Proteome analysis of Pseudomonas sp. K82 biodegradation pathways

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Abstract
Pseudomonas sp. K82 is a soil bacterium that can degrade and use monocyclic aromatic compounds including aniline, 3‐methylaniline, 4‐methylaniline, benzoate and p‐hydroxybenzoate as its sole carbon and energy sources. In order to understand the impact of these aromatic compounds on metabolic pathways in Pseudomonas sp. K82, proteomes obtained from cultures exposed to different substrates were displayed by two‐dimensional gel electrophoresis and were compared to search for differentially induced metabolic enzymes. Column separations of active fractions were performed to identify major biodegradation enzymes. More than thirty proteins involved in biodegradation and other types of metabolism were identified by electrospray ionization‐quadrupole time of flight mass spectrometry. The proteome analysis suggested that Pseudomonas sp. K82 has three main metabolic pathways to degrade these aromatic compounds and induces specific metabolic pathways for each compound. The catechol 2,3‐dioxygenase (CD2,3) pathway was the major pathway and the catechol 1,2‐dioxygenase (β‐ketoadipate) pathway was the secondary pathway induced by aniline (aniline analogues) exposure. On the other hand, the catechol 1,2‐dioxygenase pathway was the major pathway induced by benzoate exposure. For the degradation of p‐hydroxybenzoate, the protocatechuate 4,5‐dioxygenase pathway was the major degradation pathway induced. The nuclear magnetic resonance analysis of substrates demonstrated that Pseudomonas sp. K82 metabolizes some aromatic compounds more rapidly than others (benzoate > p‐hydroxybenzoate > aniline) and that when combined, p‐hydroxybenzoate metabolism is repressed by the presence of benzoate or aniline. These results suggest that proteome analysis can be useful in the high throughput study of bacterial metabolic pathways, including that of biodegradation, and that inter‐relationships exist with respect to the metabolic pathways of aromatic compounds in Pseudomonas sp. K82.

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