J. Fredrickson

发表

Sphingomonas and related genera

D. Balkwill, J. Fredrickson, M. Romine, 2003 .

Feedback-controlled LED photobioreactor for photophysiological studies of cyanobacteria.

Grigoriy E. Pinchuk, A. Konopka, J. Fredrickson, 2013, Bioresource technology.

Microbes deep inside the earth.

T. Onstott, J. Fredrickson, 1996 .

Towards environmental systems biology of Shewanella

Grigoriy E. Pinchuk, T. Gardner, J. Reed, 2008, Nature Reviews Microbiology.

Role of outer‐membrane cytochromes MtrC and OmcA in the biomineralization of ferrihydrite by Shewanella oneidensis MR‐1

B. Arey, A. Dohnalkova, J. Fredrickson, 2010, Geobiology.

Microbes deep inside the earth.

T. Onstott, J. Fredrickson, 1996, Scientific American.

Differential Label-free Quantitative Proteomic Analysis of Shewanella oneidensis Cultured under Aerobic and Suboxic Conditions by Accurate Mass and Time Tag Approach*S

Ronald J. Moore, Stephen J. Callister, Richard D. Smith, 2006, Molecular & Cellular Proteomics.

Single-cell imaging and spectroscopic analyses of Cr(VI) reduction on the surface of bacterial cells.

H. P. Lu, J. Fredrickson, Liang Shi, 2013, Langmuir : the ACS journal of surfaces and colloids.

Localized electron transfer rates and microelectrode-based enrichment of microbial communities within a phototrophic microbial mat

D. Call, H. Beyenal, J. Fredrickson, 2014, Front. Microbiol..

Electrically conductive bacterial nanowires produced by Shewanella oneidensis strain MR-1 and other microorganisms.

Alice Dohnalkova, In Seop Chang, Byung Hong Kim, 2006, Proceedings of the National Academy of Sciences of the United States of America.

Preparation and evaluation of spore-specific affinity-augmented bio-imprinted beads

Richard M. Ozanich, Scott D. Harvey, Nancy B. Valentine, 2006, Analytical and bioanalytical chemistry.

Global analysis of the Deinococcus radiodurans proteome by using accurate mass tags

Ronald J Moore, Gordon A Anderson, Rui Zhao, 2002, Proceedings of the National Academy of Sciences of the United States of America.

Manganese sulfide formation via concomitant microbial manganese oxide and thiosulfate reduction.

Samantha B. Reed, Ji-Hoon Lee, A. Dohnalkova, 2011, Environmental microbiology.

Microbial reductive transformation of phyllosilicate Fe(III) and U(VI) in fluvial subsurface sediments.

A. Konopka, Ji-Hoon Lee, R. Kukkadapu, 2012, Environmental science & technology.

Vertical stratification of subsurface microbial community composition across geological formations at the Hanford Site.

A. Konopka, J. Fredrickson, D. Kennedy, 2012, Environmental microbiology.

Fe(II)- and sulfide-facilitated reduction of 99Tc(VII)O4− in microbially reduced hyporheic zone sediments

Ji-Hoon Lee, S. Heald, J. Fredrickson, 2014 .

Functional roles of CymA and NapC in reduction of nitrate and nitrite by Shewanella putrefaciens W3-18-1.

Jizhong Zhou, K. Nealson, J. Tiedje, 2016, Microbiology.

Protein oxidation: key to bacterial desiccation resistance?

James K Fredrickson, M. Daly, J. Scholten, 2008, The ISME Journal.

Control of Proteobacterial Central Carbon Metabolism by the HexR Transcriptional Regulator

Andrei L Osterman, Dmitry A Rodionov, James K Fredrickson, 2011, The Journal of Biological Chemistry.

Develop the Knowledgebase, Computational Meth- Ods, and Capabilities to Advance Understanding and Prediction of Complex Biological Systems Computing Infrastructure, Bioinformatics, and Data Management 112 Center Blockinfor Blockincomputational Blockinbiology Blockinat Blockinthe Blockinuniversity Bl

Grigoriy E. Pinchuk, K. Nealson, M. Leuze, 2022 .

An Empirical Strategy for Characterizing Bacterial Proteomes across Species in the Absence of Genomic Sequences

Stephen J. Callister, M. Lipton, J. Fredrickson, 2010, PloS one.

In situ imaging of microorganisms in geologic material.

T. Onstott, K. Tobin, M. Deflaun, 1999, Journal of microbiological methods.

Genome Sequence of the Thermophilic Cyanobacterium Thermosynechococcus sp. Strain NK55a

Zhenfeng Liu, L. Tomsho, S. Schuster, 2014, Genome Announcements.

Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations.

Gordon A Anderson, John R Yates, Monica Riley, 2005, Proceedings of the National Academy of Sciences of the United States of America.

Predicting Species-Resolved Macronutrient Acquisition during Succession in a Model Phototrophic Biofilm Using an Integrated ‘Omics Approach

Stephen R. Lindemann, Margaret F. Romine, Ronald C. Taylor, 2017, Front. Microbiol..

Bacterial reduction of crystalline Fe3+ oxides in single phase suspensions and subsurface materials

Steven C. Smith, J. Fredrickson, J. Zachara, 1998 .

The Influence of Microbial Activity and Sedimentary Organic Carbon on the Isotope Geochemistry of the Middendorf Aquifer

H. W. Bledsoe, J. A. Schramke, J. Fredrickson, 1992 .

Induction of aromatic catabolic activity in Sphingomonas aromaticivorans strain F199

J. Fredrickson, M. Romine, S.M.A. Li, 1999, Journal of Industrial Microbiology and Biotechnology.

Availability of 15N-Labeled Nitrogen in Fertilizer and in Wheat Straw to Wheat in Tilled and No-Till Soil1

H. Cheng, J. Fredrickson, F. E. Koehler, 1982 .

Biofilm shows spatially stratified metabolic responses to contaminant exposure.

S. Kjelleberg, B. Cao, H. Beyenal, 2012, Environmental microbiology.

An autotrophic H2 -oxidizing, nitrate-respiring, Tc(VII)-reducing Acidovorax sp. isolated from a subsurface oxic-anoxic transition zone.

Ji-Hoon Lee, A. Dohnalkova, J. Fredrickson, 2015, Environmental microbiology reports.

Environmental processes mediated by iron-reducing bacteria.

J. Fredrickson, Y. Gorby, 1996, Current opinion in biotechnology.

Autonomous Device for Evaluating the Field Performance of Microbial Fuel Cells in Remote Areas

H. Beyenal, J. Fredrickson, S. Lindemann, 2017 .

Multi-Scale Mass Transfer Processes Controlling Natural Attenuation and Engineered Remediation: An IFRC Focused on Hanford’s 300 Area Uranium Plume

C. Zheng, Y. Rubin, R. Haggerty, 2007 .

Spatial and temporal dynamics of the microbial community in the Hanford unconfined aquifer

R. Knight, C. Lauber, A. Konopka, 2012, The ISME Journal.

Immobilization of U(VI) from oxic groundwater by Hanford 300 Area sediments and effects of Columbia River water.

B. Cao, H. Beyenal, J. Fredrickson, 2012, Water research.

Multi-Scale Mass Transfer Processes Controlling Natural Attenuation and Engineered Remediation: An IFRC Focused on Hanford’s 300 Area Uranium Plume January 2011 to January 2012

C. Zheng, Y. Rubin, R. Haggerty, 2012 .

Sustained H2 Production Driven by Photosynthetic Water Splitting in a Unicellular Cyanobacterium

Grigoriy E. Pinchuk, A. Konopka, J. Fredrickson, 2012, mBio.

Dissimilatory Reduction of Fe(III) and Other Electron Acceptors by a Thermus Isolate

S. W. Li, T. Kieft, T. Onstott, 1999, Applied and Environmental Microbiology.

Reduction of Fe(III), Cr(VI), U(VI), and Tc(VII) byDeinococcus radiodurans R1

S. W. Li, M. Daly, J. Fredrickson, 2000, Applied and Environmental Microbiology.

Pore‐size constraints on the activity and survival of subsurface bacteria in a late cretaceous shale‐sandstone sequence, northwestern New Mexico

R. M. Lehman, P. Long, T. Phelps, 1997 .

Diel metabolomics analysis of a hot spring chlorophototrophic microbial mat leads to new hypotheses of community member metabolisms

Jason M. Wood, D. M. Ward, T. Metz, 2015, Front. Microbiol..

