Uranium removal from groundwater via in situ biostimulation: Field-scale modeling of transport and biological processes

Yabusaki, Steven B.; Fang, Yilin; Long, Philip E.; Resch, Charles T.; Peacock, Aaron D.; Komlos, John; Jaffé, Peter R.; Morrison, Stan J.; Dayvault, Richard D.; White, David C.; Anderson, Robert

doi:10.1016/j.jconhyd.2007.02.005

Cited by 149 publications

(178 citation statements)

References 30 publications

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“…This suggests the actual community overlap is higher, but that these sediment-associated organisms are at much lower abundance in the planktonic communities, and may not be detected using metagenomic or other sequence-based methods. The low abundances of many of the tracked 133 organisms are striking given the differing scales of sample size: each sediment sample comprised B70 cm 3 compared with the 36 000 l of groundwater filtered (B144 m 3 given a porosity of 0.25 for Rifle site sediment (Yabusaki et al, 2007)). The planktonic community sequenced thus represents the microbial membership from a much larger physical environment than the sediment cores.…”

Section: Resultsmentioning

confidence: 99%

“…The aquifer has been heavily studied from the perspective of fluid flow modeling, reactive transport of contaminants and microbial community response to acetate injection to stimulate bioremediation through uranium reduction (for example, Chang et al, 2005;Yabusaki et al, 2007;Li et al, 2009;Wilkins et al, 2009). Recent metagenomic characterization of the sediment and groundwaterassociated communities identified diverse assemblages of low-abundance organisms, many of which represent previously unsequenced lineages on the tree of life (Wrighton et al, 2012;Castelle et al, 2013).…”

Section: Introductionmentioning

confidence: 99%

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Aquifer environment selects for microbial species cohorts in sediment and groundwater

Hug

Thomas

Brown³

et al. 2015

The ISME Journal

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Little is known about the biogeography or stability of sediment-associated microbial community membership because these environments are biologically complex and generally difficult to sample. High-throughput-sequencing methods provide new opportunities to simultaneously genomically sample and track microbial community members across a large number of sampling sites or times, with higher taxonomic resolution than is associated with 16 S ribosomal RNA gene surveys, and without the disadvantages of primer bias and gene copy number uncertainty. We characterized a sediment community at 5 m depth in an aquifer adjacent to the Colorado River and tracked its most abundant 133 organisms across 36 different sediment and groundwater samples. We sampled sites separated by centimeters, meters and tens of meters, collected on seven occasions over 6 years. Analysis of 1.4 terabase pairs of DNA sequence showed that these 133 organisms were more consistently detected in saturated sediments than in samples from the vadose zone, from distant locations or from groundwater filtrates. Abundance profiles across aquifer locations and from different sampling times identified organism cohorts that comprised subsets of the 133 organisms that were consistently associated. The data suggest that cohorts are partly selected for by shared environmental adaptation.

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Section: Resultsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Aquifer environment selects for microbial species cohorts in sediment and groundwater

Hug

Thomas

Brown³

et al. 2015

The ISME Journal

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“…Site and plot description Detailed descriptions of the geology, hydrology and geochemistry of the site in Rifle, CO, USA have been presented elsewhere (Anderson et al, 2003;Vrionis et al, 2005;Yabusaki et al, 2007). The field experimental results described here were obtained as part of the 2007 study of the U.S. Department of Energy's Integrated Field Research Challenge (IFRC) site at Rifle, Co, USA.…”

Section: Methodsmentioning

confidence: 99%

Molecular analysis of phosphate limitation in Geobacteraceae during the bioremediation of a uranium-contaminated aquifer

et al. 2009

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Nutrient limitation is an environmental stress that may reduce the effectiveness of bioremediation strategies, especially when the contaminants are organic compounds or when organic compounds are added to promote microbial activities such as metal reduction. Genes indicative of phosphatelimitation were identified by microarray analysis of chemostat cultures of Geobacter sulfureducens. This analysis revealed that genes in the pst-pho operon, which is associated with a high-affinity phosphate uptake system in other microorganisms, had significantly higher transcript abundance under phosphate-limiting conditions, with the genes pstB and phoU upregulated the most. Quantitative PCR analysis of pstB and phoU transcript levels in G. sulfurreducens grown in chemostats demonstrated that the expression of these genes increased when phosphate was removed from the culture medium. Transcripts of pstB and phoU within the subsurface Geobacter species predominating during an in situ uranium-bioremediation field experiment were more abundant than in chemostat cultures of G. sulfurreducens that were not limited for phosphate. Addition of phosphate to incubations of subsurface sediments did not stimulate dissimilatory metal reduction. The added phosphate was rapidly adsorbed onto the sediments. The results demonstrate that Geobacter species can effectively reduce U(VI) even when experiencing suboptimal phosphate concentrations and that increasing phosphate availability with phosphate additions is difficult to achieve because of the high reactivity of this compound. This transcript-based approach developed for diagnosing phosphate limitation should be applicable to assessing the potential need for additional phosphate in other bioremediation processes.

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“…Stimulating indigenous microbial communities to carry out the in situ reduction of soluble U(VI) to insoluble U(IV) has been proposed as a potential bioremediation strategy for these contaminated sites (Anderson et al 2003;Madden et al 2009;N'Guessan et al 2008;Wu et al 2007;Yabusaki et al 2007). However, effective bioremediation requires an understanding of the mechanisms involved in bacterial metal reduction and of the response of microorganisms to metal toxicity.…”

Section: Introductionmentioning

confidence: 99%

The Response ofDesulfotomaculum reducensMI-1 to U(VI) Exposure: A Transcriptomic Study

Junier

Vecchia

Bernier‐Latmani

2011

Geomicrobiology Journal

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Uranium removal from groundwater via in situ biostimulation: Field-scale modeling of transport and biological processes

Cited by 149 publications

References 30 publications

Aquifer environment selects for microbial species cohorts in sediment and groundwater

Aquifer environment selects for microbial species cohorts in sediment and groundwater

Molecular analysis of phosphate limitation in Geobacteraceae during the bioremediation of a uranium-contaminated aquifer

The Response ofDesulfotomaculum reducensMI-1 to U(VI) Exposure: A Transcriptomic Study

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