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Title: Understanding the bioremediative potential of FRC microbial communities


No abstract prepared.

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Publication Date:
Research Org.:
Michigan State University, East Lansing, MI; Oak Ridge National Laboratory, Oak Ridge, TN.
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
Report Number(s):
TRN: US200702%%275
Resource Type:
Resource Relation:
Conference: Annual Environmental Remediation Sciences Program PI Meeting, April 3-5, 2006, Warrenton, VA
Country of Publication:
United States

Citation Formats

Leigh, Mary Beth, Cardenas, Erick, Harzman, Christina, Weimin Gao Gao, Gentry, Terry, Jizhong Zhou, Ostrom, Nathaniel, Marsh, Terence, and Tiedje, James M. Understanding the bioremediative potential of FRC microbial communities. United States: N. p., 2006. Web.
Leigh, Mary Beth, Cardenas, Erick, Harzman, Christina, Weimin Gao Gao, Gentry, Terry, Jizhong Zhou, Ostrom, Nathaniel, Marsh, Terence, & Tiedje, James M. Understanding the bioremediative potential of FRC microbial communities. United States.
Leigh, Mary Beth, Cardenas, Erick, Harzman, Christina, Weimin Gao Gao, Gentry, Terry, Jizhong Zhou, Ostrom, Nathaniel, Marsh, Terence, and Tiedje, James M. Wed . "Understanding the bioremediative potential of FRC microbial communities". United States. doi:.
title = {Understanding the bioremediative potential of FRC microbial communities},
author = {Leigh, Mary Beth and Cardenas, Erick and Harzman, Christina and Weimin Gao Gao and Gentry, Terry and Jizhong Zhou and Ostrom, Nathaniel and Marsh, Terence and Tiedje, James M.},
abstractNote = {No abstract prepared.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {Wed Apr 05 00:00:00 EDT 2006},
month = {Wed Apr 05 00:00:00 EDT 2006}

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  • The overall goal of this study is to evaluate structure-function relationships of sedimentary microbial communities likely to regulate U(VI) reduction and immobilization in the subsurface of Area 2 at the Field Research Center (FRC), Oak Ridge, TN. Microcosm experiments were conducted under near in situ conditions with FRC subsurface materials cocontaminated with high levels of U(VI) and nitrate. The activity, abundance, and community composition of microorganisms was determined in microcosm samples, stimulated with ethanol or glucose, and compared to those from sediment cores and unamended controls. Activity was assessed by monitoring terminal electron accepting processes (TEAPs; nitrate, sulfate, uranium, andmore » iron reduction) as well as electron donor utilization. Microbial functional groups, nitrate- and iron(III)-reducing bacteria, were enumerated during the nitrate- and metal-reduction phases of the incubation and in sediment core samples using a most probable number (MPN) serial dilution assay. U(VI) and Fe(III) were reduced concurrently in the glucose but not the ethanol treatments. In ethanol-amended microcosms, U(VI) was reduced during a 4-day lag phase between nitrate- and Fe(III)-reduction phases. Biostimulation resulted in 3 to 5 orders of magnitude higher counts of Fe(III)-reducing bacteria, whereas populations of nitrate-reducers were enhanced by 1 to 3 orders of magnitude. One to 2 orders of magnitude more Fe(III)-reducers were observed in ethanol- as compared to glucose-amended treatments in parallel with enhanced U(VI) removal in ethanol treatments. Cultivatable Fe(III)-reducing bacteria in the ethanol treatments were dominated by Geobacter sp. while those cultured on glucose were dominated by fermentative organisms, i.e., Tolumonas sp. Currently, carbon substrate utilization is being examined through HPLC analysis of microcosm porewaters. In addition, changes in the overall microbial community composition are being assessed using cultivation-independent techniques, including fluorescence in situ hybridization (FISH), terminal restriction fragment length polymorphism analysis (T-RFLP) and cloning/sequencing of structural and functional genes. Our results indicate that the microbially-catalyzed mechanism of U(VI) reduction is electron donor dependent and that more effective U(VI) removal is achieved in parallel with an enrichment of Geobacter sp. upon treatment with ethanol.« less
  • The focus of our work is to better understand the bioremediation of uranium in the subsurface. To evaluate the natural occurring uranium-immobilizing bacterial populations, we have anaerobically enriched uranium contaminated soil sediments (FW107, FW102-2, and FW102-3) collected from ORNL iFRC site (S3 area).
  • Metagenomic investigations hold great promise for informing the genetics, physiology, and ecology of environmental microorganisms. Current challenges for metagenomic analysis are related to our ability to connect the dots between sequencing reads, their population of origin, and their encoding functions. Assembly-based methods reduce dataset size by extending overlapping reads into larger contiguous sequences (contigs), providing contextual information for genetic sequences that does not rely on existing references. These methods, however, tend to be computationally intensive and are again challenged by sequencing errors as well as by genomic repeats. While numerous tools have been developed based on these methodological concepts, theymore » present confounding choices and training requirements to metagenomic investigators. To help with accessibility to assembly tools, this review also includes an IPython Notebook metagenomic assembly tutorial. This tutorial has instructions for execution any operating system using Amazon Elastic Cloud Compute and guides users through downloading, assembly, and mapping reads to contigs of a mock microbiome metagenome. Despite its challenges, metagenomic analysis has already revealed novel insights into many environments on Earth. As software, training, and data continue to emerge, metagenomic data access and its discoveries will to grow.« less
  • Short communication.