Molecular analysis of deep subsurface Cretaceous rock indicates abundant Fe(III)- and S(zero)-reducing bacteria in a sulfate-rich environment.

F. Brockman, W. Holben, J. Fredrickson, 2006, Environmental microbiology.

Biotransformation of two-line silica-ferrihydrite by a dissimilatory Fe(III)-reducing bacterium: Formation of carbonate green rust in the presence of phosphate

R. Kukkadapu, J. Fredrickson, J. Zachara, 2004 .

Reduction of U(VI) in goethite (α-FeOOH) suspensions by a dissimilatory metal-reducing bacterium

S. W. Li, J. Fredrickson, J. Zachara, 2000 .

Influence of Mn oxides on the reduction of uranium(VI) by the metal-reducing bacterium Shewanella putrefaciens

A. Dohnalkova, J. Fredrickson, J. Zachara, 2002 .

Geomicrobial Processes and Biodiversity in the Deep Terrestrial Subsurface

D. Balkwill, J. Fredrickson, 2006 .

Integrating Ecological and Engineering Concepts of Resilience in Microbial Communities

J. Fredrickson, S. Lindemann, Hyun‐Seob Song, 2015, Front. Microbiol..

Systems Biology Knowledgebase for a New Era in Biology A Genomics:GTL Report from the May 2008 Workshop

Rick L. Stevens, R. Stevens, J. Fredrickson, 2009 .

Inference of interactions in cyanobacterial–heterotrophic co-cultures via transcriptome sequencing

Hans C. Bernstein, Grigoriy E. Pinchuk, A. Konopka, 2014, The ISME Journal.

Deterministic influences exceed dispersal effects on hydrologically‐connected microbiomes

E. Graham, J. Stegen, J. Fredrickson, 2017, Environmental microbiology.

Genomic distribution of B-vitamin auxotrophy and uptake transporters in environmental bacteria from the Chloroflexi phylum.

A. Osterman, A. Konopka, D. Rodionov, 2015, Environmental microbiology reports.

Nitrogen Source Governs Community Carbon Metabolism in a Model Hypersaline Benthic Phototrophic Biofilm

Jamie R. Nuñez, M. Lipton, K. Hofmockel, 2020, mSystems.

The epsomitic phototrophic microbial mat of Hot Lake, Washington: community structural responses to seasonal cycling

S. Tringe, S. Malfatti, Feng Chen, 2013, Front. Microbiol..

Electron donor-dependent radionuclide reduction and nanoparticle formation by Anaeromyxobacter dehalogenans strain 2CP-C.

R. Sanford, Sara H. Thomas, F. Löffler, 2009, Environmental microbiology.

Colonization of Winter Wheat Roots by Inhibitory Rhizobacteria

L. F. Elliott, J. Fredrickson, 1985 .

Reduction and long-term immobilization of technetium by Fe(II) associated with clay mineral nontronite

S. Heald, D. Jaisi, J. Fredrickson, 2009 .

Oxidative Dissolution Potential of Biogenic and Abiogenic TcO2 in Subsurface Sediments

S. Heald, J. Fredrickson, J. Zachara, 2009 .

Development of radiographic and microscopic techniques for the characterization of bacterial transport in intact sediment cores from Oyster, Virginia.

T. Onstott, M. Deflaun, J. Fredrickson, 1999, Journal of microbiological methods.

Post-Sampling Changes in Microbial Community Composition and Activity in a Subsurface Paleosol

S. W. Li, F. Brockman, T. Kieft, 1998, Microbial Ecology.

Targeted quantification of functional enzyme dynamics in environmental samples for microbially mediated biogeochemical processes

W. Nelson, W. Qian, Yuqian Gao, 2017, Environmental microbiology reports.

Purification and characterization of a novel 3-chlorobenzoate-reductive dehalogenase from the cytoplasmic membrane of Desulfomonile tiedjei DCB-1

S. Ni, J. Fredrickson, L. Xun, 1995, Journal of bacteriology.

Aerobic metabolic potential of microbial populations indigenous to deep subsurface environments

J. Fredrickson, R. J. Hicks, 1989 .

Plasmid Incidence in Bacteria from Deep Subsurface Sediments

S. W. Li, F. Brockman, J. Fredrickson, 1988, Applied and environmental microbiology.

Reductive biotransformation of Fe in shale-limestone saprolite containing Fe(III) oxides and Fe(II)/Fe(III) phyllosilicates

Steven C. Smith, R. Kukkadapu, J. Fredrickson, 2006 .

Biogeochemical transformation of Fe minerals in a petroleum-contaminated aquifer

R. Kukkadapu, A. Dohnalkova, J. Fredrickson, 2004 .

Purification and Characterization of a Novel 3-Chlorobenzoate-Reductive Dehalogenase from the Cytoplasmic Membrane of Desulfomonile tiedjei DCB-1 SHUISONG NI

L. Xun, J. Fredrickson, 1995 .

Effects of soluble flavin on heterogeneous electron transfer between surface-exposed bacterial cytochromes and iron oxides

D. Richardson, J. Fredrickson, J. Zachara, 2015 .

A trans-outer membrane porin-cytochrome protein complex for extracellular electron transfer by Geobacter sulfurreducens PCA

D. R. Bond, D. Richardson, K. Rosso, 2014, Environmental microbiology reports.

Rapid electron exchange between surface-exposed bacterial cytochromes and Fe(III) minerals

D. Richardson, A. Dohnalkova, J. Fredrickson, 2013, Proceedings of the National Academy of Sciences.

Redox reactions of reduced flavin mononucleotide (FMN), riboflavin (RBF), and anthraquinone-2,6-disulfonate (AQDS) with ferrihydrite and lepidocrocite.

J. Fredrickson, J. Zachara, D. Kennedy, 2012, Environmental science & technology.

Ferrous phosphate surface precipitates resulting from the reduction of intragrain 6-line ferrihydrite by Shewanella oneidensis MR-1

Chong-Min Wang, B. Arey, A. Dohnalkova, 2010 .

Metal Reduction and Iron Biomineralization by a Psychrotolerant Fe(III)-Reducing Bacterium, Shewanella sp. Strain PV-4

Jizhong Zhou, H. Vali, Zamin-K. Yang, 2006, Applied and Environmental Microbiology.

Letter: Ferrous hydroxy carbonate is a stable transformation product of biogenic magnetite

R. Kukkadapu, J. Fredrickson, J. Zachara, 2005 .

Dissimilatory bacterial reduction of Al-substituted goethite in subsurface sediments

Steven C. Smith, R. Kukkadapu, J. Fredrickson, 2001 .

Solubilization of Fe(III) oxide-bound trace metals by a dissimilatory Fe(III) reducing bacterium

Steven C. Smith, J. Fredrickson, J. Zachara, 2001 .

Isolation and characterization of quinoline-degrading bacteria from subsurface sediments

F. Brockman, J. Fredrickson, R. J. Hicks, 1989, Applied and environmental microbiology.

Bacteria associated with deep, alkaline, anaerobic groundwaters in Southeast Washington

J. Fredrickson, T. Stevens, J. Mckinley, 2004, Microbial Ecology.

The effect of biogenic Fe(II) on the stability and sorption of Co(II)EDTA2− to goethite and a subsurface sediment

Steven C. Smith, J. Fredrickson, J. Zachara, 2000 .

Phylogenetic and physiological diversity of Arthrobacter strains isolated from unconsolidated subsurface sediments.

