Performance assessment of qPCR assays targeting human- and ruminant-associated Bacteroidetes for microbial source tracking across sixteen countries on six continents

Authors
Reischer, Georg H.; Ebdon, James E.; Bauer, Johanna M.; Schuster, Nathalie; Ahmed, Warish; Åström, Johan; Blanch, Anicet R.; Blöschl, Günter; Byamukama, Denis; Coakley, Tricia; Ferguson, Christobel; Goshu, Goraw; Ko, GwangPyo; de Roda Husman, Ana Maria; Mushi, Douglas; Poma, Hugo Ramiro; Pradhan, Bandana; Rajal, Verónica Beatriz; Schade, Margit A.; Sommer, Regina; Taylor, Huw; Toth, Erika M.; Vrajmasu, Virgil; Wuertz, Stefan; Mach, Robert L.; Farnleitner, Andreas H.
Publication Year
2013
Language
English
Format
article
Status
Published version
Description
Numerous quantitative PCR assays for microbial fecal source tracking (MST) have been developed and evaluated in recent years. Widespread application has been hindered by a lack of knowledge regarding the geographical stability and hence applicability of such methods beyond the regional level. This study assessed the performance of five previously reported quantitative PCR assays targeting human-, cattle- or ruminant-associated Bacteroidetes populations on 280 human and animal fecal samples from 16 countries across six continents. The tested cattle-associated markers were shown to be ruminant-associated. The quantitative distributions of marker concentrations in target and non target samples proved to be essential for the assessment of assay performance and were used to establish a new metric for quantitative source-specificity. In general, this study demonstrates that stable target populations required for marker-based MST occur around the globe. Ruminant-associated marker concentrations were strongly correlated with total intestinal Bacteroidetes populations and with each other, indicating that the detected ruminant-associated populations seem to be part of the intestinal core microbiome of ruminants worldwide. Consequently tested ruminant targeted assays appear to be suitable quantitative MST tools beyond the regional level while the targeted human-associated populations seem to be less prevalent and stable suggesting potential for improvements in human-targeted methods.
Fil: Reischer, Georg H.. Vienna University of Technology; Austria. InterUniversity Cooperation Centre Water & Health; Austria
Fil: Ebdon, James E.. University of Brighton. School of Environment and Technology. Environment & Public Health Research Unit ; Reino Unido
Fil: Bauer, Johanna M.. Vienna University of Technology; Austria
Fil: Schuster, Nathalie. Vienna University of Technology; Austria
Fil: Ahmed, Warish. CSIRO Land and Water; Australia
Fil: Åström, Johan. Chalmers University Of Technology; Suecia
Fil: Blanch, Anicet R.. Universidad de Barcelona. Departamento de Bioquimica; España
Fil: Blöschl, Günter. Vienna University of Technology; Austria
Fil: Byamukama, Denis. Makerere University. Department of Biochemistry; Uganda
Fil: Coakley, Tricia. University Of Kentucky; Estados Unidos
Fil: Ferguson, Christobel. ALS Water Sciences Group; Australia
Fil: Goshu, Goraw. Bahir Dar University. Blue Nile Water Institute. College of Agriculture and Environmental Sciences; Etiopía
Fil: Ko, GwangPyo. Seoul National University; Corea del Sur
Fil: de Roda Husman, Ana Maria. National Institute for Public Health and the Environment ; Países Bajos
Fil: Mushi, Douglas. Sokoine University; Tanzania
Fil: Poma, Hugo Ramiro. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Salta. Instituto de Investigación para la Industria Química (i); Argentina
Fil: Pradhan, Bandana. Tribhuvan University; Nepal
Fil: Rajal, Verónica Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Salta. Instituto de Investigación para la Industria Química (i); Argentina
Fil: Schade, Margit A.. Bavarian Environment Agency; Alemania
Fil: Sommer, Regina. InterUniversity Cooperation Centre Water & Health; Austria. Medical University of Vienna. Institute for Hygiene and Applied Immunology, Water Hygiene; Austria
Fil: Taylor, Huw. University of Brighton. School of Environment and Technology. Environment & Public Health Research Unit ; Reino Unido
Fil: Toth, Erika M.. Eötvös Lorand University. Department of Microbiology. Biological Institute; Hungría
Fil: Vrajmasu, Virgil. Veterinary State Laboratory; Rumania
Fil: Wuertz, Stefan. University Of California At Davis; Estados Unidos
Fil: Mach, Robert L.. Vienna University of Technology; Austria
Fil: Farnleitner, Andreas H.. Vienna University of Technology; Austria. InterUniversity Cooperation Centre Water & Health; Austria
Subject
Microbial source tracking
Pollution microbiology
Fecal pollution
Bacteroidetes
Quantitative real-time PCR
Genetic markers
Water quality
Biotecnología Medioambiental
Biotecnología del Medio Ambiente
INGENIERÍAS Y TECNOLOGÍAS
Access level
Restricted access
License
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repository
CONICET Digital (CONICET)
Institution
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identifier
oai:ri.conicet.gov.ar:11336/4720