@article {3143,
	title = {Fluctuations in species-level protein expression occur during element and nutrient cycling in the subsurface.},
	journal = {PLoS One},
	volume = {8},
	year = {2013},
	month = {2013},
	pages = {e57819},
	abstract = {<p>While microbial activities in environmental systems play a key role in the utilization and cycling of essential elements and compounds, microbial activity and growth frequently fluctuates in response to environmental stimuli and perturbations. To investigate these fluctuations within a saturated aquifer system, we monitored a carbon-stimulated in situ Geobacter population while iron reduction was occurring, using 16S rRNA abundances and high-resolution tandem mass spectrometry proteome measurements. Following carbon amendment, 16S rRNA analysis of temporally separated samples revealed the rapid enrichment of Geobacter-like environmental strains with strong similarity to G. bemidjiensis. Tandem mass spectrometry proteomics measurements suggest high carbon flux through Geobacter respiratory pathways, and the synthesis of anapleurotic four carbon compounds from acetyl-CoA via pyruvate ferredoxin oxidoreductase activity. Across a 40-day period where Fe(III) reduction was occurring, fluctuations in protein expression reflected changes in anabolic versus catabolic reactions, with increased levels of biosynthesis occurring soon after acetate arrival in the aquifer. In addition, localized shifts in nutrient limitation were inferred based on expression of nitrogenase enzymes and phosphate uptake proteins. These temporal data offer the first example of differing microbial protein expression associated with changing geochemical conditions in a subsurface environment.</p>},
	keywords = {Biomass, Carbon, Environment, Gene Expression Regulation, Bacterial, Geobacter, Groundwater, Humic Substances, Iron, Oxidation-Reduction, Phosphates, Plankton, Proteomics, RNA, Ribosomal, 16S, Tandem Mass Spectrometry, Uranium, Vanadium, Water Microbiology},
	issn = {1932-6203},
	doi = {10.1371/journal.pone.0057819},
	author = {Wilkins, Michael J and Wrighton, Kelly C and Nicora, Carrie D and Williams, Kenneth H and McCue, Lee Ann and Handley, Kim M and Miller, Chris S and Giloteaux, Ludovic and Montgomery, Alison P and Lovley, Derek R and Banfield, Jillian F and Long, Philip E and Lipton, Mary S}
}
@article {430,
	title = {In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling.},
	journal = {Nat Rev Microbiol},
	volume = {9},
	year = {2011},
	month = {2011 Jan},
	pages = {39-50},
	abstract = {There is a wide diversity of unexplored metabolism encoded in the genomes of microorganisms that have an important environmental role. Genome-scale metabolic modelling enables the individual reactions that are encoded in annotated genomes to be organized into a coherent whole, which can then be used to predict metabolic fluxes that will optimize cell function under a range of conditions. In this Review, we summarize a series of studies in which genome-scale metabolic modelling of Geobacter spp. has resulted in an in-depth understanding of their central metabolism and ecology. A similar iterative modelling and experimental approach could accelerate elucidation of the physiology and ecology of other microorganisms inhabiting a diversity of environments, and could guide optimization of the practical applications of these species.},
	keywords = {Computer Simulation, Environment, Gene Expression Regulation, Bacterial, Genome, Bacterial, Geobacter, Models, Biological},
	issn = {1740-1534},
	doi = {10.1038/nrmicro2456},
	author = {Mahadevan, Radhakrishnan and Palsson, Bernhard {\O} and Lovley, Derek R}
}
@article {1216,
	title = {Microbe-metal interactions in marine hydrothermal environments.},
	journal = {Curr Opin Chem Biol},
	volume = {7},
	year = {2003},
	month = {2003 Apr},
	pages = {160-5},
	abstract = {<p>Marine hydrothermal microorganisms respond rapidly to changes in the concentrations and availability of metals within their environment. Hyperthermophilic archaea appear to possess novel mechanisms for metal detoxification, dissimilatory metal reduction and metal assimilation that may be absent in their mesophilic and bacterial counterparts. For example, tungsten was found in high concentrations in a hydrothermal sulfide deposit where hyperthermophiles were also most abundant, consistent with the unique requirement of these organisms for this element. Furthermore, newly isolated genera of iron-reducing hyperthermophiles expand the scope of carbon cycling in hydrothermal environments. The advent of genome sequences and new molecular techniques will facilitate our further understanding of microbe-mineral interactions in these environments.</p>},
	keywords = {Archaea, Bacteria, Environment, Marine Biology, Metals, Seawater, Temperature},
	issn = {1367-5931},
	author = {Holden, James F and Adams, Michael W W}
}
@article {608,
	title = {Novel forms of anaerobic respiration of environmental relevance.},
	journal = {Curr Opin Microbiol},
	volume = {3},
	year = {2000},
	month = {2000 Jun},
	pages = {252-6},
	abstract = {Novel forms of anaerobic respiration continue to be discovered. Many of these are environmentally significant as they have important impacts on the fate of organic carbon and the cycling of many inorganic compounds. Furthermore, anaerobic respiration is becoming increasing recognized as a strategy for the remediation of organic and metal contaminants in the subsurface.},
	keywords = {Anaerobiosis, Bacteria, Anaerobic, Environment, Industrial Microbiology, Industrial Waste},
	issn = {1369-5274},
	author = {Lovley, D R and Coates, J D}
}
