Nucleotide specificity of succinate thiokinases from bacteria.

The nucleotide specificity of succinate thiokinases, isolated from Escherichia coli, Aerobacter aerogenes, and Pseudomonas citronellolis, was determined and found to be nonspecific for adenine and 6-oxopurine nucleotides, guanine, and hypoxanthine. The enzyme from Herellae vaginicola was specific for the 6-oxopurine nucleotides. Succinate thiokinases from E. coli, A. aerogenes, and P. citronellolis also demonstrated purine nucleoside diphosphokinase activity (P-NDPK), which was 4, 9, and 40%, respectively, of the succinate thiokinase activity. P-NDPK activity was slightly stimulated by coenzyme A (CoA) and slightly inhibited by succinate; in the presence of both CoA and succinate, P-NDPK activity increased three-, three-, and sevenfold for the E. coli, A. aerogenes, and P. citronellolis enzymes, respectively. Isoelectric focusing demonstrated multiple forms of each enzyme, and the molecular weights of the A. aerogenes, P. citronellolis, and H. vaginicola enzymes were approximately 155,000.     

Identification of Biofilm-Associated Cluster (bac) in Pseudomonas aeruginosa Involved in Biofilm Formation and Virulence

Biofilms are prevalent in diseases caused by Pseudomonas aeruginosa, an opportunistic and nosocomial pathogen. By a proteomic approach, we previously identified a hypothetical protein of P. aeruginosa (coded by the gene pA3731) that was accumulated by biofilm cells. We report here that a ΔpA3731 mutant is highly biofilm-defective as compared with the wild-type strain. Using a mouse model of lung infection, we show that the mutation also induces a defect in bacterial growth during the acute phase of infection and an attenuation of the virulence. The pA3731 gene is found to control positively the ability to swarm and to produce extracellular rhamnolipids, and belongs to a cluster of 4 genes (pA3729–pA3732) not previously described in P. aeruginosa. Though the protein PA3731 has a predicted secondary structure similar to that of the Phage Shock Protein, some obvious differences are observed compared to already described psp systems, e.g., this unknown cluster is monocistronic and no homology is found between the other proteins constituting this locus and psp proteins. As E. coli PspA, the amount of the protein PA3731 is enlarged by an osmotic shock, however, not affected by a heat shock. We consequently named this locus bac for biofilm-associated cluster.     

Occurrence of Homologs of the Escherichia coli lytB Gene in Gram-Negative Bacterial Species

The Escherichia coli LytB protein regulates the activity of guanosine 3′,5′-bispyrophosphate synthetase I (RelA). A Southern blot analysis of chromosomal DNA with the E. coli lytB gene as a probe revealed the presence of lytB homologs in all of the gram-negative bacterial species examined but not in gram-positive species. The lytB homologs from Enterobacter aerogenes and Pseudomonas fluorescens complemented the E. coli lytB44 mutant allele.     

The Natural Occurrence of Ethionine in Bacteria

Two unknown radioactive areas appeared after radioautography and two dimensional paper chromatography of culture medium in which Escherichia coli was grown. These materials were studied by paper chromatography and paper electrophoresis of several derivatives and identified as ethionine and ethionine sulfone, the latter an artifact. Chromatographic coincidence of the unknowns and their derivatives with authentic materials establishes the identification. Ethionine was found in cellular extracts and in the growth media of Escherichia coli, Bacillus megaterium, Pseudomonas aeruginosa, and Aerobacter aerogenes but not in Scenedesmus, Saccharomyces cerevisiae, or bovine lymphosarcoma cells. Ethionine was synthesized by resting E. coli cultures from radioactive sulfate and from radioactive methionine. Growing cells labeled ethionine within 1 minute after addition of radioactive sulfate to cultures. Levels of radioactivity in ethionine increased with time. No incorporation of this amino acid could be detected in the cellular proteins formed under the conditions of this study.     

