microbiol 76 : 1895 1901.[PubMed][CrossRef]
105. Guy RA, Payment P, Krull UJ, Horgen PA. 2003. Real-time PCR for quantification of Giardia and Cryptosporidium in environmental water samples and sewage. Appl Environ Microbiol 69 : 5178 5185.[PubMed][CrossRef]
106. Caccio SM, Beck R, Lalle M, Marinculic A, Pozio E. 2008. Multilocus genotyping of Giardia duodenalis reveals striking differences between assemblages A and B. Int J Parasitol 38 : 1523 1531.[PubMed][CrossRef]
107. LeChevallier MW, Norton WD, Lee RG. 1991. Occurrence of Giardia and Cryptosporidium spp. in surface water supplies. App Environ Microbiol 57 : 2610 2616.
108. Ryu H, Abbaszadegan M. 2008. Long-term study of Cryptosporidium and Giardia occurrence and quantitative microbial risk assessment in surface waters of Arizona in the USA. J Water Health 6 : 263 273.[PubMed][CrossRef]
109. Ryu H, Alum A, Abbaszadegan M. 2005. Microbial characterization and population changes in nonpotable reclaimed water distribution systems. Environ Sci Technol 39 : 8600 8605.[PubMed][CrossRef]
110. Ley RE, Lozupone CA, Hamady M, Knight R, Gordon JI. 2008. Worlds within worlds: evolution of the vertebrate gut microbiota. Nat Rev Microbiol 6 : 776 788.[PubMed][CrossRef]
111. Eckburg PB, Bik EM, Bernstein CN, Purdom E, Dethlefsen L, Sargent M, Gill SR, Nelson KE, Relman DA. 2005. Diversity of the human intestinal microbial flora. Science 308 : 1635 1638.[PubMed][CrossRef]
112. Perkins GA, den Bakker HC, Burton AJ, Erb HN, McDonough SP, McDonough PL, Parker J, Rosenthal RL, Wiedmann M, Dowd SE, Simpson KW. 2012. Equine stomachs harbor an abundant and diverse mucosal microbiota. Appl Environ Microbiol 78 : 2522 2532.[PubMed][CrossRef]
113. Lu J, Santo Domingo J, Shanks OC. 2007. Identification of chicken-specific fecal microbial sequences using a metagenomic approach. Water Res 41 : 3561 3574.[CrossRef]
114. Lee JE, Lee S, Sung J, Ko G. 2011. Analysis of human and animal fecal microbiota for microbial source tracking. ISME J 5 : 362 365.[PubMed][CrossRef]
115. Shanks OC, Kelty CA, Archibeque S, Jenkins M, Newton RJ, McLellan SL, Huse SM, Sogin ML. 2011. Community structures of fecal bacteria in cattle from different animal feeding operations. Appl Environ Microbiol 77 : 2992 3001.[PubMed][CrossRef]
116. Kim HB, Borewicz K, White BA, Singer RS, Sreevatsan S, Tu ZJ, Isaacson RE. 2011. Longitudinal investigation of the age-related bacterial diversity in the feces of commercial pigs. Vet Microbiol 153 : 124 133.[PubMed][CrossRef]
117. Lu J, Santo Domingo JW, Lamendella R, Edge T, Hill S. 2008. Phylogenetic diversity and molecular detection of bacteria in gull feces. Appl Environ Microbiol 74 : 3969 3976.[PubMed][CrossRef]
118. Jeter SN, McDermott CM, Bower PA, Kinzelman JL, Bootsma MJ, Goetz GW, McLellan SL. 2009. Bacteroidales diversity in ring-billed gulls ( Laurus delawarensis) residing at Lake Michigan beaches. Appl Environ Microbiol 75 : 1525 1533.[PubMed][CrossRef]
119. Kelty CA, Varma M, Sivaganesan M, Haugland RA, Shanks OC. 2012. Distribution of genetic marker concentrations for fecal indicator bacteria in sewage and animal feces. Appl Environ Microbiol 78 : 4225 4232.[PubMed][CrossRef]
120. Fogarty LR, Voytek MA. 2005. Comparison of Bacteroides- Prevotella 16S rRNA genetic markers for fecal samples from different animal species. Appl Environ Microbiol 71 : 5999 6007.[PubMed][CrossRef]
121. Bernhard AE, Field KG. 2000. 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 : 1587 1594.[PubMed][CrossRef]
122. Dick LK, Simonich MT, Field KG. 2005. Microplate subtractive hybridization to enrich for bacteroidales genetic markers for fecal source identification. Appl Environ Microbiol 71 : 3179 3183.[PubMed][CrossRef]