D. Balkwill, D. White, D. Ringelberg, 2000, Microbiology.

Isolation and characterization of RNA from low-biomass deep-subsurface sediments

F. Brockman, J. Fredrickson, W. Sun, 1995, Applied and environmental microbiology.

Electron transfer at the microbe–mineral interface: a grand challenge in biogeochemistry

J. Fredrickson, J. Zachara, 2008, Geobiology.

Self-Exchange Electron Transfer Kinetics and Reduction Potentials for Anthraquinone Disulfonate

K. Rosso, J. Fredrickson, Zhemin Wang, 2004 .

Deterministic influences exceed dispersal effects on hydrologically-connected microbiomes

E. Graham, J. Stegen, J. Fredrickson, 2017, bioRxiv.

Deterministic assembly processes govern seasonal and spatial variation in microbiomes across hydrologically-connected hyporheic zones

E. Graham, J. Stegen, J. Fredrickson, 2016 .

The roles of CymA in support of the respiratory flexibility of Shewanella oneidensis MR-1.

D. Richardson, D. G. McMillan, J. Fredrickson, 2012, Biochemical Society transactions.

Influence of Electron Donor/Acceptor Concentrations on Hydrous Ferric Oxide (HFO) Bioreduction

R. Kukkadapu, J. Fredrickson, J. Zachara, 2003, Biodegradation.

Structure of a bacterial cell surface decaheme electron conduit

John M. Zachara, Matthew J. Marshall, Julea N. Butt, 2011, Proceedings of the National Academy of Sciences.

Microbial Redox Proteins and Protein Complexes for Extracellular Respiration

M. Tien, K. Rosso, J. Fredrickson, 2015 .

The X‐ray crystal structure of Shewanella oneidensis OmcA reveals new insight at the microbe–mineral interface

D. Richardson, A. Johs, L. Liang, 2014, FEBS letters.

Biotic and abiotic reduction and solubilization of Pu(IV)O₂•xH₂O(am) as affected by anthraquinone-2,6-disulfonate (AQDS) and ethylenediaminetetraacetate (EDTA).

V. Bailey, E. Buck, S. Heald, 2012, Environmental science & technology.

Development of a proteoliposome model to probe transmembrane electron-transfer reactions.

D. Richardson, A. Dohnalkova, J. Fredrickson, 2012, Biochemical Society transactions.

Exploring the biochemistry at the extracellular redox frontier of bacterial mineral Fe(III) respiration.

D. Richardson, J. Fredrickson, J. Zachara, 2012, Biochemical Society transactions.

A functional description of CymA, an electron-transfer hub supporting anaerobic respiratory flexibility in Shewanella.

J. Bye, D. Richardson, D. G. McMillan, 2012, The Biochemical journal.

Analysis of structural MtrC models based on homology with the crystal structure of MtrF.

D. Richardson, J. Fredrickson, J. Zachara, 2012, Biochemical Society transactions.

Microbiological Comparison of Core and Groundwater Samples Collected from a Fractured Basalt Aquifer with that of Dialysis Chambers Incubated In Situ

R. M. Lehman, T. Kieft, A. Reysenbach, 2004 .

Generation of Hydrogen Gas as a Result of Drilling Within the Saturated Zone

P. Long, J. Fredrickson, T. Stevens, 1994 .

Kinetics of microbial reduction of Solid phase U(VI).

Byong-Hun Jeon, A. Dohnalkova, J. Fredrickson, 2006, Environmental science & technology.

3D Reconstruction of Bacterial Cells Provides Basis for Modeling their Cellular Processes and Molecular Networks

Mark H. Ellisman, Alice Dohnalkova, Mason R. Mackey, 2003, Microscopy and Microanalysis.

Isolation and Characterization of a Subsurface Bacterium Capable of Growth on Toluene, Naphthalene, and Other Aromatic Compounds

S. W. Li, F. Brockman, J. Fredrickson, 1991, Applied and environmental microbiology.

Biogeochemical cycling at the aquatic–terrestrial interface is linked to parafluvial hyporheic zone inundation history

E. Graham, J. Stegen, J. Fredrickson, 2017 .

Conserved synteny at the protein family level reveals genes underlying Shewanella species’ cold tolerance and predicts their novel phenotypes

E. Uberbacher, K. Nealson, M. Land, 2009, Functional & Integrative Genomics.

Electrically conductive bacterial nanowires produced by Shewanella oneidensis strain MR-1 and other microorganisms (Proceedings of the National Academy of Sciences of the United States of America (2006) 103, 30, (11358-11363) DOI 10.1073/pnas.0604517103)

Alice Dohnalkova, Kenneth H. Nealson, David W. Kennedy, 2009 .

The Roles of Outer Membrane Cytochromes of Shewanella and Geobacter in Extracellular Electron Transfer

S. Kerisit, D. Richardson, K. Rosso, 2010 .

Shewanella loihica sp. nov., isolated from iron-rich microbial mats in the Pacific Ocean.

Jizhong Zhou, K. Nealson, Haichun Gao, 2006, International journal of systematic and evolutionary microbiology.

Carbon cycling at the aquatic-terrestrial interface is linked to parafluvial hyporheic zone inundation history

E. Graham, J. Stegen, J. Fredrickson, 2017 .

Microbial Reduction of Structural Fe(III) in Illite and Goethite

R. Kukkadapu, J. Fredrickson, J. Zachara, 2003 .

Field calibration of soil-core microcosms: Fate of a genetically altered rhizobacterium

John M. Thomas, H. Bolton, J. Fredrickson, 1991, Microbial Ecology.

Enumeration of Tn5 mutant bacteria in soil by using a most- probable-number-DNA hybridization procedure and antibiotic resistance

S. W. Li, F. Brockman, D. Bezdicek, 1988, Applied and environmental microbiology.

Field calibration of soil-core microcosms: Ecosystem structural and functional comparisons

Jeffrey L. Smith, John M. Thomas, H. Bolton, 1991, Microbial Ecology.

Environmental restoration using plant-microbe bioaugmentation

R. Seidler, J. Fredrickson, F. Metting, 1993 .

Drilling, Coring, and Sampling Subsurface Environments

T. Phelps, T. Kieft, J. Fredrickson, 2008 .

Bacterial reduction of crystalline Fe3+ oxides in single phase suspensions and subsurface materials

Steven C. Smith, J. Fredrickson, J. Zachara, 1998 .

Physical mapping and characterization of a catabolic plasmid from the deep-subsurface bacterium Sphingomonas sp. strain F199

S. J. Thurston, J. Saffer, R. Schneider, 1995, Journal of bacteriology.

Extracellular Reduction of Hexavalent Chromium by Cytochromes MtrC and OmcA of Shewanella oneidensis MR-1

Yuehe Lin, Hong Wu, H. P. Lu, 2011, Applied and Environmental Microbiology.

Direct and Indirect Reduction of Cr(VI) by Fermentative Fe(III)-Reducing Cellulomonas sp. Strain Cellu-2a

H. Hur, J. Fredrickson, Anamika Khanal, 2021, Journal of microbiology and biotechnology.

Nonlocal bacterial electron transfer to hematite surfaces

Steven C. Smith, K. Rosso, J. Fredrickson, 2003 .

Microbial reduction of intragrain U(VI) in contaminated sediment.

Byong-Hun Jeon, L. Zhong, S. Heald, 2009, Environmental science & technology.

Biogeochemistry of anaerobic lacustrine and paleosol sediments within an aerobic unconfined aquifer

Steven C. Smith, J. Fredrickson, J. Zachara, 1997 .

Electron transport at the microbe-mineral interface: a synthesis of current research challenges.

D. Richardson, J. Fredrickson, J. Zachara, 2012, Biochemical Society transactions.

Identification and Characterization of UndAHRCR-6, an Outer Membrane Endecaheme c-Type Cytochrome of Shewanella sp. Strain HRCR-6

A. Dohnalkova, J. Fredrickson, J. Zachara, 2011, Applied and Environmental Microbiology.

Direct Involvement of Type II Secretion System in Extracellular Translocation of Shewanella oneidensis Outer Membrane Cytochromes MtrC and OmcA

H. Mottaz, D. Richardson, A. Dohnalkova, 2008, Journal of bacteriology.

Ogram A, Sun W, Brockman FJ, Fredrickson JK.. Isolation and characterization of RNA from low-biomass deep-subsurface sediments. Appl Environ Microbiol 61: 763-768

F. Brockman, J. Fredrickson, A. Ogram, 1995 .

Global detection and characterization of hypothetical proteins in Shewanella oneidensis MR‐1 using LC‐MS based proteomics

Matthew E Monroe, Gordon A Anderson, James K Fredrickson, 2005, Proteomics.

