Article

 

Improved HF183 Quantitative Real-Time PCR Assay for Characterization of Human Fecal Pollution in Ambient Surface Water Samples Public Deposited

Downloadable Content

Download PDF
https://ir.library.oregonstate.edu/concern/articles/6395w8960

Descriptions

Attribute NameValues
Creator
Abstract
  • Quantitative real-time PCR (qPCR) assays that target the human-associated HF183 bacterial cluster within members of the genus Bacteroides are among the most widely used methods for the characterization of human fecal pollution in ambient surface waters. In this study, we show that a current TaqMan HF183 qPCR assay (HF183/BFDrev) routinely forms nonspecific amplification products and introduce a modified TaqMan assay (HF183/BacR287) that alleviates this problem. The performance of each qPCR assay was compared in head-to-head experiments investigating limits of detection, analytical precision, predicted hybridization to 16S rRNA gene sequences from a reference database, and relative marker concentrations in fecal and sewage samples. The performance of the modified HF183/BacR287 assay is equal to or improves upon that of the original HF183/BFDrev assay. In addition, a qPCR chemistry designed to combat amplification inhibition and a multiplexed internal amplification control are included. In light of the expanding use of PCR-based methods that rely on the detection of extremely low concentrations of DNA template, such as qPCR and digital PCR, the new TaqMan HF183/BacR287 assay should provide more accurate estimations of human-derived fecal contaminants in ambient surface waters.
  • This is the publisher’s final pdf. The published article is copyrighted by the American Society for Microbiology and can be found at: http://aem.asm.org/
Resource Type
DOI
Date Available
Date Issued
Citation
  • Green, H. C., Haugland, R. A., Varma, M., Millen, H. T., Borchardt, M. A., Field, K. G., ... & Shanks, O. C. (2014). Improved HF183 quantitative real-time PCR assay for characterization of human fecal pollution in ambient surface water samples. Applied and Environmental Microbiology, 80(10), 3086-3094. doi:10.1128/AEM.04137-13
Journal Title
Journal Volume
  • 80
Journal Issue/Number
  • 10
Rights Statement
Publisher
Peer Reviewed
Language
Replaces

Relationships

Parents:

This work has no parents.

Items