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Title: Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition

Authors:
ORCiD logo; ; ; ; ; ; ; ; ; ;
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (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); National Science Foundation (NSF)
OSTI Identifier:
1427332
Alternate Identifier(s):
OSTI ID: 1435278; OSTI ID: 1465439; OSTI ID: 1465450
Grant/Contract Number:  
AC05-00OR22725; AC02-05CH11231; OIA-1458952
Resource Type:
Published Article
Journal Name:
PLoS ONE
Additional Journal Information:
Journal Name: PLoS ONE Journal Volume: 13 Journal Issue: 3; Journal ID: ISSN 1932-6203
Publisher:
Public Library of Science
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Christensen, Geoff A., Moon, JiWon, Veach, Allison M., Mosher, Jennifer J., Wymore, Ann M., van Nostrand, Joy D., Zhou, Jizhong, Hazen, Terry C., Arkin, Adam P., Elias, Dwayne A., and Franzetti, Andrea. Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition. United States: N. p., 2018. Web. doi:10.1371/journal.pone.0194663.
Christensen, Geoff A., Moon, JiWon, Veach, Allison M., Mosher, Jennifer J., Wymore, Ann M., van Nostrand, Joy D., Zhou, Jizhong, Hazen, Terry C., Arkin, Adam P., Elias, Dwayne A., & Franzetti, Andrea. Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition. United States. doi:10.1371/journal.pone.0194663.
Christensen, Geoff A., Moon, JiWon, Veach, Allison M., Mosher, Jennifer J., Wymore, Ann M., van Nostrand, Joy D., Zhou, Jizhong, Hazen, Terry C., Arkin, Adam P., Elias, Dwayne A., and Franzetti, Andrea. Tue . "Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition". United States. doi:10.1371/journal.pone.0194663.
@article{osti_1427332,
title = {Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition},
author = {Christensen, Geoff A. and Moon, JiWon and Veach, Allison M. and Mosher, Jennifer J. and Wymore, Ann M. and van Nostrand, Joy D. and Zhou, Jizhong and Hazen, Terry C. and Arkin, Adam P. and Elias, Dwayne A. and Franzetti, Andrea},
abstractNote = {},
doi = {10.1371/journal.pone.0194663},
journal = {PLoS ONE},
number = 3,
volume = 13,
place = {United States},
year = {2018},
month = {3}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
DOI: 10.1371/journal.pone.0194663

Citation Metrics:
Cited by: 2 works
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Works referenced in this record:

UCHIME improves sensitivity and speed of chimera detection
journal, June 2011


Quantitative Phylogenetic Assessment of Microbial Communities in Diverse Environments
journal, February 2007


Role of Intracellular Stochasticity in Biofilm Growth. Insights from Population Balance Modeling
journal, November 2013


A Limited Microbial Consortium Is Responsible for Extended Bioreduction of Uranium in a Contaminated Aquifer
journal, July 2011

  • Gihring, Thomas M.; Zhang, Gengxin; Brandt, Craig C.
  • Applied and Environmental Microbiology, Vol. 77, Issue 17
  • DOI: 10.1128/AEM.00220-11

Stoichiometry and temperature sensitivity of methanogenesis and CO 2 production from saturated polygonal tundra in Barrow, Alaska
journal, November 2014

  • Roy Chowdhury, Taniya; Herndon, Elizabeth M.; Phelps, Tommy J.
  • Global Change Biology, Vol. 21, Issue 2
  • DOI: 10.1111/gcb.12762

Bacterial biofilms: from the Natural environment to infectious diseases
journal, February 2004

  • Hall-Stoodley, Luanne; Costerton, J. William; Stoodley, Paul
  • Nature Reviews Microbiology, Vol. 2, Issue 2, p. 95-108
  • DOI: 10.1038/nrmicro821

Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
journal, July 2006

  • DeSantis, T. Z.; Hugenholtz, P.; Larsen, N.
  • Applied and Environmental Microbiology, Vol. 72, Issue 7, p. 5069-5072
  • DOI: 10.1128/AEM.03006-05

Monitoring impact of in situ biostimulation treatment on groundwater bacterial community by DGGE
journal, April 2000


Novel arsenic-transforming bacteria and the diversity of their arsenic-related genes and enzymes arising from arsenic-polluted freshwater sediment
journal, September 2017

  • Suhadolnik, Maria L. S.; Salgado, Ana P. C.; Scholte, Larissa L. S.
  • Scientific Reports, Vol. 7, Issue 1
  • DOI: 10.1038/s41598-017-11548-8

Fundamentals of Microbial Community Resistance and Resilience
journal, January 2012