Biogenic formation of photoactive arsenic-sulfide nanotubes by Shewanella sp. strain HN-41

Takhee Lee, N. Myung, H. Hur, 2007, Proceedings of the National Academy of Sciences.

Modeling the Inhibition of the Bacterial Reduction of U(VI) by β-MnO2(s)

A. Dohnalkova, J. Fredrickson, J. Zachara, 2002 .

Accumulation of Mn(II) in Deinococcus radiodurans Facilitates Gamma-Radiation Resistance

K. Makarova, M. Daly, L. Wackett, 2004, Science.

Transformation of 2-line ferrihydrite to 6-line ferrihydrite under oxic and anoxic conditions

Steven C. Smith, R. Kukkadapu, A. Dohnalkova, 2003 .

Persistence of uranium groundwater plumes: contrasting mechanisms at two DOE sites in the groundwater-river interaction zone.

John Bargar, Chongxuan Liu, K. Williams, 2013, Journal of contaminant hydrology.

Inhibition of bacterial U(VI) reduction by calcium.

Scott Fendorf, Scott C Brooks, James K Fredrickson, 2003, Environmental science & technology.

Isolation and characterization of a Geobacillus thermoleovorans strain from an ultra-deep South African gold mine.

D. Balkwill, E. van Heerden, T. Onstott, 2007, Systematic and applied microbiology.

Engineering Deinococcus geothermalis for Bioremediation of High-Temperature Radioactive Waste Environments

James K. Fredrickson, Michael J. Daly, Hassan Brim, 2003, Applied and Environmental Microbiology.

NMR methods for in situ biofilm metabolism studies.

Kevin R Minard, Grigoriy E. Pinchuk, James K Fredrickson, 2005, Journal of microbiological methods.

Mineral transformations associated with the microbial reduction of magnetite

T. Onstott, R. Kukkadapu, J. Fredrickson, 2000 .

Reduction of TcO4- by sediment-associated biogenic Fe(II)

John M. Zachara, David W. Kennedy, Steve M. Heald, 2004 .

Evaluate and characterize mechanisms controlling transport, fate and effects of Army smokes in the aerosol wind tunnel: Transport, transformations, fate, and terrestrial ecological effects of red phosphorus-butyl rubber and white phosphorus obscurant smokes: Final report

M. W. Ligotke, B. L. Thomas, James K. Fredrickson, 1987 .

Respiration of metal (hydr)oxides by Shewanella and Geobacter: a key role for multihaem c-type cytochromes

J. Fredrickson, J. Zachara, Liang Shi, 2007, Molecular microbiology.

Complete Sequence of a 184-Kilobase Catabolic Plasmid from Sphingomonas aromaticivorans F199

S. J. Thurston, C. Sensen, T. Gaasterland, 1999, Journal of bacteriology.

Aromatic-degrading Sphingomonas isolates from the deep subsurface

D. Balkwill, G. R. Drake, D. White, 1995, Applied and environmental microbiology.

Biomineralization of Poorly Crystalline Fe(III) Oxides by Dissimilatory Metal Reducing Bacteria (DMRB)

Steven C. Smith, R. Kukkadapu, J. Fredrickson, 2002 .

BIOGENIC IRON MINERALIZATION ACCOMPANYING THE DISSIMILATORY REDUCTION OF HYDROUS FERRIC OXIDE BY A GROUNDWATER BACTERIUM

T. Onstott, J. Fredrickson, J. Zachara, 1998 .

Ecology, physiology, and phylogeny of deep subsurface Sphingomonas sp

D. Balkwill, J. Fredrickson, M. Romine, 1999, Journal of Industrial Microbiology and Biotechnology.

Taxonomic study of aromatic-degrading bacteria from deep-terrestrial-subsurface sediments and description of Sphingomonas aromaticivorans sp. nov., Sphingomonas subterranea sp. nov., and Sphingomonas stygia sp. nov.

D. Balkwill, G. R. Drake, D. White, 1997, International journal of systematic bacteriology.

Extracellular electron transfer mechanisms between microorganisms and minerals

Hanqing Yu, H. Beyenal, J. Fredrickson, 2016, Nature Reviews Microbiology.

Influence of smoke exposure on soil enzyme activities and nitrification

M. W. Ligotke, S. W. Li, P. Voris, 1988, Biology and Fertility of Soils.

Current Production and Metal Oxide Reduction by Shewanella oneidensis MR-1 Wild Type and Mutants

Anna Obraztsova, Kenneth H. Nealson, Margaret F. Romine, 2007, Applied and Environmental Microbiology.

Trends and future challenges in sampling the deep terrestrial biosphere

Lee D Peterson, T. Phelps, T. Kieft, 2014, Front. Microbiol..

Effect of Starvation on Induction of Quinoline Degradation for a Subsurface Bacterium in a Continuous-Flow Column

F. Brockman, J. Fredrickson, M. Truex, 1992, Applied and environmental microbiology.

Vertical and Horizontal Variations in the Physiological Diversity of the Aerobic Chemoheterotrophic Bacterial Microflora in Deep Southeast Coastal Plain Subsurface Sediments

J. M. Thomas, D. Balkwill, J. Fredrickson, 1989, Applied and environmental microbiology.

Lithotrophic and Heterotrophic Bacteria in Deep Subsurface Sediments and Their Relation to Sediment Properties

J. M. Thomas, S. W. Li, J. Fredrickson, 1989 .

THE EFFECT OF SORPTION ON THE DEGRADATION OF AROMATIC ACIDS AND BASES

J. Fredrickson, 2005 .

Microbiology of vadose zone paleosols in south-central Washington State

F. Brockman, P. Long, T. Kieft, 1992, Microbial Ecology.

Advancing understanding of microbial bioenergy conversion processes by activity-based protein profiling

Yun Liu, James K. Fredrickson, Richard D. Smith, 2015, Biotechnology for Biofuels.

A mixture experiment approach for controlling the dissolution rate of a sustained-release tablet.

J. Fredrickson, J K Fredrickson, J. Geoffroy, 1998, Drug development and industrial pharmacy.

Geo- and biogeochemical processes in a heliothermal hypersaline lake

M. Bowden, J. Fredrickson, J. Zachara, 2016 .

Protein Oxidation Implicated as the Primary Determinant of Bacterial Radioresistance

Bruce Ravel, Barry Lai, James K Fredrickson, 2007, PLoS biology.

Impairment of transposon-induced mutants of Rhizobium leguminosarum

F. Brockman, D. Bezdicek, J. Fredrickson, 1991 .

Harnessing the Periplasm of Bacterial Cells To Develop Biocatalysts for the Biosynthesis of Highly Pure Chemicals

Hua Wang, Yichao Wu, Lin Guo, 2017, Applied and Environmental Microbiology.

Reductive Dissolution of PuO2(am): The Effect of Fe(II) and Hydroquinone

J. Fredrickson, Y. Gorby, D. Moore, 2002 .

Engineering Deinococcus radiodurans for metal remediation in radioactive mixed waste environments

K. Minton, M. Daly, L. Wackett, 2000, Nature Biotechnology.

Fe(III) Reduction and U(VI) Immobilization by Paenibacillus sp. Strain 300A, Isolated from Hanford 300A Subsurface Sediments

B. Cao, H. Beyenal, A. Dohnalkova, 2012, Applied and Environmental Microbiology.

Geomicrobiology of High-Level Nuclear Waste-Contaminated Vadose Sediments at the Hanford Site, Washington State

Fred J. Brockman, John M. Zachara, Margaret F. Romine, 2004, Applied and Environmental Microbiology.

Temporal Shifts in the Geochemistry and Microbial Community Structure of an Ultradeep Mine Borehole Following Isolation

F. Brockman, B. Baker, T. Phelps, 2003 .

Indigenous and contaminant microbes in ultradeep mines.

D C White, F. Brockman, R. Hoover, 2003, Environmental microbiology.

Deinococcus geothermalis: The Pool of Extreme Radiation Resistance Genes Shrinks

Mikhail S. Gelfand, Alla Lapidus, Alex Copeland, 2007, PloS one.

