Thomas Jahns

Evidence for carrier-mediated, energy-dependent uptake of urea in some bacteria

Evidence for the existence of an energy-dependent urea permease was found for Alcaligenes eutrophus H16 and Klebsiella pneumoniae M5a1 by studying uptake of 14C-urea. Since intracellular urea was metabolized immediately, uptake did not result in formation of an urea pool. Evidence is based on observations that the in vivo urea uptake and in vitro urease activity differ significantly with respect to kinetic parameters, temperature optimum, pH optimum, response towards inhibitors and regulation. The Km for urea uptake was 15–20 times lower (38 μM and 13 μM urea for A. eutrophus and K. pneumoniae, respectively) than the Km of urease for urea (650 μM and 280 μM urea), the activity optimum for A. eutrophus was at pH 6.0 and 35°C for the uptake and pH 9.0 and 65°C for urease. Uptake but not urease activity in both organisms strongly decreased upon addition of inhibitors of energy metabolism, while in K. pneumoniae, potent inhibitors of urease (thiourea and hydroxyurea) did not affect the uptake process. Significant differences in the uptake rates were observed during growth with different nitrogen sources (ammonia, nitrate, urea) or in the absence of a nitrogen source; this suggested that a carrier is involved which is subject to nitrogen control. Some evidence for the presence of an energy-dependent uptake of urea was also obtained in Pseudomonas aeruginosa DSM 50071 and Providencia rettgeri DSM 1131, but not in Proteus vulgaris DSM 30118 and Bacillus pasteurii DSM 33.

Prochlorococcus marinus strain PCC 9511, a picoplanktonic cyanobacterium, synthesizes the smallest urease.

The urease from the picoplanktonic oceanic Prochlorococcus marinus sp. strain PCC 9511 was purified 900-fold to a specific activity of 94.6 micromol urea min(-1) (mg protein)(-1) by heat treatment and liquid chromatography methods. The enzyme, with a molecular mass of 168 kDa as determined by gel filtration, is the smallest urease known to date. Three different subunits with apparent molecular masses of 11 kDa (gamma or UreA; predicted molecular mass 11 kDa), 13 kDa (ss or UreB; predicted molecular mass 12 kDa) and 63 kDa (alpha or UreC; predicted molecular mass 62 kDa) were detected in the native enzyme, suggesting a quaternary structure of (alphassgamma)(2). The K:(m) of the purified enzyme was determined as being 0.23 mM urea. The urease activity was inhibited by HgCl(2), acetohydroxamic acid and EDTA but neither by boric acid nor by L-methionine-DL-sulfoximine. Degenerate primers were designed to amplify a conserved region of the ureC gene. The amplification product was then used as a probe to clone a 5.7 kbp fragment of the P. marinus sp. strain PCC 9511 genome. The nucleotide sequence of this DNA fragment revealed two divergently orientated gene clusters, ureDABC and ureEFG, encoding the urease subunits, UreA, UreB and UreC, and the urease accessory molecules UreD, UreE, UreF and UreG. A putative NtcA-binding site was found upstream from ureEFG, indicating that this gene cluster might be under nitrogen control.

Urea uptake and urease activity in Corynebacterium glutamicum.

Abstract When Corynebacterium glutamicum is grown with a sufficient nitrogen supply, urea crosses the cytoplasmic membrane by passive diffusion. A permeability coefficient for urea diffusion of 9 × 10–7 cm s–1 was determined. Under conditions of nitrogen starvation, an energy-dependent urea uptake system was synthesized. Carrier-mediated urea transport was catalyzed by a secondary transport system linked with proton motive force. With a Km for urea of 9 μM, the affinity of this uptake system was much higher than the affinity of urease towards its substrate (Km approximately 55 mM urea). The maximum uptake velocity depended on the expression level and was relatively low [2–3.5 nmol min–1 (mg dry wt.)–1].

Isolation of a novel, phosphate-activated glutaminase from Bacillus pasteurii

In Bacillus pasteurii glutamine is being taken up efficiently by a sodium-dependent uptake system and subsequently hydrolysed to ammonium and glutamate. Concerning the latter process, a catabolic L-glutamine amidohydrolase (glutaminase) was isolated from the cytoplasm of this alkaliphilic bacterium and purified to homogeneity using liquid chromatography. Biochemical and physical parameters of the pure enzyme were examined in detail. Interestingly, analysis of the glutaminase revealed a marked increase in catalytic activity in the presence of phosphate, a property yet restricted to animal glutaminases. This is the first report on the presence of a phosphate-activated glutaminase in bacteria.

Mechanism of Microbial Degradation of Slow-Release Fertilizers

Methyleneureas are condensation products of urea and formaldehyde of different molecular mass and solubility; they are used in large amounts both as resins, binders, and insulating materials for industrial applications, as well as a slow-release nitrogen fertilizer for greens, lawns, or in bioremediation processes. In the present study, the microbial breakdown of these products was investigated. The nitrogen was released as ammonia and urea, and the formaldehyde released immediately oxidized via formiate to carbon dioxide. The enzymatic mechanism of metabolization of methyleneureas was studied in microorganisms isolated from soil, which were able to use these compounds as the sole source of nitrogen for growth. A strain of the Gram-negative bacterium Ralstonia paucula (formerly Alcaligenes sp. CDC group IVc-2) completely degraded methylenediurea and dimethylenetriurea to urea, ammonia, formaldehyde, and carbon dioxide. The enzyme initiating this degradation (methylenediurease) was purified and turned out to be different from the previously described enzyme from Ochrobactrum anthropi with regard to its regulation of expression and physicobiochemical properties. Fungal degradation of methyleneureas may occur via the formation of organic acids, thus leading to a nonenzymatic degradation of methyleneureas, which are unstable under acidic conditions.