123. Mauffret A, Caprais MP, Gourmelon M. 2012. Relevance of bacteroidales and f-specific RNA bacteriophages for efficient fecal contamination tracking at the level of a catchment in france. Appl Environ Microbiol 78 : 5143 5152.[PubMed][CrossRef]
124. Chase E, Hunting J, Staley C, Harwood VJ. 2012. Microbial source tracking to identify human and ruminant sources of fecal pollution in an ephemeral Florida river. J Appl Microbiol 113 : 1396 1406.[PubMed][CrossRef]
125. Reischer G, Kollanur D, Vierheilig J, Wehrspaun C, Mach R, Sommer R, Stadler H, Farnleitner A. 2011. Hypothesis-driven approach for the identification of fecal pollution sources in water resources. Environ Sci Technol 45 : 4038 4045.[PubMed][CrossRef]
126. Santiago-Rodriguez TM, Tremblay RL, Toledo-Hernandez C, Gonzalez-Nieves JE, Ryu H, Santo Domingo JW, Toranzos GA. 2012. Microbial quality of tropical inland waters and effects of rainfall events. Appl Environ Microbiol 78 : 5160 5169.[PubMed][CrossRef]
127. Jenkins MW, Tiwari S, Lorente M, Gichaba CM, Wuertz S. 2009. Identifying human and livestock sources of fecal contamination in Kenya with host-specific Bacteroidales assays. Water Res 43 : 4956 4966.[PubMed][CrossRef]
128. Kreader CA. 1998. Persistence of PCR-detectable Bacteroides distasonis from human feces in river water. Appl Environ Microbiol 64 : 4103 4105.[PubMed]
129. Walters SP, Yamahara KM, Boehm AB. 2009. Persistence of nucleic acid markers of health-relevant organisms in seawater microcosms: implications for their use in assessing risk in recreational waters. Water Res 43 : 4929 4939.[PubMed][CrossRef]
130. Dick LK, Stelzer EA, Bertke EE, Fong DL, Stoeckel DM. 2010. Relative decay of Bacteroidales microbial source tracking markers and cultivated Escherichia coli in freshwater microcosms. App Environ Microbiol 76 : 3255 3262.[CrossRef]
131. Jeanneau L, Solecki O, Wery N, Jarde E, Gourmelon M, Communal PY, Jadas-Hecart A, Caprais MP, Gruau G, Pourcher AM. 2012. Relative decay of fecal indicator bacteria and human-associated markers: a microcosm study simulating wastewater input into seawater and freshwater. Environ Sci Technol 46 : 2375 2382.[PubMed][CrossRef]
132. Schulz CJ, Childers GW. 2011. Fecal bacteroidales diversity and decay in response to variations in temperature and salinity. Appl Environ Microbiol 77 : 2563 2572.[PubMed][CrossRef]
133. Bell A, Layton AC, McKay L, Williams D, Gentry R, Sayler GS. 2009. Factors influencing the persistence of fecal Bacteroides in stream water. J Environ Qual 38 : 1224 1232.[PubMed][CrossRef]
134. Walters SP, Gannon VP, Field KG. 2007. Detection of Bacteroidales fecal indicators and the zoonotic pathogens E. coli 0157:H7, salmonella, and campylobacter in river water. Environ Sci Technol 41 : 1856 1862.[PubMed][CrossRef]
135. Schriewer A, Miller WA, Byrne BA, Miller MA, Oates S, Conrad PA, Hardin D, Yang HH, Chouicha N, Melli A, Jessup D, Dominik C, Wuertz S. 2010. Presence of Bacteroidales as a predictor of pathogens in surface waters of the central California coast. Appl Environ Microbiol 76 : 5802 5814.[PubMed][CrossRef]
136. Walters SP, Thebo AL, Boehm AB. 2011. Impact of urbanization and agriculture on the occurrence of bacterial pathogens and stx genes in coastal waterbodies of central California. Water Res 45 : 1752 1762.[PubMed][CrossRef]
137. Rogers SW, Donnelly M, Peed L, Kelty CA, Mondal S, Zhong Z, Shanks OC. 2011. Decay of bacterial pathogens, fecal indicators, and real-time quantitative PCR genetic markers in manure-amended soils. Appl Environ Microbiol 77 : 4839 4848.[PubMed][CrossRef]
