Application of phylogenetic microarray analysis to discriminate sources of fecal pollution

Environmental Science & Technology
Eric A DubinskyGary L Andersen

Abstract

Conventional methods for fecal source tracking typically use single biomarkers to systematically identify or exclude sources. High-throughput DNA sequence analysis can potentially identify all sources of microbial contaminants in a single test by measuring the total diversity of fecal microbial communities. In this study, we used phylogenetic microarray analysis to determine the comprehensive suite of bacteria that define major sources of fecal contamination in coastal California. Fecal wastes were collected from 42 different populations of humans, birds, cows, horses, elk, and pinnipeds. We characterized bacterial community composition using a DNA microarray that probes for 16S rRNA genes of 59,316 different bacterial taxa. Cluster analysis revealed strong differences in community composition among fecal wastes from human, birds, pinnipeds, and grazers. Actinobacteria, Bacilli, and many Gammaproteobacteria taxa discriminated birds from mammalian sources. Diverse families within the Clostridia and Bacteroidetes taxa discriminated human wastes, grazers, and pinnipeds from each other. We found 1058 different bacterial taxa that were unique to either human, grazing mammal, or bird fecal wastes. These OTUs can serve as specific ide...Continue Reading

References

Feb 28, 2002·Genome Biology·Philip Hugenholtz
Mar 23, 2002·Genome Génome / Conseil National De Recherches Canada·K K NkongoloW S Gratton
Jul 24, 2007·Water Research·Katharine G Field, Mansour Samadpour
Aug 19, 2007·Environmental Science & Technology·Kevan M YamaharaAlexandria B Boehm
Oct 20, 2007·Bioinformatics·Cedric SimillionYves Van de Peer
Dec 18, 2007·Applied and Environmental Microbiology·Muriel DerrienWillem M de Vos
Jan 9, 2008·Nature Reviews. Microbiology·Harry J FlintBryan A White
Jan 19, 2008·Environmental Science & Technology·Alexandria B Boehm
May 13, 2008·Applied and Environmental Microbiology·Jingrang LuStephen Hill
May 24, 2008·Science·Ruth E LeyJeffrey I Gordon
Apr 29, 2009·Environmental Microbiology·Sarah P Walters, Katharine G Field
Mar 13, 2010·PloS One·Morgan N PriceAdam P Arkin
Aug 6, 2010·The ISME Journal·Jung Eun LeeGwangPyo Ko
Aug 26, 2010·Science·Terry C HazenOlivia U Mason
Sep 21, 2010·Applied and Environmental Microbiology·Elisenda Ballesté, Anicet R Blanch
Sep 22, 2010·Environmental Science & Technology·Tatsuya UnnoHor-Gil Hur
Feb 25, 2011·The ISME Journal·Jizhong ZhouYunfeng Yang
Jul 27, 2011·Environmental Science & Technology·Yiping CaoPatricia A Holden

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Citations

Jul 25, 2013·Water Research·Alexandria B BoehmStephen B Weisberg
Feb 26, 2013·Applied and Environmental Microbiology·Orin C ShanksSandra L McLellan
Dec 7, 2013·Applied Microbiology and Biotechnology·Lin CaiTong Zhang
Sep 10, 2014·Trends in Microbiology·Sandra L McLellan, A Murat Eren
Nov 2, 2014·Environmental Microbiology Reports·Amber M KoskeySandra L McLellan
May 4, 2016·The Science of the Total Environment·Sheridan K HaackWilliam T Foreman
Jun 9, 2016·The Science of the Total Environment·A Mark IbekweShelton E Murinda
Jan 7, 2018·Applied and Environmental Microbiology·Jennifer WeidhaasRubayat Jamal
Feb 28, 2016·Applied and Environmental Microbiology·Orin C ShanksMano Sivaganesan
Jan 13, 2015·Applied and Environmental Microbiology·Lauren M SassoubreAlexandria B Boehm
Mar 29, 2021·Bulletin of Environmental Contamination and Toxicology·Gowher A WaniZafar A Reshi

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