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Title: Identification of bacteria synthesizing ribosomal RNA in response to uranium addition during biostimulation at the Rifle, CO Integrated Field Research site

Abstract

Understanding which organisms are capable of reducing uranium at historically contaminated sites provides crucial information needed to evaluate treatment options and outcomes. One approach is determination of the bacteria which directly respond to uranium addition. In this research, uranium amendments were made to groundwater samples from a site of ongoing biostimulation with acetate. The active microbes in the planktonic phase were deduced by monitoring ribosomes production via RT-PCR. The results indicated several microorganisms were synthesizing ribosomes in proportion with uranium amendment up to 2 μM. Concentrations of U (VI) >2 μM were generally found to inhibit ribosome synthesis. Two active bacteria responding to uranium addition in the field were close relatives of Desulfobacter postgateii and Geobacter bemidjiensis. Since RNA content often increases with growth rate, our findings suggest it is possible to rapidly elucidate active bacteria responding to the addition of uranium in field samples and provides a more targeted approach to stimulate specific populations to enhance radionuclide reduction in contaminated sites.

Authors:
 [1];  [2];  [3];  [3];  [1];  [4]
  1. Rutgers Univ., New Brunswick, NJ (United States)
  2. The Ohio State Univ., Columbus, OH (United States)
  3. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  4. Argonne National Lab. (ANL), Argonne, IL (United States)
Publication Date:
Research Org.:
Argonne National Lab. (ANL), Argonne, IL (United States); Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
OSTI Identifier:
1223863
Grant/Contract Number:  
AC02-06CH11357; AC02-05CH11231
Resource Type:
Accepted Manuscript
Journal Name:
PLoS ONE
Additional Journal Information:
Journal Volume: 10; Journal Issue: 9; Journal ID: ISSN 1932-6203
Publisher:
Public Library of Science
Country of Publication:
United States
Language:
English
Subject:
60 APPLIED LIFE SCIENCES; 12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE WASTES FROM NUCLEAR FACILITIES; uranium; ribosomal RNA; sulfates; bacteria; ribosomes; bromides; reverse transcriptase-polymerase chain reaction; sulfides

Citation Formats

McGuinness, Lora R., Wilkins, Michael J., Williams, Kenneth H., Long, Philip E., Kerkhof, Lee J., and Boyanov, Maxim I. Identification of bacteria synthesizing ribosomal RNA in response to uranium addition during biostimulation at the Rifle, CO Integrated Field Research site. United States: N. p., 2015. Web. doi:10.1371/journal.pone.0137270.
McGuinness, Lora R., Wilkins, Michael J., Williams, Kenneth H., Long, Philip E., Kerkhof, Lee J., & Boyanov, Maxim I. Identification of bacteria synthesizing ribosomal RNA in response to uranium addition during biostimulation at the Rifle, CO Integrated Field Research site. United States. doi:10.1371/journal.pone.0137270.
McGuinness, Lora R., Wilkins, Michael J., Williams, Kenneth H., Long, Philip E., Kerkhof, Lee J., and Boyanov, Maxim I. Fri . "Identification of bacteria synthesizing ribosomal RNA in response to uranium addition during biostimulation at the Rifle, CO Integrated Field Research site". United States. doi:10.1371/journal.pone.0137270. https://www.osti.gov/servlets/purl/1223863.
@article{osti_1223863,
title = {Identification of bacteria synthesizing ribosomal RNA in response to uranium addition during biostimulation at the Rifle, CO Integrated Field Research site},
author = {McGuinness, Lora R. and Wilkins, Michael J. and Williams, Kenneth H. and Long, Philip E. and Kerkhof, Lee J. and Boyanov, Maxim I.},
abstractNote = {Understanding which organisms are capable of reducing uranium at historically contaminated sites provides crucial information needed to evaluate treatment options and outcomes. One approach is determination of the bacteria which directly respond to uranium addition. In this research, uranium amendments were made to groundwater samples from a site of ongoing biostimulation with acetate. The active microbes in the planktonic phase were deduced by monitoring ribosomes production via RT-PCR. The results indicated several microorganisms were synthesizing ribosomes in proportion with uranium amendment up to 2 μM. Concentrations of U (VI) >2 μM were generally found to inhibit ribosome synthesis. Two active bacteria responding to uranium addition in the field were close relatives of Desulfobacter postgateii and Geobacter bemidjiensis. Since RNA content often increases with growth rate, our findings suggest it is possible to rapidly elucidate active bacteria responding to the addition of uranium in field samples and provides a more targeted approach to stimulate specific populations to enhance radionuclide reduction in contaminated sites.},
doi = {10.1371/journal.pone.0137270},
journal = {PLoS ONE},
number = 9,
volume = 10,
place = {United States},
year = {2015},
month = {9}
}

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Works referenced in this record:

Stimulating the In Situ Activity of Geobacter Species To Remove Uranium from the Groundwater of a Uranium-Contaminated Aquifer
journal, October 2003


Acetate Availability and its Influence on Sustainable Bioremediation of Uranium-Contaminated Groundwater
journal, June 2011


Enrichment of Members of the Family Geobacteraceae Associated with Stimulation of Dissimilatory Metal Reduction in Uranium-Contaminated Aquifer Sediments
journal, May 2002


Proteogenomic Monitoring of Geobacter Physiology during Stimulated Uranium Bioremediation
journal, August 2009

  • Wilkins, M. J.; VerBerkmoes, N. C.; Williams, K. H.
  • Applied and Environmental Microbiology, Vol. 75, Issue 20
  • DOI: 10.1128/AEM.01064-09