138. Resnick IG, Levin MA. 1981. Assessment of bifidobacteria as indicators of human fecal pollution. Appl Environ Microbiol 42 : 433 438.[PubMed]
139. Bonjoch X, Balleste E, Blanch AR. 2005. Enumeration of bifidobacterial populations with selective media to determine the source of waterborne fecal pollution. Water Res 39 : 1621 1627.[PubMed][CrossRef]
140. Mara DD, Oragui JI. 1983. Sorbitol-fermenting bifidobacteria as specific indicators of human faecal pollution. J Appl Bacteriol 55 : 349 357.[PubMed][CrossRef]
141. Bonjoch X, Balleste E, Blanch AR. 2004. Multiplex PCR with 16S rRNA gene-targeted primers of Bifidobacterium spp. to identify sources of fecal pollution. Appl Environ Microbiol 70 : 3171 3175.[PubMed][CrossRef]
142. King EL, Bachoon DS, Gates KW. 2007. Rapid detection of human fecal contamination in estuarine environments by PCR targeting of Bifidobacterium adolescentis. J Microbiol Meth 68 : 76 81.[CrossRef]
143. Balleste E, Blanch AR. 2011. Bifidobacterial diversity and the development of new microbial source tracking indicators. Appl Environ Microbiol 77 : 3518 3525.[PubMed][CrossRef]
144. Biavati B, Mattarelli P,. 2006. The family Bifidobacteriaceae, p. 322 382. In Dworkin M, Falkow S, Rosenberg E, Schleifer K-H, Stackebrandt E (eds), The Prokaryotes, vol. 3: Archaea. Bacteria: Firmicutes, Actinomycetes. Springer, New York.
145. Garcia-Aljaro C, Balleste E, Rossello-Mora R, Cifuentes A, Richter M, Blanch AR. 2012. Neoscardovia arbecensis gen. nov., sp. nov., isolated from porcine slurries. Syst Appl Microbiol 35 : 374 379.[PubMed][CrossRef]
146. Lamendella R, Santo Domingo JW, Kelty C, Oerther DB. 2008. Bifidobacteria in feces and environmental waters. Appl Environ Microbiol 74 : 575 584.[PubMed][CrossRef]
147. Bonjoch X, Lucena F, Blanch AR. 2009. The persistence of bifidobacteria populations in a river measured by molecular and culture techniques. J Appl Microbiol 107 : 1178 1185.[PubMed][CrossRef]
148. Rowbotham TJ, Cross T. 1977. Rhodococcus coprophilus sp. nov.: an aerobic nocardioform actinomycete belonging to the “rhodochrous” complex. J Gen Microbiol 100 : 123 138.[CrossRef]
149. Rowbotham TJ, Cross T. 1977. Ecology of Rhodococcus coprophilus and associated actinomycetes in fresh water and agricultural habitats. J Gen Microbiol 100 : 231 240.[CrossRef]
150. Jagals P, Grabow W,, de Villiers JC. 1995. Evaluation of indicators for assessment of human and animal faecal pollution of surface run-off. Water Sci Technol 31 : 235 241.[CrossRef]
151. Mara DD, Oragui JI. 1981. Occurrence of Rhodococcus coprophilus and associated actinomycetes in feces, sewage, and freshwater. Appl Environ Microbiol 42 : 1037 1042.[PubMed]
152. Oragui JI, Mara DD. 1983. Investigation of the survival characteristics of Rhodococcus coprophilus and certain fecal indicator bacteria. Appl Environ Microbiol 46 : 356 360.[PubMed]
153. Savill MG, Murray SR, Scholes P, Maas EW, McCormick RE, Moore EB, Gilpin BJ. 2001. Application of polymerase chain reaction (PCR) and TaqMan™ PCR techniques to the detection and identification of Rhodococcus coprophilus in faecal samples. J Microbiol Meth 47 : 355 368.[CrossRef]
154. Mara DD, Oragui JI. 1985. Bacteriological methods for distinguishing between human and animal faecal pollution of water: results of fieldwork in Nigeria and Zimbabwe. Bull World Health Org 63 : 773 783.[PubMed]
155. Lechevalier HA,. 1986. Nocardioforms, p. 1458 1506. In Sneath P, Mair N, Sharp M, Holt J (eds), Bergey's Manual of Systematic Bacteriology, vol. 2. Williams and Wilkins, Baltimore, MD.