Quorum sensing in Pseudomonas aeruginosa biofilms
journal, February 2009


Bacterial community succession during in situ uranium bioremediation: spatial similarities along controlled flow paths
journal, September 2008

  • Hwang, Chiachi; Wu, Weimin; Gentry, Terry J.
  • The ISME Journal, Vol. 3, Issue 1
  • DOI: 10.1038/ismej.2008.77

GeoChip: a comprehensive microarray for investigating biogeochemical, ecological and environmental processes
journal, May 2007

  • He, Zhili; Gentry, Terry J.; Schadt, Christopher W.
  • The ISME Journal, Vol. 1, Issue 1
  • DOI: 10.1038/ismej.2007.2

Sequencing Intractable DNA to Close Microbial Genomes
journal, July 2012


Application of a High-Density Oligonucleotide Microarray Approach To Study Bacterial Population Dynamics during Uranium Reduction and Reoxidation
journal, September 2006

  • Brodie, E. L.; DeSantis, T. Z.; Joyner, D. C.
  • Applied and Environmental Microbiology, Vol. 72, Issue 9
  • DOI: 10.1128/AEM.00246-06

Spatial and successional dynamics of microbial biofilm communities in a grassland stream ecosystem
journal, September 2016

  • Veach, Allison M.; Stegen, James C.; Brown, Shawn P.
  • Molecular Ecology, Vol. 25, Issue 18
  • DOI: 10.1111/mec.13784

Naive Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy
journal, June 2007

  • Wang, Q.; Garrity, G. M.; Tiedje, J. M.
  • Applied and Environmental Microbiology, Vol. 73, Issue 16
  • DOI: 10.1128/AEM.00062-07

Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
journal, June 2010

  • Caporaso, J. G.; Lauber, C. L.; Walters, W. A.
  • Proceedings of the National Academy of Sciences, Vol. 108, Issue Supplement_1
  • DOI: 10.1073/pnas.1000080107

Temporal Dynamics of In-Field Bioreactor Populations Reflect the Groundwater System and Respond Predictably to Perturbation
journal, February 2017

  • King, Andrew J.; Preheim, Sarah P.; Bailey, Kathryn L.
  • Environmental Science & Technology, Vol. 51, Issue 5
  • DOI: 10.1021/acs.est.6b04751

Environmental Whole-Genome Amplification To Access Microbial Populations in Contaminated Sediments
journal, May 2006


Resistance, resilience, and redundancy in microbial communities
journal, August 2008

  • Allison, S. D.; Martiny, J. B. H.
  • Proceedings of the National Academy of Sciences, Vol. 105, Issue Supplement 1
  • DOI: 10.1073/pnas.0801925105

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

A simplified dehydrogenase enzyme assay in contaminated sediment using 2-(p-iodophenyl)-3(p-nitrophenyl)-5-phenyl tetrazolium chloride
journal, June 2003

  • Mosher, Jennifer J.; Levison, Bruce S.; Johnston, Carl G.
  • Journal of Microbiological Methods, Vol. 53, Issue 3
  • DOI: 10.1016/S0167-7012(02)00251-8

Bacterial and thermochemical sulfate reduction in diagenetic settings — old and new insights
journal, April 2001


Phylogenetic and Functional Biomakers as Indicators of Bacterial Community Responses to Mixed-Waste Contamination
journal, April 2006

  • Fields, M. W.; Bagwell, C. E.; Carroll, S. L.
  • Environmental Science & Technology, Vol. 40, Issue 8
  • DOI: 10.1021/es051748q

Unraveling assembly of stream biofilm communities
journal, January 2012

  • Besemer, Katharina; Peter, Hannes; Logue, Jürg B.
  • The ISME Journal, Vol. 6, Issue 8
  • DOI: 10.1038/ismej.2011.205

Search and clustering orders of magnitude faster than BLAST
journal, August 2010


Mineralogical characterization of saprolite at the FRC background site in Oak Ridge, Tennessee
journal, December 2008


Novosphingobium pentaromativorans sp. nov., a high-molecular-mass polycyclic aromatic hydrocarbon-degrading bacterium isolated from estuarine sediment
journal, September 2004

  • Sohn, J. H.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 54, Issue 5
  • DOI: 10.1099/ijs.0.02945-0

Scalable production of microbially mediated zinc sulfide nanoparticles and application to functional thin films
journal, October 2014


Biofilms: the matrix revisited
journal, January 2005


A New Deterministic Spatio-Temporal Continuum Model for Biofilm Development
journal, January 2001

  • Eberl, Herman J.; Parker, David F.; Van Loosdrecht, Mark C. M.
  • Journal of Theoretical Medicine, Vol. 3, Issue 3
  • DOI: 10.1080/10273660108833072

Biochar-carrying hydrocarbon decomposers promote degradation during the early stage of bioremediation
journal, January 2016