How radiation kills cells: survival of Deinococcus radiodurans and Shewanella oneidensis under oxidative stress.

Lawrence P Wackett, Kira S Makarova, Hassan Brim, 2005, FEMS microbiology reviews.

Characterization of radionuclide-chelating agent complexes found in low-level radioactive decontamination waste. Literature review

J. Campbell, H. Bolton, K. Cantrell, 1996 .

Groundwater–surface water mixing shifts ecological assembly processes and stimulates organic carbon turnover

W. Nelson, A. Konopka, W. Chrisler, 2015, Nature Communications.

Dynamics in microbial communities: unraveling mechanisms to identify principles

Allan Konopka, A. Konopka, J. Fredrickson, 2014, The ISME Journal.

Reduction of nitrate in Shewanella oneidensis depends on atypical NAP and NRF systems with NapB as a preferred electron transport protein from CymA to NapA

Samantha B. Reed, Jizhong Zhou, K. Nealson, 2009, The ISME Journal.

Gazing into the crystal ball : predicting the behavior of microbial consortia

Hans C. Bernstein, Hyun-Seob Song, Wenying Shou, 2016 .

Genomic reconstruction of Shewanella oneidensis MR-1 metabolism reveals a previously uncharacterized machinery for lactate utilization

A. Osterman, E. Dervyn, F. Collart, 2009, Proceedings of the National Academy of Sciences.

Quantifying community assembly processes and identifying features that impose them

A. Konopka, C. Murray, Xingyuan Chen, 2013, The ISME Journal.

Stochastic and deterministic assembly processes in subsurface microbial communities

A. Konopka, J. Stegen, J. Fredrickson, 2012, The ISME Journal.

Estimating and mapping ecological processes influencing microbial community assembly

A. Konopka, J. Stegen, J. Fredrickson, 2015, Front. Microbiol..

Hydrogenase- and outer membrane c-type cytochrome-facilitated reduction of technetium(VII) by Shewanella oneidensis MR-1.

Samantha B. Reed, A. Dohnalkova, J. Fredrickson, 2007, Environmental microbiology.

Systems biology and ecology of microbial mat communities

W. Inskeep, M. Klotz, M. Kühl, 2016 .

Utilization of DNA as a Sole Source of Phosphorus, Carbon, and Energy by Shewanella spp.: Ecological and Physiological Implications for Dissimilatory Metal Reduction

Grigoriy E. Pinchuk, K. Nealson, D. Culley, 2007, Applied and Environmental Microbiology.

The ‘porin–cytochrome’ model for microbe‐to‐mineral electron transfer

Liang Shi, D. Richardson, J. Fredrickson, 2012, Molecular microbiology.

Microbial Transformations of Radionuclides in the Subsurface

J. Fredrickson, A. Beliaev, M. Marshall, 2010 .

Characterization of an electron conduit between bacteria and the extracellular environment

Paul C Mills, Liang Shi, Ming Tien, 2009, Proceedings of the National Academy of Sciences.

Current Production and Metal Oxide Reduction by Shewanella oneidensis MR-1 Wild Type and Mutants

Samantha B. Reed, Jizhong Zhou, K. Nealson, 2008, Applied and Environmental Microbiology.

Isolation of a High-Affinity Functional Protein Complex between OmcA and MtrC: Two Outer Membrane Decaheme c-Type Cytochromes of Shewanella oneidensis MR-1

Baowei Chen, H. Mottaz, S. Ni, 2006, Journal of bacteriology.

Enzymology of Electron Transport: Energy Generation with Geochemical Consequences

J. Fredrickson, J. Zachara, T. DiChristina, 2005 .

Targeted protein degradation of outer membrane decaheme cytochrome MtrC metal reductase in Shewanella oneidensis MR-1 measured using biarsenical probe CrAsH-EDT(2).

Baowei Chen, Yijia Xiong, J. Fredrickson, 2011, Biochemistry.

Identification of iron-reducing Thermus strains as Thermus scotoductus

S. Macnaughton, T. Kieft, D. Balkwill, 2004, Extremophiles.

Kinetics of Reduction of Fe(III) Complexes by Outer Membrane Cytochromes MtrC and OmcA of Shewanella oneidensis MR-1

M. Dupuis, K. Rosso, S. Heald, 2008, Applied and Environmental Microbiology.

Colonization and degradation of oxidized bituminous and lignite coals by fungi

B. L. Thomas, J. Fredrickson, R. Bean, 1990, Journal of Industrial Microbiology.

Biosolubilization of low-rank coal by aTrametes versicolor siderophore-like product and other complexing agents

J. Fredrickson, J. Campbell, R. Bean, 1990, Journal of Industrial Microbiology.

Quantitative analysis of cell surface membrane proteins using membrane-impermeable chemical probe coupled with 18O labeling.

Ronald J. Moore, Richard D. Smith, M. Monroe, 2010, Journal of proteome research.

Coupling Spatiotemporal Community Assembly Processes to Changes in Microbial Metabolism

E. Graham, J. Stegen, J. Fredrickson, 2016, Front. Microbiol..

Deep gold mines of South Africa: windows into the subsurface biosphere

David Balkwill, Tullis C. Onstott, Tommy J. Phelps, 1997, Optics & Photonics.

Alkaliphilus transvaalensis gen. nov., sp. nov., an extremely alkaliphilic bacterium isolated from a deep South African gold mine.

T. Onstott, A. Dohnalkova, J. Fredrickson, 2001, International journal of systematic and evolutionary microbiology.

Terrestrial Subsurface Ecosystem

M. Wilkins, J. Fredrickson, 2015 .

Desulfotomaculum and Methanobacterium spp. Dominate a 4- to 5-Kilometer-Deep Fault

F. Brockman, B. Baker, D. Balkwill, 2005, Applied and Environmental Microbiology.

Microorganisms from deep, high temperature sandstones: constraints on microbial colonization

R. M. Lehman, F. S. Colwell, P. Long, 1997 .

Kinetic analysis of the bacterial reduction of goethite.

J. Fredrickson, J. Zachara, Chongxuan Liu, 2001, Environmental science & technology.

Nitrate bioreduction in redox-variable low permeability sediments.

C. Thompson, J. Fredrickson, J. Zachara, 2016, The Science of the total environment.

Geochemical and Microbial Community Attributes in Relation to Hyporheic Zone Geological Facies

W. Nelson, Timothy Scheibe, C. Murray, 2017, Scientific Reports.

Archaeal Diversity in Waters from Deep South African Gold Mines

Ken Takai, James K. Fredrickson, Tullis C. Onstott, 2001, Applied and Environmental Microbiology.

Ecological communities by design

James K Fredrickson, J. Fredrickson, 2015, Science.

Deinococcus radiodurans engineered for complete toluene degradation facilitates Cr(VI) reduction.

M. Daly, L. Wackett, J. Fredrickson, 2006, Microbiology.

Biogeochemical processes and microbial characteristics across groundwater-surface water boundaries of the Hanford Reach of the Columbia River.

A. Peacock, J. Fredrickson, D. Geist, 2003, Environmental science & technology.

A molecular comparison of culturable aerobic heterotrophic bacteria and 16S rDNA clones derived from a deep subsurface sediment

F. Brockman, D. Balkwill, G. R. Drake, 1997 .

Effect of PCR template concentration on the composition and distribution of total community 16S rDNA clone libraries

F. Brockman, D. Chandler, J. Fredrickson, 1997, Molecular ecology.

Genomic encyclopedia of sugar utilization pathways in the Shewanella genus

R. Overbeek, A. Osterman, K. Nealson, 2010, BMC Genomics.

Global Transcriptome Analysis of Shewanella oneidensis MR-1 Exposed to Different Terminal Electron Acceptors

K. H. Nealson, K. Nealson, J. Klappenbach, 2005, Journal of bacteriology.

Single-cell genomics reveals metabolic strategies for microbial growth and survival in an oligotrophic aquifer.

Cindy J. Castelle, R. Stepanauskas, A. Konopka, 2014, Microbiology.

Constraint-Based Model of Shewanella oneidensis MR-1 Metabolism: A Tool for Data Analysis and Hypothesis Generation

Jim K. Fredrickson, Andrei Osterman, Xiaolin Zhang, 2010, PLoS Comput. Biol..