156. Wicki M, Auckenthaler A, Felleisen R, Liniger M, Loutre C, Niederhauser I, Tanner M, Baumgartner A. 2012. Improved detection of Rhodococcus coprophilus with a new quantitative PCR assay. Appl Microbiol Biotechnol 93 : 2161 2169.[PubMed][CrossRef]
157. Plummer J, Long S. 2007. Monitoring source water for microbial contamination: evaluation of water quality measures. Water Res 41 : 3716 3728.[PubMed][CrossRef]
158. Wiggins BA. 1996. Discriminant analysis of antibiotic resistance patterns in fecal streptococci, a method to differentiate human and animal sources of fecal pollution in natural waters. Appl Environ Microbiol 62 : 3997 4002.[PubMed]
159. Wheeler AL, Hartel PG, Godfrey DG, Hill JL, Segars WI. 2002. Potential of Enterococcus faecalis as a human fecal indicator for microbial source tracking. J Environ Qual 31 : 1286 1293.[PubMed][CrossRef]
160. Kuntz RL, Hartel PG, Rodgers K, Segars WI. 2004. Presence of Enterococcus faecalis in broiler litter and wild bird feces for bacterial source tracking. Water Res 38 : 3551 3557.[PubMed][CrossRef]
161. Ryu H, Henson M, Elk M, Toledo-Hernandez C, Griffith J, Blackwood D, Noble R, Gourmelon M, Glassmeyer S, Santo Domingo J. 2012. Development of quantitative PCR assays targeting 16S rRNA gene of Enterococcus spp. and their application to the identification of Enterococcus species in environmental samples. Appl Environ Microbiol 79 : 196 204 .[PubMed][CrossRef]
162. Jackson CR, Fedorka-Cray PJ, Barrett JB. 2004. Use of a genus- and species-specific multiplex PCR for identification of enterococci. J Clin Microbiol 42 : 3558 3565.[PubMed][CrossRef]
163. Scott TM, Jenkins TM, Lukasik J, Rose JB. 2005. Potential use of a host associated molecular marker in Enterococcus faecium as an index of human fecal pollution. Environ Sci Technol 39 : 283 287.[PubMed][CrossRef]
164. Ahmed W, Stewart J, Powell D, Gardner T. 2008. Evaluation of the host-specificity and prevalence of enterococci surface protein (esp) marker in sewage and its application for sourcing human fecal pollution. J Environ Qual 37 : 1583 1588.[PubMed][CrossRef]
165. McQuaig SM, Scott TM, Harwood VJ, Farrah SR, Lukasik JO. 2006. Detection of human-derived fecal pollution in environmental waters by use of a PCR-based human polyomavirus assay. Appl Environ Microbiol 72 : 7567 7574.[PubMed][CrossRef]
166. Lanthier M, Scott A, Lapen DR, Zhang Y, Topp E. 2010. Frequency of virulence genes and antibiotic resistances in Enterococcus spp. isolates from wastewater and feces of domesticated mammals and birds, and wildlife. Can J Microbiol 56 : 715 729.[PubMed][CrossRef]
167. Layton BA, Walters SP, Boehm AB. 2009. Distribution and diversity of the enterococcal surface protein (esp) gene in animal hosts and the Pacific coast environment. J Appl Microbiol 106 : 1521 1531.[PubMed][CrossRef]
168. Whitman RL, Przybyla-Kelly K, Shively DA, Byappanahalli MN. 2007. Incidence of the enterococcal surface protein (esp) gene in human and animal fecal sources. Environ Sci Technol 41 : 6090 6095.[PubMed][CrossRef]
169. Johanson JJ, Feriancikova L, Xu S. 2012. Influence of enterococcal surface protein (esp) on the transport of Enterococcus faecium within saturated quartz sands. Environ Sci Technol 46 : 1511 1518.[PubMed][CrossRef]
170. Lawson PA, Collins MD, Falsen E, Foster G. 2006. Catellicoccus marimammalium gen. nov., sp. nov., a novel Gram-positive, catalase-negative, coccus-shaped bacterium from porpoise and grey seal. Int J Syst Evol Microbiol 56 : 429 432.[PubMed][CrossRef]
171. Ryu H, Lu J, Vogel J, Elk M, Chavez-Ramirez F, Ashbolt N, Santo Domingo J. 2012. Development and evaluation of a quantitative PCR assay targeting sandhill crane ( Grus canadensis) fecal pollution. Appl Environ Microbiol 78 : 4338 4345.[PubMed][CrossRef]