Microbiological and Geochemical Heterogeneity in an In Situ Uranium Bioremediation Field Site
journal, October 2005


Microbial Incorporation of 13 C-Labeled Acetate at the Field Scale:  Detection of Microbes Responsible for Reduction of U(VI)
journal, December 2005

  • Chang, Yun-Juan; Long, Philip E.; Geyer, Roland
  • Environmental Science & Technology, Vol. 39, Issue 23
  • DOI: 10.1021/es051218u

Phase Preference by Active, Acetate-Utilizing Bacteria at the Rifle, CO Integrated Field Research Challenge Site
journal, February 2011

  • Kerkhof, Lee J.; Williams, Ken H.; Long, Philip E.
  • Environmental Science & Technology, Vol. 45, Issue 4
  • DOI: 10.1021/es102893r

The biogeochemistry and bioremediation of uranium and other priority radionuclides
journal, January 2014


Bacterioplankton RNA, DNA, protein content and relationships to rates of thymidine and leucine incorporation
journal, January 1996

  • Jeffrey, Wh; Von Haven, R.; Hoch, Mp
  • Aquatic Microbial Ecology, Vol. 10
  • DOI: 10.3354/ame010087

Replicability of Bacterial Communities in Denitrifying Bioreactors as Measured by PCR/T-RFLP Analysis
journal, January 2006

  • McGuinness, Lora M.; Salganik, Max; Vega, Leticia
  • Environmental Science & Technology, Vol. 40, Issue 2
  • DOI: 10.1021/es050900l

Quantification of total RNA by ethidium bromide fluorescence may not accurately reflect the RNA mass
journal, March 1997


Rapid screening of a large insert BAC library for specific 16S rRNA genes using TRFLP
journal, November 2007


A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
journal, October 2003


Importance of c-Type cytochromes for U(VI) reduction by Geobacter sulfurreducens
journal, January 2007

  • Shelobolina, Evgenya S.; Coppi, Maddalena V.; Korenevsky, Anton A.
  • BMC Microbiology, Vol. 7, Issue 1
  • DOI: 10.1186/1471-2180-7-16

Geobacter uraniireducens sp. nov., isolated from subsurface sediment undergoing uranium bioremediation
journal, May 2008

  • Shelobolina, E. S.; Vrionis, H. A.; Findlay, R. H.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 58, Issue 5
  • DOI: 10.1099/ijs.0.65377-0

Geobacter daltonii sp. nov., an Fe(III)- and uranium(VI)-reducing bacterium isolated from a shallow subsurface exposed to mixed heavy metal and hydrocarbon contamination
journal, August 2009

  • Prakash, O.; Gihring, T. M.; Dalton, D. D.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 60, Issue 3
  • DOI: 10.1099/ijs.0.010843-0

Enzymatic iron and uranium reduction by sulfate-reducing bacteria
journal, July 1993


Uranium Exerts Acute Toxicity by Binding to Pyrroloquinoline Quinone Cofactor
journal, February 2011

  • VanEngelen, Michael R.; Szilagyi, Robert K.; Gerlach, Robin
  • Environmental Science & Technology, Vol. 45, Issue 3
  • DOI: 10.1021/es101754x

ADesulfovibrio sp. capable of growing by reducing U(VI)
journal, December 1999


Sulfate-reducing bacterium grows with Cr(VI), U(VI), Mn(IV), and Fe(III) as electron acceptors
journal, May 1998


Thermodynamic Controls on the Microbial Reduction of Iron-Bearing Nontronite and Uranium
journal, February 2014

  • Luan, Fubo; Gorski, Christopher A.; Burgos, William D.
  • Environmental Science & Technology, Vol. 48, Issue 5
  • DOI: 10.1021/es404885e

Uranium redox transition pathways in acetate-amended sediments
journal, March 2013

  • Bargar, J. R.; Williams, K. H.; Campbell, K. M.
  • Proceedings of the National Academy of Sciences, Vol. 110, Issue 12
  • DOI: 10.1073/pnas.1219198110

Analysis of Biostimulated Microbial Communities from Two Field Experiments Reveals Temporal and Spatial Differences in Proteome Profiles
journal, December 2010

  • Callister, Stephen J.; Wilkins, Michael J.; Nicora, Carrie D.
  • Environmental Science & Technology, Vol. 44, Issue 23
  • DOI: 10.1021/es101029f

Sulfur Isotopes as Indicators of Amended Bacterial Sulfate Reduction Processes Influencing Field Scale Uranium Bioremediation
journal, November 2008

  • Druhan, Jennifer L.; Conrad, Mark E.; Williams, Kenneth H.
  • Environmental Science & Technology, Vol. 42, Issue 21
  • DOI: 10.1021/es800414s

Timing the Onset of Sulfate Reduction over Multiple Subsurface Acetate Amendments by Measurement and Modeling of Sulfur Isotope Fractionation
journal, August 2012

  • Druhan, Jennifer L.; Steefel, Carl I.; Molins, Sergi
  • Environmental Science & Technology, Vol. 46, Issue 16
  • DOI: 10.1021/es302016p

Modeling Reduction of Uranium U(VI) under Variable Sulfate Concentrations by Sulfate-Reducing Bacteria
journal, September 2000


    Works referencing / citing this record:

    Uranium mobility and accumulation along the Rio Paguate, Jackpile Mine in Laguna Pueblo, NM
    journal, January 2017

    • Blake, Johanna M.; De Vore, Cherie L.; Avasarala, Sumant
    • Environmental Science: Processes & Impacts, Vol. 19, Issue 4
    • DOI: 10.1039/c6em00612d