Metabolic interdependencies between phylogenetically novel fermenters and respiratory organisms in an unconfined aquifer

[1]  Brian C. Thomas,et al.  Small Genomes and Sparse Metabolisms of Sediment-Associated Bacteria from Four Candidate Phyla , 2013, mBio.

[2]  Kenneth H. Williams,et al.  Extraordinary phylogenetic diversity and metabolic versatility in aquifer sediment , 2013, Nature Communications.

[3]  Brian C. Thomas,et al.  The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria , 2013, eLife.

[4]  Brian C. Thomas,et al.  Community genomic analyses constrain the distribution of metabolic traits across the Chloroflexi phylum and indicate roles in sediment carbon cycling , 2013, Microbiome.

[5]  Christopher S. Miller,et al.  Fluctuations in Species-Level Protein Expression Occur during Element and Nutrient Cycling in the Subsurface , 2013, PloS one.

[6]  Brian C. Thomas,et al.  Time series community genomics analysis reveals rapid shifts in bacterial species, strains, and phage during infant gut colonization , 2013, Genome research.

[7]  A. Martiny,et al.  Phylogenetic Distribution of Potential Cellulases in Bacteria , 2012, Applied and Environmental Microbiology.

[8]  Brian C. Thomas,et al.  Biostimulation induces syntrophic interactions that impact C, S and N cycling in a sediment microbial community , 2012, The ISME Journal.

[9]  A. Desai,et al.  Modelling contrasting responses of wetland productivity to changes in water table depth , 2012 .

[10]  Brian C. Thomas,et al.  Fermentation, Hydrogen, and Sulfur Metabolism in Multiple Uncultivated Bacterial Phyla , 2012, Science.

[11]  R. Gunsalus,et al.  Genomic insights into syntrophy: the paradigm for anaerobic metabolic cooperation. , 2012, Annual review of microbiology.

[12]  T. Urich,et al.  Organic carbon transformations in high-Arctic peat soils: key functions and microorganisms , 2012, The ISME Journal.

[13]  Sergi Molins,et al.  Timing the onset of sulfate reduction over multiple subsurface acetate amendments by measurement and modeling of sulfur isotope fractionation. , 2012, Environmental science & technology.

[14]  K. Williams,et al.  High-density PhyloChip profiling of stimulated aquifer microbial communities reveals a complex response to acetate amendment. , 2012, FEMS microbiology ecology.

[15]  Jared R. Leadbetter,et al.  Analysis of Extensive [FeFe] Hydrogenase Gene Diversity Within the Gut Microbiota of Insects Representing Five Families of Dictyoptera , 2012, Microbial Ecology.

[16]  A. Eiler,et al.  Distinct and diverse anaerobic bacterial communities in boreal lakes dominated by candidate division OD1 , 2012, The ISME Journal.

[17]  W. Brazelton,et al.  Metagenomic Evidence for H2 Oxidation and H2 Production by Serpentinite-Hosted Subsurface Microbial Communities , 2012, Front. Microbio..

[18]  Thomas S. Bianchi,et al.  The role of terrestrially derived organic carbon in the coastal ocean: A changing paradigm and the priming effect , 2011, Proceedings of the National Academy of Sciences.

[19]  Yilin Fang,et al.  Variably saturated flow and multicomponent biogeochemical reactive transport modeling of a uranium bioremediation field experiment. , 2011, Journal of contaminant hydrology.

[20]  J. C. Thrash,et al.  Evidence for Direct Electron Transfer by a Gram-Positive Bacterium Isolated from a Microbial Fuel Cell , 2011, Applied and Environmental Microbiology.

[21]  B. Engelen,et al.  Induction of prophages from deep-subseafloor bacteria. , 2011, Environmental microbiology reports.

[22]  W. J. Riley,et al.  Barriers to predicting changes in global terrestrial methane fluxes: analyses using CLM4Me, a methane biogeochemistry model integrated in CESM , 2011 .

[23]  D. Lovley,et al.  Molecular Analysis of the Metabolic Rates of Discrete Subsurface Populations of Sulfate Reducers , 2011, Applied and Environmental Microbiology.

[24]  James A. Davis,et al.  Acetate Availability and its Influence on Sustainable Bioremediation of Uranium-Contaminated Groundwater , 2011 .

[25]  Radhakrishnan Mahadevan,et al.  Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments , 2011, The ISME Journal.

[26]  Stephen J. Callister,et al.  Development of a biomarker for Geobacter activity and strain composition; Proteogenomic analysis of the citrate synthase protein during bioremediation of U(VI) , 2010, Microbial biotechnology.

[27]  Derek R Lovley,et al.  The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments. , 2010, BMC Genomics.

[28]  P. Jardine,et al.  Denitrifying Bacteria Isolated from Terrestrial Subsurface Sediments Exposed to Mixed-Waste Contamination , 2010, Applied and Environmental Microbiology.

[29]  Harold L. Drake,et al.  Hitherto Unknown [Fe-Fe]-Hydrogenase Gene Diversity in Anaerobes and Anoxic Enrichments from a Moderately Acidic Fen , 2010, Applied and Environmental Microbiology.

