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Biodegradative Bacteria
2014; Page: 293 - 312

Monitoring Microbial Community Dynamics to Evaluate Bioremediation

Brett R. Baldwin, Dora Ogles, Cindy H. Nakatsu

Microbial Insights, 10515 Research Dr., Suite 100, Knoxville, TN, 37932-2536, USA.


Bioremediation can be an effective treatment strategy at contaminated sites when applied appropriately and implemented properly. Thus it is important to have methods that can be used to reliably assess biodegradation potential and ultimately the feasibility and performance of bioremediation as a treatment approach. While an important component of site monitoring, decreasing trends in contaminant concentrations can result from physical processes, do not document that loss is due to biodegradation, and can be difficult to discern in practice. Therefore direct measures of microbes responsible for biodegradation of compounds have been developed. These methods fall into two categories: direct measure of biodegradation functional genes using methods such as quantitative PCR and microarrays and indirect measures in changes in microbial community structure using methods such as PCR-DGGE and T-RFLP when target genes are unknown. This chapter describes the various molecular methods being used and examples where they have been applied for the assessment of environmental samples.

Keywords: Dioxygenase; Metagenomic; Microarrays; PCR-DGGE; qPCR; RT-qPCR; T-RFLP



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