Identification and Characterization of MtoA: A Decaheme c-Type Cytochrome of the Neutrophilic Fe(II)-Oxidizing Bacterium Sideroxydans lithotrophicus ES-1

M. Lipton, D. Richardson, E. Merkley, 2012, Front. Microbio..

Prediction of Neighbor-Dependent Microbial Interactions From Limited Population Data

Hans C. Bernstein, Souichiro Kato, S. Haruta, 2020, Frontiers in Microbiology.

Comparative systems biology across an evolutionary gradient within the Shewanella genus

K. Konstantinidis, J. Tiedje, K. Nealson, 2009, Proceedings of the National Academy of Sciences of the United States of America.

Phototrophic biofilm assembly in microbial-mat-derived unicyanobacterial consortia: model systems for the study of autotroph-heterotroph interactions

T. Metz, Young-Mo Kim, W. Chrisler, 2014, Front. Microbiol..

Evaluation of intact soil‐core microcosms for determining potential impacts on nutrient dynamics by genetically engineered microorganisms

S. W. Li, P. Voris, H. Bolton, 1990 .

Intact Soil-Core Microcosms for Evaluating the Fate and Ecological Impact of the Release of Genetically Engineered Microorganisms

S. W. Li, J. Fredrickson, P. Van Voris, 1989, Applied and environmental microbiology.

Isolation of Halobacterium salinarum retrieved directly from halite brine inclusions.

T. Onstott, J. Fredrickson, A. Ventosa, 2003, Environmental microbiology.

Phylogenetic Diversity of Archaea and Bacteria in a Deep Subsurface Paleosol

F. Brockman, D. Chandler, J. Fredrickson, 1998, Microbial Ecology.

Microbial ecology of the rhizosphere.

L. F. Elliott, H. Bolton, J. Fredrickson, 1992 .

Physiological Diversity and Distributions of Heterotrophic Bacteria in Deep Cretaceous Sediments of the Atlantic Coastal Plain

F. Brockman, D. Balkwill, J. Fredrickson, 1991, Applied and environmental microbiology.

Subsurface microbiology and biogeochemistry

M. Fletcher, J. Fredrickson, 2001 .

Shifts in archaeal communities associated with lithological and geochemical variations in subsurface Cretaceous rock.

F. Brockman, W. Holben, J. Fredrickson, 2003, Environmental microbiology.

Spatially tracking (13) C-labelled substrate (bicarbonate) accumulation in microbial communities using laser ablation isotope ratio mass spectrometry.

Hans C. Bernstein, J. Fredrickson, S. Lindemann, 2014, Environmental microbiology reports.

Molecular Underpinnings of Fe(III) Oxide Reduction by Shewanella Oneidensis MR-1

John M. Zachara, Kevin M. Rosso, Liang Shi, 2012, Front. Microbio..

Characterization of a toxin produced by a rhizobacterialPseudomonas sp. that inhibits wheat growth

L. F. Elliott, H. Bolton, J. Fredrickson, 1989, Plant and Soil.

Crop residues as substrate for host-specific inhibitory pseudomonads.

L. F. Elliott, J. Fredrickson, J. C. Engibous, 1987 .

Contribution of extracellular polymeric substances from Shewanella sp. HRCR-1 biofilms to U(VI) immobilization.

N. Isern, B. Cao, H. Beyenal, 2011, Environmental science & technology.

Hassan Brim , Amudhan Venkateswaran , Heather M . Radioactive Waste Environments Bioremediation of High-Temperature for Deinococcus geothermalis

M. Daly, J. Fredrickson, H. Brim, 2003 .

AMT tag approach to proteomic characterization of Deinococcus radiodurans and Shewanella oneidensis.

Matthew E Monroe, Gordon A Anderson, Nikola Tolic, 2005, Methods of biochemical analysis.

Development of a Vital Fluorescent Staining Method for Monitoring Bacterial Transport in Subsurface Environments

Brian J. Mailloux, James K. Fredrickson, Tullis C. Onstott, 2000, Applied and Environmental Microbiology.

Imaging Hydrated Microbial Extracellular Polymers: Comparative Analysis by Electron Microscopy

Edgar C. Buck, Kenneth H. Williams, Matthew J. Marshall, 2010, Applied and Environmental Microbiology.

Reductive dissolution of goethite and hematite by reduced flavins

J. Fredrickson, J. Zachara, Liang Shi, 2013 .

1 1 Reduction Kinetics of Fe ( III ) Complexes by Outer Membrane Cytochromes 2 MtrC and OmcA of Shewanella oneidensis MR-1 3 4 Running Title : Iron ( III ) reduction by cytochromes 5 6 7

M. Dupuis, K. Rosso, S. Heald, 2008 .

Pyruvate and Lactate Metabolism by Shewanella oneidensis MR-1 under Fermentation, Oxygen Limitation, and Fumarate Respiration Conditions

Grigoriy E. Pinchuk, J. Reed, A. Konopka, 2011, Applied and Environmental Microbiology.

Identification of diverse carbon utilization pathways in Shewanella oneidensis MR-1 via expression profiling.

Lee Anne McCue, T. Gardner, J. Fredrickson, 2007, Genome informatics. International Conference on Genome Informatics.

Influences of organic carbon speciation on hyporheic corridor biogeochemistry and microbial ecology

Rosalie K Chu, Evan V Arntzen, James K Fredrickson, 2018, Nature Communications.

Coupling among Microbial Communities, Biogeochemistry, and Mineralogy across Biogeochemical Facies

Micah D. Miller, A. Konopka, C. Murray, 2016, Scientific Reports.

Reduction kinetics of Fe(III), Co(III), U(VI), Cr(VI), and Tc(VII) in cultures of dissimilatory metal-reducing bacteria.

Chongxuan Liu, J. Fredrickson, J. Zachara, 2002, Biotechnology and bioengineering.

Effects on winter wheat seedling growth by toxin-producing rhizobacteria

L. F. Elliott, J. Fredrickson, J. K. Fredrickson, 1985, Plant and Soil.

Population structure of microbial communities associated with two deep, anaerobic, alkaline aquifers

D A Stahl, M Wagner, M. Wagner, 1997, Applied and environmental microbiology.

Biodegradation of polycyclic aromatic hydrocarbons by Sphingomonas strains isolated from the terrestrial subsurface

D. Balkwill, J. Fredrickson, T. Shi, 2001, Journal of Industrial Microbiology and Biotechnology.

The Role of Shewanella oneidensis MR-1 Outer Surface Structures in Extracellular Electron Transfer

Gary J. Vora, Matthew J. Marshall, Bradley R. Ringeisen, 2010 .

Oxygen-dependent autoaggregation in Shewanella oneidensis MR-1.

Grigoriy E. Pinchuk, B. A. Zakrajsek, J. Fredrickson, 2008, Environmental microbiology.

Groundwater Microbial Communities

J. Fredrickson, F. Colwell, J. Mckinley, 2006 .

c-Type Cytochrome-Dependent Formation of U(IV) Nanoparticles by Shewanella oneidensis

Liang Shi, Barry Lai, James K Fredrickson, 2006, PLoS biology.

Microscale geochemical gradients in Hanford 300 Area sediment biofilms and influence of uranium.

H. Nguyen, B. Cao, H. Beyenal, 2012, Water research.

Effect of Electron Donor and Solution Chemistry on Products of Dissimilatory Reduction of Technetium byShewanella putrefaciens

K. M. Krupka, S. W. Li, N. J. Hess, 2000, Applied and Environmental Microbiology.

Redox Linked Flavin Sites in Extracellular Decaheme Proteins Involved in Microbe-Mineral Electron Transfer.

D. Richardson, J. Fredrickson, J. Zachara, 2015, Scientific Reports.

In vivo identification of the outer membrane protein OmcA-MtrC interaction network in Shewanella oneidensis MR-1 cells using novel hydrophobic chemical cross-linkers.

G. Anderson, J. Bruce, J. Fredrickson, 2008, Journal of proteome research.

Microbial abundance and activities in relation to water potential in the vadose zones of arid and semiarid sites

Fred J. Brockman, Thomas L. Kieft, Bruce N. Bjornstad, 1993, Microbial Ecology.