[30]  P. D’haeseleer,et al.  Targeted Discovery of Glycoside Hydrolases from a Switchgrass-Adapted Compost Community , 2010, PloS one.

[31]  A. Rosato,et al.  A systematic investigation of multiheme c-type cytochromes in prokaryotes , 2010, JBIC Journal of Biological Inorganic Chemistry.

[32]  K. Weber,et al.  Completed Genome Sequence of the Anaerobic Iron-Oxidizing Bacterium Acidovorax ebreus Strain TPSY , 2009, Journal of bacteriology.

[33]  Brian C. Thomas,et al.  Community-wide analysis of microbial genome sequence signatures , 2009, Genome Biology.

[34]  M. Adams,et al.  The Iron-Hydrogenase of Thermotoga maritima Utilizes Ferredoxin and NADH Synergistically: a New Perspective on Anaerobic Hydrogen Production , 2009, Journal of bacteriology.

[35]  M. Rivett,et al.  Nitrate attenuation in groundwater: a review of biogeochemical controlling processes. , 2008, Water research.

[36]  E. Jayamani,et al.  Energy Conservation via Electron-Transferring Flavoprotein in Anaerobic Bacteria , 2007, Journal of bacteriology.

[37]  P. Vignais,et al.  Occurrence, classification, and biological function of hydrogenases: an overview. , 2007, Chemical reviews.

[38]  D. Moreira,et al.  Archaeal and bacterial community composition of sediment and plankton from a suboxic freshwater pond. , 2007, Research in microbiology.

[39]  P. Bork,et al.  Prediction of effective genome size in metagenomic samples , 2007, Genome Biology.

[40]  K. Weber,et al.  Microorganisms pumping iron: anaerobic microbial iron oxidation and reduction , 2006, Nature Reviews Microbiology.

[41]  A. Roychoudhury,et al.  Redox pathways in a petroleum contaminated shallow sandy aquifer: Iron and sulfate reductions. , 2006, The Science of the total environment.

[42]  Hideki Harada,et al.  Anaerolinea thermolimosa sp. nov., Levilinea saccharolytica gen. nov., sp. nov. and Leptolinea tardivitalis gen. nov., sp. nov., novel filamentous anaerobes, and description of the new classes Anaerolineae classis nov. and Caldilineae classis nov. in the bacterial phylum Chloroflexi. , 2006, International journal of systematic and evolutionary microbiology.

[43]  P. Richardson,et al.  The Genome Sequence of the Obligately Chemolithoautotrophic, Facultatively Anaerobic Bacterium Thiobacillus denitrificans , 2006, Journal of bacteriology.

[44]  T. Casavant,et al.  Isolation and characterization of autotrophic, hydrogen-utilizing, perchlorate-reducing bacteria , 2005, Applied Microbiology and Biotechnology.

[45]  R. Amann,et al.  The genome of Desulfotalea psychrophila, a sulfate-reducing bacterium from permanently cold Arctic sediments. , 2004, Environmental microbiology.

[46]  Jonathan P Zehr,et al.  Nitrogenase gene diversity and microbial community structure: a cross-system comparison. , 2003, Environmental microbiology.

[47]  C. Friedrich,et al.  Oxidation of Reduced Inorganic Sulfur Compounds by Bacteria: Emergence of a Common Mechanism? , 2001, Applied and Environmental Microbiology.

[48]  R. Chakraborty,et al.  Anaerobic benzene oxidation coupled to nitrate reduction in pure culture by two strains of Dechloromonas , 2001, Nature.

[49]  Jürgen K. Friedel,et al.  Review of mechanisms and quantification of priming effects. , 2000 .

[50]  M. Teixeira,et al.  Characterization of a heme c nitrite reductase from a non-ammonifying microorganism, Desulfovibrio vulgaris Hildenborough. , 2000, Biochimica et biophysica acta.

[51]  B. Jørgensen,et al.  Psychrophilic sulfate-reducing bacteria isolated from permanently cold arctic marine sediments: description of Desulfofrigus oceanense gen. nov., sp. nov., Desulfofrigus fragile sp. nov., Desulfofaba gelida gen. nov., sp. nov., Desulfotalea psychrophila gen. nov., sp. nov. and Desulfotalea arctica s , 1999, International journal of systematic bacteriology.

[52]  W. Whitman,et al.  Prokaryotes: the unseen majority. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[53]  W. Liesack,et al.  Elemental Sulfur and Thiosulfate Disproportionation by Desulfocapsa sulfoexigens sp. nov., a New Anaerobic Bacterium Isolated from Marine Surface Sediment , 1998, Applied and Environmental Microbiology.

[54]  B. Averill Dissimilatory Nitrite and Nitric Oxide Reductases. , 1996, Chemical reviews.

[55]  K. Finster,et al.  Bacterial Disproportionation of Elemental Sulfur Coupled to Chemical Reduction of Iron or Manganese , 1993, Applied and environmental microbiology.

[56]  P. Vandamme,et al.  DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. , 2007, International journal of systematic and evolutionary microbiology.