Bioengineering of the Enterobacter aerogenes strain for biohydrogen production

Enterobacter aerogenes is one of the most widely-studied model strains for fermentative hydrogen production. To improve the hydrogen yield of E. aerogenes, the bioengineering on a biomolecular level and metabolic network level is of importance. In this review, the fermentative technology of E. aerogenes for hydrogen production will be first briefly summarized. And then the bioengineering of E. aerogenes for the improvement of hydrogen yield will be thoroughly reviewed, including the anaerobic metabolic networks for hydrogen evolution in E. aerogenes, metabolic engineering for improving hydrogen production in E. aerogenes and mixed culture of E. aerogenes with other hydrogen-producing bacteria to enhance the overall yield in anaerobic cultivation. Finally, a perspective on E. aerogenes as a hydrogen producer including systems bioengineering approach for improving the hydrogen yield and application of the engineered E. aerogenes in mixed culture will be presented.     

Urinary catheter indwelling clinical pathogen biofilm formation,exopolysaccharide characterization and their growth influencing parameters

Self-reproducing microbial biofilm community mainly involved in the contamination of indwelling medical devices including catheters play a vital role in nosocomial infections. The catheter-associated urinary tract infection (CA-UTI) causative Staphylococcus aureus, Enterobacter faecalis, and Pseudomonas aeruginosa were selectively isolated, their phenotypic as well as genotypic biofilm formation, production and monomeric sugar composition of EPS as well as sugar, salt, pH and temperature influence on their in vitro biofilm formation were determined. From 50 culture positive urinary catheters S. aureus (24%), P. aeruginosa (18%), E. faecalis (14%) and others (44%) were isolated. The performed assays revealed their varying biofilm forming ability. The isolated S. aureus ica, E. faecalis esp, and P. aeruginosa cup A gene sequencing and phylogenetic analysis showed their close branching and genetic relationship. The analyzed sugar, salt, pH, and temperature showed that the degree of CA-UTI isolates biofilm formation is an environmentally sensitive process. EPS monosaccharide HPLC analysis showed the presence of neutral sugars (ng/μl) as follows: glucose (P. aeruginosa: 44.275; E. faecalis: 4.23), lactose (P. aeruginosa: 7.29), mannitol (P. aeruginosa: 2.53; S. aureus: 2.62; E. faecalis: 2.054) and maltose (E. faecalis: 7.0042) revealing species-specific presence and variation. This study may have potential clinical relevance for the easy diagnosis and management of CA-UTI.     

Species-Dependent Phenotypes of Replication-Temperature-Sensitive trfA Mutants of Plasmid RK2: a Codon-Neutral Base Substitution Stimulates Temperature Sensitivity by Leading to Reduced Levels of trfA Expression

TrfA is the only plasmid-encoded protein required for initiation of replication of the broad-host-range plasmid RK2. Here we describe the isolation of four trfA mutants temperature sensitive for replication in Pseudomonas aeruginosa. One of the mutations led to substitution of arginine 247 with cysteine. This mutant has been previously described to be temperature sensitive for replication, but poorly functional, in Escherichia coli. The remaining three mutants were identical, and each of them carried two mutations, one leading to substitution of arginine 163 with cysteine (mutation 163C) and the other a codon-neutral mutation changing the codon for glycine 235 from GGC to GGU (mutation 235). Neither of the two mutations caused a temperature-sensitive phenotype alone in P. aeruginosa, and the effect of the neutral mutation was caused by its ability to strongly reduce the trfA expression level. The double mutant and mutant 163C could not be stably maintained in E. coli, but mutant 235 could be established and, surprisingly, displayed a temperature-sensitive phenotype in this host. Mutation 235 strongly reduced the trfA expression level also in E. coli. The glycine 85 codon in trfA mRNA is GGU, and a change of this to GGC did not significantly affect expression. In addition, we found that wild-type trfA was expressed at much lower levels in E. coli than in P. aeruginosa, indicating that this level is a key parameter in the determination of the temperature-sensitive phenotypes in different species. The E. coli lacZ gene was translationally fused at the 3′ end and internally in trfA, in both cases leading to elimination of the effect of mutation 235 on expression. We therefore propose that this mutation acts through an effect on mRNA structure or stability.     

