Publications

• Glutarate semialdehyde dehydrogenase of Pseudomonas. Purification, properties, and relation to L-lysine catabolism.

  Chang Y.F., Adams E.

  The lysine-induced glutarate semialdehyde dehydrogenase of Pseudomonas was purified to electrophoretic homogeneity from a mutant strain lacking delta-aminovalerate transaminase. The properties of the enzyme, including molecular weight, amino acid composition, electrophoretic behavior, and kinetic ... >> More

  The lysine-induced glutarate semialdehyde dehydrogenase of Pseudomonas was purified to electrophoretic homogeneity from a mutant strain lacking delta-aminovalerate transaminase. The properties of the enzyme, including molecular weight, amino acid composition, electrophoretic behavior, and kinetic features, distinguish it from similar dehydrogenases induced in the same cell strain by hydroxyproline or by glucarate. Enzyme induction patterns and the growth behavior of a mutant deficient in glutarate semialdehyde dehydrogenase clearly relate this enzyme to the so-called delta-aminovalerate pathway of L-lysine catabolism. Induction studies also indicate that delta-aminovalerate is a better inducer of the dehydrogenase than L-lysine. Cells of a mutant strain lacking delta-aminovalerate transaminase contained higher levels of the dehydrogenase, presumably as a result of the accumulation of delta-aminovalerate, making this mutant a useful preparative source of the enzyme. The marked reduction of lysine-inducible glutarate semialdehyde dehydrogenase in a mutant strain permitted assessment of the basal levels of hydroxyproline/glucarate-inducible ketoglutarate semialdehyde dehydrogenases not possible in wild type cells. << Less

  J Biol Chem 252:7979-7986(1977) [PubMed] [EuropePMC]

• Catabolism of L-lysine by Pseudomonas aeruginosa.

  Fothergill J.C., Guest J.R.

  Pseudomonas aeruginosa PACI grows poorly on L-lysine as sole source of carbon but mutant derivatives which grow rapidly were readily isolated. Studies with one such mutant, P. aeruginosa PAC586, supported the existence of a route for L-lysine catabolism which differes from those reported previousl ... >> More

  Pseudomonas aeruginosa PACI grows poorly on L-lysine as sole source of carbon but mutant derivatives which grow rapidly were readily isolated. Studies with one such mutant, P. aeruginosa PAC586, supported the existence of a route for L-lysine catabolism which differes from those reported previously in other species of Pseudomonas. The postulated route, the cadaverine or decarboxylase pathway, is initiated by the decarboxylation of L-lysine and involves the following steps: L-lysine leads to cadverine leads to I-piperideine leads 5-aminovalerate leads to glutarate semialdehyde leads glutarate. Evidence for this pathway is based on the characterization of the pathway reactions and the induction of the corresponding enzymes by growth on L-lysine. The first three enzymes were also induced by growth on cadaverine and to a lesser extent by 5-aminovalerate. No evidence was obtained for the presence of pathways involving L-lysine 2-monooxygenase or L-pipecolate dehydrogenase, but another potential route for L-lysine catabolism initiated by L-lysine 6-aminotransferase was detected. Studies with mutants unable to grow on L-lysine supported the existence of more than one catabolic pathway for L-lysine in this organism and indicated that all routes converge on a pathway for glutarate catabolism which generates acetyl-CoA. Pipecolate catabolism also appeared to converge on the glutarate pathway in P. AERUGINOSA. The results suggested that the growth rate of the parental strain is limited by the rate of transport and/or decarboxylation of L-lysine. The cadaverine pathway was present, but not so highly induced, in the parental strain P. aeruginosa PACI. Pseudomonas fluorescens contained enzymes of both the cadaverine (decarboxylase) and oxygenase pathways, strains of P. putida (biotypes A and B) contained enzymes of the oxygenase pathway but not the decarboxylase pathway and P. multivorans appeared deficient in both. All these species possessed L-lysine aminotransferase activity. << Less

  J Gen Microbiol 99:139-155(1977) [PubMed] [EuropePMC]

• Prediction of missing enzyme genes in a bacterial metabolic network. Reconstruction of the lysine-degradation pathway of Pseudomonas aeruginosa.

  Yamanishi Y., Mihara H., Osaki M., Muramatsu H., Esaki N., Sato T., Hizukuri Y., Goto S., Kanehisa M.

  The metabolic network is an important biological network which consists of enzymes and chemical compounds. However, a large number of metabolic pathways remains unknown, and most organism-specific metabolic pathways contain many missing enzymes. We present a novel method to identify the genes codi ... >> More

  The metabolic network is an important biological network which consists of enzymes and chemical compounds. However, a large number of metabolic pathways remains unknown, and most organism-specific metabolic pathways contain many missing enzymes. We present a novel method to identify the genes coding for missing enzymes using available genomic and chemical information from bacterial genomes. The proposed method consists of two steps: (a) estimation of the functional association between the genes with respect to chromosomal proximity and evolutionary association, using supervised network inference; and (b) selection of gene candidates for missing enzymes based on the original candidate score and the chemical reaction information encoded in the EC number. We applied the proposed methods to infer the metabolic network for the bacteria Pseudomonas aeruginosa from two genomic datasets: gene position and phylogenetic profiles. Next, we predicted several missing enzyme genes to reconstruct the lysine-degradation pathway in P. aeruginosa using EC number information. As a result, we identified PA0266 as a putative 5-aminovalerate aminotransferase (EC 2.6.1.48) and PA0265 as a putative glutarate semialdehyde dehydrogenase (EC 1.2.1.20). To verify our prediction, we conducted biochemical assays and examined the activity of the products of the predicted genes, PA0265 and PA0266, in a coupled reaction. We observed that the predicted gene products catalyzed the expected reactions; no activity was seen when both gene products were omitted from the reaction. << Less

  FEBS J. 274:2262-2273(2007) [PubMed] [EuropePMC]

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