Biodegradability of Urea-Aldehyde Condensation Products

Condensation products of urea and different aldehydes (formaldehyde, isobutyraldehyde, crotonaldehyde) are used in large amounts (more than 300,000 tons per year) as resins, binders, and insulating materials for industrial applications, as well as in controlled-release nitrogen fertilizer for greens, lawns, or bioremediation processes. The biodegradability of these condensates and the enzymic mechanism of their degradation was studied in mircoorganisms isolated from soil, which were able to use these compounds as the sole source of nitrogen for growth. Different pure cultures of both gram-positive and gram-negative bacteria completely degraded methylenediurea, dimethylenetriurea, isobutylidenediurea, and crotonylidenediurea to urea, ammonia, and the corresponding aldehydes and carbon dioxide. Enzymes initiating this degradation were purified and characterized and turned out to be different with regard to their regulation of expression, their physicobiochemical properties, and their reaction mechanism.

Urea uptake by the marine bacterium Deleya venusta HG1

The uptake (transport and metabolism) of urea was studied in a strain of the marine bacterium Deleya venusta, measuring the uptake of [14C]urea in vivo and the urease reaction in vitro. Urea uptake in vivo was sodium-dependent and exhibited a K m value of 1.4 μM for urea, a broad pH optimum between pH 6.0 and 8.5, a distinct temperature optimum at 35°C and a requirement for energy. Urease activity in vitro exhibited a K m value of 0.86 mM for urea and showed maximum activities at pH 8.5 and 60°C; the enzyme was neither dependent on the presence of sodium, nor inhibited by metabolic inhibitors. Synthesis of the urea uptake system was subject to nitrogen control; ammonium resulted in a repression of the system, whereas high uptake rates were observed after growth with nitrate or incubation of the cells in the absence of a nitrogen source. The uptake reaction in vivo, but not the urease activity in vitro, was decreased greatly in the presence of ammonium. This inhibition was relieved by methionine sulphoximine (MSX), a potent inhibitor of glutamine synthetase; in mutant strains impaired in this enzyme no inhibition of urea uptake by ammonium was observed. These results suggest that glutamine formed from ammonium rather than ammonium itself regulates urea uptake activity in D. venusta.

Biodegradation of Slow-Release Fertilizers (Methyleneureas) in Soil

The biodegradation of urea and condensation products thereof (ureaforms or methyleneureas), their nitrification, and their influence on the respiratory rate of soil was studied over periods of up to 100 days. The total methyleneurea content of the soil was determined after its acidic extraction, using a convenient colorimetric assay, and an HPLC protocol was established to analyze for specific components of methyleneureas. Urea, unfractionated methyleneureas, and hot-water soluble methyleneureas were rapidly metabolized to ammonium, which accumulated to high concentrations and was consequently oxidized to nitrate; an accumulation of nitrite was observed during urea but not during methyleneurea degradation. Hot water-insoluble methyleneureas were degraded much more slowly, and ammonium formed from these compounds was oxidized to nitrate without being released in significant amounts. These results suggest that the use of methyleneureas of optimized composition with regard to their water solubility may help to resolve problems such as the toxicity of ammonia to plant growth as well as nitrogen loss by leaching of nitrate, denitrification and volatilization.

Properties of the cold-labile NAD + -specific glutamate dehydrogenase from Bacillus cereus DSM 31

Nicotinamide-adenine-dinucleotide-specific glutamate dehydrogenase (NAD-GDH; EC 1.4.1.3) from Bacillus cereus DSM 31 was enriched 260-fold. The molecular mass was determined by gel filtration to be 270 kDa (+/- 25 kDa). The enzyme was highly specific for the coenzyme NAD(H) and catalysed both the formation and the oxidation of glutamate. Apparent Km values of 7.7 mM for glutamate and 0.56 mM for NAD+ during oxidative deamination were measured. Both in crude cell-free extracts and in enriched preparations the enzyme was extremely unstable, especially at low temperatures. The loss of activity in the cold was found to be due to the dissociation of the holoenzyme into catalytically inactive subunits of molecular mass 48 kDa (+/- 5 kDa), indicating that the native enzyme has a hexameric structure. The activity was restored under certain conditions, and no instability of the enzyme in the cold was observed in undisrupted cells.

Occurrence of cold-labile NAD-specific glutamate dehydrogenase in Bacillus species

A nicotinamide adenine dinucleotide-specific glutamate dehydrogenase (NAD-GluDH; EC 1.4.1.3) inactivated by incubation at low temperatures was detected in several species of the genus Bacillus, including strains of B. cereus, B. laterosporus, B. lentus, B. panthotenicus, B. pasteurii, B. sphaericus, B. stearothermophilus, B. subtilis and B. thuringiensis. Incubation of cell-free extracts of these strains at 0 degrees C resulted in an 80-100% inactivation of NAD-GluDH activity within 120 min. The addition of 20% glycerol protected the enzyme from this inactivation in the cold. Strains of B. fastidiosus, B. licheniformis, B. macerans, B. megaterium and B. pumilus were found to lack NAD-GluDH activity.