Regulation of electron transfer processes affects phototrophic mat structure and activity

D. Call, H. Beyenal, J. Fredrickson, 2015, Front. Microbiol..

Influences of organic carbon speciation on hyporheic corridor biogeochemistry and microbial ecology

W. Nelson, A. Konopka, W. Chrisler, 2018, Nature Communications.

Evaluation of terrestrial microcosms for detection, fate, and survival analysis of genetically engineered microorganisms and their recombinant genetic material

R. Seidler, J. Fredrickson, 1989 .

Use of 16S rDNA clone libraries to study changes in a microbial community resulting from ex situ perturbation of a subsurface sediment

F. Brockman, D. Chandler, J. Fredrickson, 1997 .

A Global Perspective on the Microbial Abundance and Activity in the Deep Subsurface

Thomas L. Kieft, Tullis C. Onstott, David L. Balkwill, 1999 .

Groundwater flow and geochemistry in the Southeastern San Juan Basin: Implications for microbial transport and activity

T. Kieft, F. Phillips, J. Fredrickson, 1998 .

Microbial community structure and biogeochemistry of Miocene subsurface sediments: implications for long‐term microbial survival

F. Brockman, D. White, D. Ringelberg, 1995 .

Subsurface Microorganisms: Ecological significance

J. Fredrickson, 2003 .

M. Wagner, D. Stahl, B. Baker, 2003, Environmental microbiology.

Distribution of Microbial Biomass and Potential for Anaerobic Respiration in Hanford Site 300 Area Subsurface Sediment

A. Konopka, A. Peacock, J. Fredrickson, 2011, Applied and Environmental Microbiology.

Trade-offs between microbiome diversity and productivity in a stratified microbial mat

Hans C. Bernstein, Colin J. Brislawn, J. Jansson, 2016, The ISME Journal.

Index to Volume 38

J. Fredrickson, R. Mitchell, 1999, Microbial Ecology.

Effect of Water Chemistry and Hydrodynamics on Nitrogen Transformation Activity and Microbial Community Functional Potential in Hyporheic Zone Sediment Columns.

W. Nelson, L. Zhong, C. Thompson, 2017, Environmental science & technology.

Competitive reduction of pertechnetate (99TcO4-) by dissimilatory metal reducing bacteria and biogenic Fe(II).

S. Heald, A. Dohnalkova, J. Fredrickson, 2011, Environmental science & technology.

Anaerobic Microbial-Mineral Processes with Fe(III) Oxides: Experimental Considerations and Approaches

R. Kukkadapu, J. Fredrickson, J. Zachara, 2007 .

The influence of cultivation methods on Shewanella oneidensis physiology and proteome expression

Grigoriy E. Pinchuk, H. Mottaz, M. Lipton, 2007, Archives of Microbiology.

Mathematical Modeling of Extracellular Electron Transfer in Biofilms

A. Kuprat, H. Beyenal, C. Ivory, 2015 .

Modeling biofilms with dual extracellular electron transfer mechanisms.

A. Kuprat, H. Beyenal, C. Ivory, 2013, Physical chemistry chemical physics : PCCP.

Regulation-Structured Dynamic Metabolic Model Provides a Potential Mechanism for Delayed Enzyme Response in Denitrification Process

Timothy D. Scheibe, James C. Stegen, John M. Zachara, 2017, Front. Microbiol..

Genomic analyses of bacterial porin-cytochrome gene clusters

J. Fredrickson, J. Zachara, Liang Shi, 2014, Front. Microbiol..

Mtr extracellular electron-transfer pathways in Fe(III)-reducing or Fe(II)-oxidizing bacteria: a genomic perspective.

K. Rosso, J. Fredrickson, J. Zachara, 2012, Biochemical Society transactions.

Purification and Characterization of the [NiFe]-Hydrogenase ofShewanella oneidensis MR-1

A. Dohnalkova, J. Fredrickson, J. Zachara, 2019 .

Modeling Substrate Utilization, Metabolite Production, and Uranium Immobilization in Shewanella oneidensis Biofilms

Bin Cao, Haluk Beyenal, Ryan S. Renslow, 2017, Front. Environ. Sci..

Purification and Characterization of the [NiFe]-Hydrogenase of Shewanella oneidensis MR-1

S. Heald, A. Dohnalkova, J. Fredrickson, 2011, Applied and Environmental Microbiology.

Extracellular polymeric substances from Shewanella sp. HRCR-1 biofilms: characterization by infrared spectroscopy and proteomics.

Bin Cao, Haluk Beyenal, Liang Shi, 2011, Environmental microbiology.

Impacts of Shewanella oneidensis c‐type cytochromes on aerobic and anaerobic respiration

Samantha B. Reed, Jizhong Zhou, Yangyang Dong, 2010, Microbial biotechnology.

Involvement of a Membrane-Bound Class III Adenylate Cyclase in Regulation of Anaerobic Respiration in Shewanella oneidensis MR-1

Grigoriy E. Pinchuk, J. Fredrickson, A. Beliaev, 2009, Journal of bacteriology.

Microbial Reduction of Vitamin B12 by Shewanella alga Strain BrY with Subsequent Transformation of Carbon Tetrachloride

S. L. Woods, J. Fredrickson, Y. Gorby, 1997 .

High-affinity binding and direct electron transfer to solid metals by the Shewanella oneidensis MR-1 outer membrane c-type cytochrome OmcA.

Liang Shi, Michael F Hochella, James K Fredrickson, 2006, Journal of the American Chemical Society.

The role of multihaem cytochromes in the respiration of nitrite in Escherichia coli and Fe(III) in Shewanella oneidensis.

D. Richardson, J. Fredrickson, J. Zachara, 2008, Biochemical Society transactions.

Characterization of Shewanella oneidensis MtrC: a cell-surface decaheme cytochrome involved in respiratory electron transport to extracellular electron acceptors

D. Richardson, J. Fredrickson, J. Zachara, 2007, JBIC Journal of Biological Inorganic Chemistry.

Modeling the inhibition of the bacteral reduction of U(VI) by beta-MnO2(s).

A. Dohnalkova, J. Fredrickson, J. Zachara, 2002, Environmental Science and Technology.

Microbial and surface chemistry controls on reduction of synthetic Fe(III) oxide minerals by the dissimilatory iron‐reducing bacterium Shewanella alga

E. Roden, J. Fredrickson, J. Zachara, 1998 .

Mineral transformation associated with the microbial reductionof magnetite

T. Onstott, R. Kukkadapu, J. Fredrickson, 2000 .

Investigations of structure and metabolism within Shewanella oneidensis MR-1 biofilms.

James K Fredrickson, J. Fredrickson, M. Romine, 2008, Journal of microbiological methods.

Approaches to the assessment of injuries to soil arising from discharges of hazardous substances and oil: Type B, Technical information document

P. Voris, J. Fredrickson, D. A. Cataldo, 1987 .

Syntrophic anaerobic photosynthesis via direct interspecies electron transfer

M. Madigan, H. Beyenal, A. Dohnalkova, 2017, Nature Communications.

Microbiological Comparisons within and across Contiguous Lacustrine, Paleosol, and Fluvial Subsurface Sediments

F. Brockman, T. Phelps, T. Kieft, 1995, Applied and environmental microbiology.

Unlocking the Constraints of Cyanobacterial Productivity: Acclimations Enabling Ultrafast Growth

Hans C. Bernstein, Jason E. McDermott, James K. Fredrickson, 2016, mBio.

Effects of a lignin peroxidase-expressing recombinant, Streptomyces lividans TK23.1, on biogeochemical cycling and the numbers and activities of microorganisms in soil

H. Bolton, J. Fredrickson, D. Crawford, 1993, Applied and environmental microbiology.

Microbiological characteristics of pristine and contaminated deep vadose sediments from an arid region

Fred J. Brockman, Philip E. Long, Thomas L. Kieft, 1993 .

Molecular structure and free energy landscape for electron transport in the decahaem cytochrome MtrF.

Piotr Zarzycki, Liang Shi, Jochen Blumberger, 2012, Biochemical Society transactions.