172. Ryu H, Griffith JF, Khan IU, Hill S, Edge TA, Toledo-Hernandez C, Gonzalez-Nieves J, Santo Domingo J. 2012. Comparison of gull feces-specific assays targeting the 16S rRNA genes of Catellicoccus marimammalium and Streptococcus spp. Appl Environ Microbiol 78 : 1909 1916.[PubMed][CrossRef]
173. Weigand MR, Ryu H, Bozcek L, Konstantinidis KT, Santo Domingo J. 2013. Draft genome sequence of Catellicoccus marimammalium, a novel species commonly found in gull feces. Genome Announce 1 : e00019-12[CrossRef]
174. Bisgaard M, Bojesen AM, Petersen MR, Christensen H. 2012. A major outbreak of Streptococcus equi subsp. zooepidemicus infections in free-range chickens is linked to horses. Avian Dis 56 : 561 566.[PubMed][CrossRef]
175. Devriese LA, Vandamme P, Collins MD, Alvarez N, Pot B, Hommez J, Butaye P, Haesebrouck F. 1999. Streptococcus pluranimalium sp. nov., from cattle and other animals. Int J Syst Bacteriol 49( Pt 3) : 1221 1226.[PubMed][CrossRef]
176. Vela AI, Casamayor A, Sanchez Del Rey V, Dominguez L, Fernandez-Garayzabal JF. 2009. Streptococcus plurextorum sp. nov., isolated from pigs. Int J Syst Evol Microbiol 59 : 504 508.[PubMed][CrossRef]
177. Vela AI, Sanchez V, Mentaberre G, Lavin S, Dominguez L, Fernandez-Garayzabal JF. 2011. Streptococcus porcorum sp. nov., isolated from domestic and wild pigs. Int J Syst Evol Microbiol 61 : 1585 1589.[PubMed][CrossRef]
178. Lawson PA, Foster G, Falsen E, Markopoulos SJ, Collins MD. 2005. Streptococcus castoreus sp. nov., isolated from a beaver ( Castor fiber). Int J Syst Evol Microbiol 55 : 843 846.[PubMed][CrossRef]
179. Hagedorn C, Crozier JB, Mentz KA, Booth AM, Graves AK, Nelson NJ, Reneau RB Jr. 2003. Carbon source utilization profiles as a method to identify sources of faecal pollution in water. J Appl Microbiol 94 : 792 799.[PubMed][CrossRef]
180. Simonsen GS, Smabrekke L, Monnet DL, Sorensen TL, Moller JK, Kristinsson KG, Lagerqvist-Widh A, Torell E, Digranes A, Harthug S, Sundsfjord A. 2003. Prevalence of resistance to ampicillin, gentamicin and vancomycin in Enterococcus faecalis and Enterococcus faecium isolates from clinical specimens and use of antimicrobials in five Nordic hospitals. J Antimicrob Chemother 51 : 323 331.[PubMed][CrossRef]
181. Witte W. 2000. Selective pressure by antibiotic use in livestock. Int J Antimicrob. Agents. 16( Suppl 1) : S19–S 24.[CrossRef]
182. Geldreich EE, Kenner BA. 1969. Concepts of fecal streptococci in stream pollution. J Water Pollut Control Fed 41( Suppl) : R336+.
183. Kummerer K. 2009. Antibiotics in the aquatic environment–a review–part I. Chemosphere 75 : 417 434.[PubMed][CrossRef]
184. Koike S, Aminov RI, Yannarell AC, Gans HD, Krapac IG, Chee-Sanford JC, Mackie RI. 2010. Molecular ecology of macrolide-lincosamide-streptogramin B methylases in waste lagoons and subsurface waters associated with swine production. Microb Ecol 59 : 487 498.[PubMed][CrossRef]
185. Duan H, Chai T, Liu J, Zhang X, Qi C, Gao J, Wang Y, Cai Y, Miao Z, Yao M, Schlenker G. 2009. Source identification of airborne Escherichia coli of swine house surroundings using ERIC-PCR and REP-PCR. Environ Res 109 : 511 517.[PubMed][CrossRef]
186. Seurinck S, Verstraete W, Siciliano SD. 2003. Use of 16S-23S rRNA intergenic spacer region PCR and repetitive extragenic palindromic PCR analyses of Escherichia coli isolates to identify nonpoint fecal sources. App Environ Microbiol 69 : 4942 4950.[CrossRef]
187. Casarez EA, Pillai SD, Di Giovanni GD. 2007. Genotype diversity of Escherichia coli isolates in natural waters determined by PFGE and ERIC-PCR. Water Res 41 : 3643 3648.[PubMed][CrossRef]
188. McLellan SL, Daniels AD, Salmore AK. 2003. Genetic characterization of Escherichia coli populations from host sources of fecal pollution by using DNA fingerprinting. Appl Environ Microbiol 69 : 2587 2594.[PubMed][CrossRef]