  • Galitskaya, Polina; Akhmetzyanova, Leisan; Selivanovskaya, Svetlana
  • Biogeosciences, Vol. 13, Issue 20
  • DOI: 10.5194/bg-13-5739-2016

Natural Bacterial Communities Serve as Quantitative Geochemical Biosensors
journal, May 2015


A permeable reactive barrier for the bioremediation of BTEX-contaminated groundwater: Microbial community distribution and removal efficiencies
journal, June 2010


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


Sediminibacterium ginsengisoli sp. nov., isolated from soil of a ginseng field, and emended descriptions of the genus Sediminibacterium and of Sediminibacterium salmoneum
journal, May 2012

  • Kim, Y. -J.; Nguyen, N. -L.; Weon, H. -Y.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 63, Issue Pt 3
  • DOI: 10.1099/ijs.0.038554-0

Sediminibacterium aquarii sp. nov., isolated from sediment in a fishbowl
journal, November 2016

  • Kim, Yonghoon; Kim, Bobae; Kang, Keunsoo
  • International Journal of Systematic and Evolutionary Microbiology, Vol. 66, Issue 11
  • DOI: 10.1099/ijsem.0.001380

The Electron Transfer System of Syntrophically Grown Desulfovibrio vulgaris
journal, July 2009

  • Walker, C. B.; He, Z.; Yang, Z. K.
  • Journal of Bacteriology, Vol. 191, Issue 18
  • DOI: 10.1128/JB.00356-09

Change in Bacterial Community Structure during In Situ Biostimulation of Subsurface Sediment Cocontaminated with Uranium and Nitrate
journal, August 2004


Natural attenuation and enhanced bioremediation of organic contaminants in groundwater
journal, June 2005


Microbial interactions and community assembly at microscales
journal, June 2016


QIIME allows analysis of high-throughput community sequencing data
journal, April 2010

  • Caporaso, J. Gregory; Kuczynski, Justin; Stombaugh, Jesse
  • Nature Methods, Vol. 7, Issue 5
  • DOI: 10.1038/nmeth.f.303

Comparison of free-living and particle-associated bacterial communities in a coastal Lagoon
journal, August 2003


Sediminibacterium goheungense sp. nov., isolated from a freshwater reservoir
journal, January 2014

  • Kang, H.; Kim, H.; Lee, B. -I.
  • INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 64, Issue Pt 4
  • DOI: 10.1099/ijs.0.055137-0

The ecology and biogeochemistry of stream biofilms
journal, March 2016

  • Battin, Tom J.; Besemer, Katharina; Bengtsson, Mia M.
  • Nature Reviews Microbiology, Vol. 14, Issue 4
  • DOI: 10.1038/nrmicro.2016.15

The biogeochemistry, stable isotope geochemistry, and microbial community structure of a temperate intertidal mudflat: an integrated study
journal, September 2000

  • Böttcher, Michael E.; Hespenheide, Britta; Llobet-Brossa, Enrique
  • Continental Shelf Research, Vol. 20, Issue 12-13
  • DOI: 10.1016/S0278-4343(00)00046-7

Microbial Community Responses to Organophosphate Substrate Additions in Contaminated Subsurface Sediments
journal, June 2014


Microorganisms pumping iron: anaerobic microbial iron oxidation and reduction
journal, October 2006

  • Weber, Karrie A.; Achenbach, Laurie A.; Coates, John D.
  • Nature Reviews Microbiology, Vol. 4, Issue 10, p. 752-764
  • DOI: 10.1038/nrmicro1490

Endogenous oxidative stress produces diversity and adaptability in biofilm communities
journal, August 2008

  • Boles, B. R.; Singh, P. K.
  • Proceedings of the National Academy of Sciences, Vol. 105, Issue 34
  • DOI: 10.1073/pnas.0801499105

Microbial Communities in Contaminated Sediments, Associated with Bioremediation of Uranium to Submicromolar Levels
journal, May 2008

  • Cardenas, E.; Wu, W. -M.; Leigh, M. B.
  • Applied and Environmental Microbiology, Vol. 74, Issue 12
  • DOI: 10.1128/AEM.02308-07

Functional Diversity and Electron Donor Dependence of Microbial Populations Capable of U(VI) Reduction in Radionuclide-Contaminated Subsurface Sediments
journal, March 2008

  • Akob, D. M.; Mills, H. J.; Gihring, T. M.
  • Applied and Environmental Microbiology, Vol. 74, Issue 10
  • DOI: 10.1128/AEM.02881-07

The Uncultured Microbial Majority
journal, October 2003


Comparative metagenomics reveals impact of contaminants on groundwater microbiomes
journal, October 2015