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Field Microbiology

Environmental MicrobiologyResearchers in ENIGMA’s Field Microbiology component work with microbial communities in the environment to investigate how biological structure and function relate to critical biochemical conditions/changes, such as the immobilization of toxic metals and the flow of carbon and nitrogen. The goal is to identify key microbial populations and determine the community events and mechanisms of these populations that impact and control environmental activities of interest, ultimately predicting how perturbations of the environment may affect community structure. From these results, models will be developed using various bioinformatic tools (e.g., AdaptML, random matrix theory, multivariate statistics) that can be applied to microbial populations overlaid with geochemical parameters and engineering controls.

Current efforts include optimizing omics protocols for environmental samples, and designing efficient field sampling studies that maximize the geochemical diversity of study sites, and enhance the associations between microbial communities and key geochemical features. To this end, researchers in ENIGMA’s Field Microbiology component have developed a Monte Carlo search algorithm to optimize site selection for geochemical diversity. A search is now underway for 100 wells where metagenomic analyses can be performed in cooperation with a relevant existing program at Oak Ridge National Laboratory.

Field Microbiology Team

  • Fields, Matthew
    Fields, Matthew
    Deputy Director Environmental Microbiology [email protected] (406) 994-7340
  • Chakraborty Romy
    Chakraborty, Romy
    Principle Investigator [email protected] (510) 486-4091
  • Hazen Terry
    Hazen, Terry
    Director, Environmental Microbiology [email protected] (707) 631-6763
  • Elias Dwayne, PHD
    Elias, Dwayne
    Principal Investigator [email protected] (865) 574-0956
  • Zhou Jizhong Joe
    Zhou, Jizhong (Joe)
    Principal Investigator [email protected] (405) 325-6073
  • Pseudomonasstutzeri_RCH2_Chakraborty
    Complete genome sequence of Pseudomonas stutzeri...
    February 8, 2017–Dr. Chakraborty and a team of ENIGMA researchers have...
  • Bioreactors_Elias2
    Temporal Dynamics of In-Field Bioreactor Populations...
    January 24, 2017–A collaboration of researchers at Johns Hopkins University, Colorado...
  • Predicting-metabolic-properties-using-dynamic-substrate-preference (1)
    Predicting metabolic properties using dynamic substrate...
    January 23, 2017–Exometabolomic profiling was used to examine the time-varying substrate...
  • UraniumBindingComplex_Pelosinus_Adams
    Uranium binding complex a potential tool...
    December 3, 2016–Widespread uranium contamination from industrial sources poses hazards to...
  • Biosensor_RochaHazen1
    Rapid Detection of Microbial Cell Abundance...
    November 15, 2016–(A) Overview of approach. To provide proof of principle,...
  • DigitalDropletDisplacementAmplification_Singh
    Digital Droplet Multiple Displacement Amplification
    May 31, 2016–Fig. 1. The working principles of ddMDA. The ddMDA...
  • concecptual-model-of-subsurface-reactions
    Preferential oxidation of microbial-mediated reduced sulfur...
    April 2, 2016–Reoxidation and mobilization of previously reduced and immobilized uranium...
  • Comparisons of phylogenetic groups
    Comparative metagenomics reveals impact of contaminants...
    October 31, 2015–Significant portions of natural groundwater reserves have been contaminated...
  • 2015_RochaPoster
    Andrea Rocha is featured in DOE’s...
    October 6, 2015–Andrea Rocha is featured in DOE’s online Women @...
  • Potential Role of Acetyl-CoA
    Potential Role of Acetyl-CoA Synthetase (acs)...
    August 20, 2015–Elliott P. Barnhart1,2,3, Marcella A. McClure1, Kiki Johnson1, Sean...
  • CoExtraction_DNA_PLFA_Soil_Hazen
    Differences in diversity between extraction techniques
    August 1, 2015–ENIGMA researchers at University of Tennessee Knoxville examined differences...
  • Smith_Rocha1
    Bacterial Communities As Precise Biosensors Of...
    May 11, 2015–ENIGMA scientists show that DNA from natural bacterial communities...