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Molecular & Cellular Proteomics 8:2159-2169, 2009.
© 2009 by The American Society for Biochemistry and Molecular Biology, Inc.

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Research

Differential Membrane Proteome Analysis Reveals Novel Proteins Involved in the Degradation of Aromatic Compounds in Geobacter metallireducens^*,

Dimitri Heintz^,, Sébastien Gallien^,¶, Simon Wischgoll^||, Anja Kerstin Ullmann^**, Christine Schaeffer^¶, Antje Karen Kretzschmar^**, Alain van Dorsselaer^¶ and Matthias Boll^||,

From the Institut de Biologie Moléculaire des Plantes, CNRS-UPR2357, Université Louis-Pasteur, 67083 Strasbourg, France,
||Institute of Biochemistry, University of Leipzig, 04103 Leipzig, Germany,
**RNomics group, Fraunhofer Institut für Zelltherapie und Immunologie, 04103 Leipzig, Germany, and
¶Laboratoire de spectrométrie de masse BioOrganique, Institut Pluridisciplinaire Hubert Curien-Département Sciences Analytiques et Interactions Ioniques et Biomoléculaires, Université Louis-Pasteur, CNRS UMR7178, 25 rue Becquerel, 67087 Strasbourg, France

Aromatic compounds comprise a large class of natural and man-made compounds, many of which are of considerable concern for the environment and human health. In aromatic compound-degrading anaerobic bacteria the central intermediate of aromatic catabolism, benzoyl coenzyme A, is attacked by dearomatizing benzoyl-CoA reductases (BCRs). An ATP-dependent BCR has been characterized in facultative anaerobes. In contrast, a previous analysis of the soluble proteome from the obligately anaerobic model organism Geobacter metallireducens identified genes putatively coding for a completely different dearomatizing BCR. The corresponding BamBCDEFGHI complex is predicted to comprise soluble molybdenum or tungsten, selenocysteine, and FeS cluster-containing components. To elucidate key processes involved in the degradation of aromatic compounds in obligately anaerobic bacteria, differential membrane protein abundance levels from G. metallireducens grown on benzoate and acetate were determined by the MS-based spectral counting approach. A total of 931 proteins were identified by combining one-dimensional sodium dodecyl sulfate-polyacrylamide gel electrophoresis with liquid chromatography-tandem mass spectrometry. Several membrane-associated proteins involved in the degradation of aromatic compounds were newly identified including proteins with similarities to modules of NiFe/heme b-containing and energy-converting hydrogenases, cytochrome bd oxidases, dissimilatory nitrate reductases, and a tungstate ATP-binding cassette transporter system. The transcriptional regulation of differentially expressed genes was analyzed by quantitative reverse transcription-PCR; in addition benzoate-induced in vitro activities of hydrogenase and nitrate reductase were determined. The results obtained provide novel insights into the poorly understood degradation of aromatic compounds in obligately anaerobic bacteria.

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