Genome-Scale Modeling of Light-Driven Reductant Partitioning and Carbon Fluxes in Diazotrophic Unicellular Cyanobacterium Cyanothece sp. ATCC 51142

Jim K. Fredrickson, Andrei Osterman, Jennifer L. Reed, 2012, PLoS Comput. Biol..

Correction for Electrically conductive bacterial nanowires produced by Shewanella oneidensis strain MR-1 and other micro-organisms

Byung Hong Kim, Grigoriy E. Pinchuk, K. Nealson, 2009 .

Spectroscopy of Metabolically Active Microorganisms Using Non-Destructive Magic Angle Spinning

J. Hu, J. Fredrickson, J. McLean, 2004 .

Biotransformation of Ni-substituted hydrous ferric oxide by an Fe(III)-reducing bacterium.

R. Kukkadapu, J. Fredrickson, J. Zachara, 2001, Environmental science & technology.

The crystal structure of the extracellular 11-heme cytochrome UndA reveals a conserved 10-heme motif and defined binding site for soluble iron chelates.

D. Richardson, J. Fredrickson, J. Zachara, 2012, Structure.

Identification of c-type heme-containing peptides using nonactivated immobilized metal affinity chromatography resin enrichment and higher-energy collisional dissociation.

Ronald J. Moore, Richard D. Smith, M. Monroe, 2011, Analytical chemistry.

Comparative genomic reconstruction of transcriptional networks controlling central metabolism in the Shewanella genus

Inna Dubchak, Ross Overbeek, Andrei L Osterman, 2011, BMC Genomics.

The roles of outer membrane cytochromes of Shewanella and Geobacter in extracellular electron transfer.

Liang Shi, Kevin M Rosso, James K Fredrickson, 2009, Environmental microbiology reports.

Dynamic modeling of aerobic growth of Shewanella oneidensis. Predicting triauxic growth, flux distributions, and energy requirement for growth.

Doraiswami Ramkrishna, Hyun-Seob Song, Grigoriy E. Pinchuk, 2013, Metabolic engineering.

Validation of Shewanella oneidensis MR-1 small proteins by AMT tag-based proteome analysis.

Matthew E Monroe, Gordon A Anderson, Ruihua Fang, 2004, Omics : a journal of integrative biology.

Biogeochemical and geological significance of subsurface microbiology

M. Fletcher, J. Fredrickson, 2001 .

Biogenic Formation of As-S Nanotubes by Diverse Shewanella Strains

N. Myung, H. Hur, J. Fredrickson, 2009, Applied and Environmental Microbiology.

Confirmation of the expression of a large set of conserved hypothetical proteins in Shewanella oneidensis MR-1.

Richard D. Smith, M. Monroe, M. Lipton, 2006, Journal of microbiological methods.

Combined spectroscopic and topographic characterization of nanoscale domains and their distributions of a redox protein on bacterial cell surfaces.

Jeff McLean, Vasudevanpillai Biju, V. Biju, 2007, Langmuir : the ACS journal of surfaces and colloids.

A Green Sulfur Bacterium From Epsomitic Hot Lake, Washington, USA.

M. Madigan, A. Konopka, A. Dohnalkova, 2020, Canadian journal of microbiology.

Genome-assisted analysis of dissimilatory metal-reducing bacteria.

J. Fredrickson, M. Romine, 2005, Current opinion in biotechnology.

Optimization of solid growth medium for isolation and culture of microorganisms from the terrestrial subsurface

J. Fredrickson, T. Stevens, H. D. Watts, 1992 .

Approaches for Biological Hydrogen Production 97 Metabolomics and Fluxomics of Clostridium acetobutylicum Part 1 : Systems-Level Kinetic Flux Profiling Elucidates a Complete TCA Cycle

Grigoriy E. Pinchuk, H. Rabitz, J. Reed, 2010 .

Direct involvement of ombB, omaB, and omcB genes in extracellular reduction of Fe(III) by Geobacter sulfurreducens PCA

J. Fredrickson, J. Zachara, Liang Shi, 2015, Front. Microbiol..

High-Throughput 3D Visualization of Large Volumes at High Resolution by 3ViewTM

A. Dohnalkova, J. Fredrickson, D. Kennedy, 2010 .

Potential for preservation of halobacteria and their macromolecular constituents in brine inclusions from bedded salt deposits

Darrell P. Chandler, James K. Fredrickson, Tullis C. Onstott, 1997, Optics & Photonics.

Subsurface drilling and sampling

J. Fredrickson, 1997 .

Comparative genomics and functional analysis of rhamnose catabolic pathways and regulons in bacteria

Aaron A. Best, Dmitry A. Rodionov, James K. Fredrickson, 2013, Front. Microbiol..

Geochemical and Microbial Community Attributes in Relation to Hyporheic Zone Geological Facies

W. Nelson, Timothy Scheibe, C. Murray, 2017, Scientific Reports.

Breakthroughs in field‐scale bacterial transport

Timothy Scheibe, C. Murray, Jinsong Chen, 2001 .

Daylight-driven carbon exchange through a vertically structured microbial community

Hans C. Bernstein, M. Lipton, J. Fredrickson, 2023, Frontiers in Microbiology.

Primary and heterotrophic productivity relate to multikingdom diversity in a hypersaline mat

Hans C. Bernstein, Colin J. Brislawn, J. Fredrickson, 2017, FEMS microbiology ecology.

In situ effective diffusion coefficient profiles in live biofilms using pulsed‐field gradient nuclear magnetic resonance

H. Beyenal, J. Fredrickson, J. McLean, 2010, Biotechnology and bioengineering.

Comparative systems biology across an evolutionary gradient within the Shewanella genus

K. Konstantinidis, J. Tiedje, K. Nealson, 2009, Proceedings of the National Academy of Sciences.

A functional description of CymA, an electron-transfer hub supporting anaerobic respiratory flexibility in Shewanella.

D. Richardson, D. G. McMillan, J. Fredrickson, 2012, The Biochemical journal.

Systems biology and ecology of microbial mat communities

W. Inskeep, M. Klotz, M. Kühl, 2016 .

J . K . Fredrickson , T . C . Onstott , Y . A . Gorby

T. Kieft, T. Onstott, J. Fredrickson, 1998 .

Quantitative analysis of cell surface membrane proteins using membrane-impermeable chemical probe coupled with 18O labeling.

Ronald J. Moore, Richard D. Smith, M. Monroe, 2010, Journal of proteome research.

Characterization of an electron conduit between bacteria and the extracellular environment

M. Tien, D. Richardson, J. Fredrickson, 2009, Proceedings of the National Academy of Sciences.

Pyruvate and Lactate Metabolism by Shewanella oneidensis MR-1 under Fermentation, Oxygen Limitation, and Fumarate Respiration Conditions

Grigoriy E. Pinchuk, J. Reed, A. Konopka, 2011, Applied and Environmental Microbiology.

Complete sequence of a 184 kb catabolic plasmid from Sphingomonas aromaticivorans strain F199.

S. J. Thurston, C. Sensen, T. Gaasterland, 1999 .

Indirect Interspecies Regulation: Transcriptional and Physiological Responses of a Cyanobacterium to Heterotrophic Partnership

Hans C. Bernstein, Natalie C. Sadler, J. Jansson, 2017, mSystems.

Minimal Interspecies Interaction Adjustment (MIIA): Inference of Neighbor-Dependent Interactions in Microbial Communities

Jim K. Fredrickson, Stephen R. Lindemann, Hans C. Bernstein, 2019, Front. Microbiol..

Engineering microbial consortia for controllable outputs

Hans C. Bernstein, M. Fields, Wenying Shou, 2016, The ISME Journal.

Electron donor-dependent radionuclide reduction and nanoparticle formation by Anaeromyxobacter dehalogenans strain 2CP-C.

R. Sanford, Sara H. Thomas, F. Löffler, 2009, Environmental microbiology.

Correction for Gorby et al., Electrically conductive bacterial nanowires produced by Shewanella oneidensis strain MR-1 and other microorganisms

Grigoriy E. Pinchuk, Samantha B. Reed, Kazuya Watanabe, 2009, Proceedings of the National Academy of Sciences.