Proteogenomic Monitoring of Geobacter Physiology during Stimulated Uranium Bioremediation

• DOI: 10.1128/aem.01064-09
• Publication Date: 2009-08-29T01:32:18Z
• Authors: Michael J. Wilkins; Nathan C. VerBerk...; Kenneth H. Williams; Stephen J. Callister; Paula J. Mouser; Hila Elifantz; A. Lucie N′Guessan; Brian C. Thomas; Carrie D. Nicora; Manesh B. Shah; Paul Abraham; Mary S. Lipton; Derek R. Lovley; Robert L. Hettich; Philip E. Long; Jillian F. Banfield
• Keywords: Proteogenomics; Geobacter; Biostimulation; Proteome

ABSTRACT Implementation of uranium bioremediation requires methods for monitoring the membership and activities subsurface microbial communities that are responsible reduction soluble U(VI) to insoluble U(IV). Here, we report a proteomics-based approach simultaneously documenting strain physiology dominant Geobacter community members during in situ acetate amendment U-contaminated Rifle, CO, aquifer. Three planktonic -dominated samples were obtained from two wells down-gradient addition. Over 2,500 proteins each these identified by matching liquid chromatography-tandem mass spectrometry spectra peptides predicted seven isolate genomes. Genome-specific indicate early proliferation multiple M21 bemidjiensis -like strains later possible emergence G. more closely related lovleyi . Throughout biostimulation, proteome is dominated enzymes convert acetyl-coenzyme A pyruvate central metabolism, while abundant tricarboxylic acid cycle ATP synthase subunits also detected, indicating importance energy generation period rapid growth following start biostimulation. Evolving composition may be linked changes protein abundance over course biostimulation reflect metabolic functioning. Thus, metagenomics-independent proteogenomics can used diagnose status consortia upon which remediation biotechnology relies.