Factors Affecting the Production of Antifungal Compounds by Enterobacter aerogenes and Bacillus subtilis,Antagonists of Phytophthora cactorum1

The effects of temperature and pH on the production of antifungal compounds and growth in sterilized soil of Enterobacter aerogenes and Bacillus subtilis, antagonists of Phytophthora cactorum, the cause of crown rot of apple trees, were studied. With E. aerogenes maximum amounts of antifungal compounds were produced between 14 and 21°C and at pH levels between 3.5 and 5.0. Bacillus subtilis produced maximum amounts of antifungal compounds between 21 and 28°C andwith pH levels between 5.0 and 8.0. P. cactorum inoculum, produced in the presence of E. aerogenes or B. subtilis at optimum temperature and pH levels, was significantly less virulent compared with controls. The optimum temperature of maximum population growth in sterilized soil for E. aerogenes was 18°C and for B. subtilis 25°C. The population growth of B. subtilis was much slower than that of E. aerogenes. Fosetyl Al stimulated the multiplication of bacteria at lower temperatures while metalaxyl had the same effect at higher temperatures. These results indicate that populations of these antagonistic bacteria increase in sterile soil up to the 33rd day from inoculation and that the fungicides fosetyl, Al and metalaxyl did not limit their multiplication and production of antifungal compounds.     

Pseudomonas aeruginosa Promotes Escherichia coli Biofilm Formation in Nutrient-Limited Medium

Biofilms have been implicated as an important reservoir for pathogens and commensal enteric bacteria such as Escherichia coli in natural and engineered water systems. However, the processes that regulate the survival of E. coli in aquatic biofilms have not been thoroughly studied. We examined the effects of hydrodynamic shear and nutrient concentrations on E. coli colonization of pre-established Pseudomonas aeruginosa biofilms, co-inoculation of E. coli and P. aeruginosa biofilms, and P. aeruginosa colonization of pre-established E. coli biofilms. In nutritionally-limited R2A medium, E. coli dominated biofilms when co-inoculated with P. aeruginosa, and successfully colonized and overgrew pre-established P. aeruginosa biofilms. In more enriched media, P. aeruginosa formed larger clusters, but E. coli still extensively overgrew and colonized the interior of P. aeruginosa clusters. In mono-culture, E. coli formed sparse and discontinuous biofilms. After P. aeruginosa was introduced to these biofilms, E. coli growth increased substantially, resulting in patterns of biofilm colonization similar to those observed under other sequences of organism introduction, i.e., E. coli overgrew P. aeruginosa and colonized the interior of P. aeruginosa clusters. These results demonstrate that E. coli not only persists in aquatic biofilms under depleted nutritional conditions, but interactions with P. aeruginosa can greatly increase E. coli growth in biofilms under these experimental conditions.     

Effect of Phenolic Acids and Esters on Respiration and Reproduction of Bacteria in Urine

Vanillic, syringic, gallic, and protocatechuic acids, methyl-p-hydroxybenzoate, and propyl-p-hydroxybenzoate generally inhibited respiration in vitro of Escherichia coli, Proteus vulgaris, Pseudomonas aeruginosa, and Aerobacter aerogenes in human urine. In the absence of any other available carbon source, certain of the phenolic compounds were utilized. Reproduction was generally suppressed in urine buffered to pH 7, 5.6, 4.5, and 4.0. The phenolic compounds were used in the range of 0.11 to 0.99 μmole/ml.     

Population level differences in thermal sensitivity of energy assimilation in terrestrial salamanders

Thermal adaptation predicts that thermal sensitivity of physiological traits should be optimized to thermal conditions most frequently experienced. Furthermore, thermodynamic constraints predict that species with higher thermal optima should have higher performance maxima and narrower performance breadths. We tested these predictions by examining the thermal sensitivity of energy assimilation between populations within two species of terrestrial-lungless salamanders, Plethodon albagula and P. montanus. Within P. albagula, we examined populations that were latitudinally separated by >450 km. Within P. montanus, we examined populations that were elevationally separated by >900 m. Thermal sensitivity of energy assimilation varied substantially between populations of P. albagula separated latitudinally, but did not vary between populations of P. montanus separated elevationally. Specifically, in P. albagula, the lower latitude population had a higher thermal optimum, higher maximal performance, and narrower performance breadth compared to the higher latitude population. Furthermore, across all individuals as thermal optima increased, performance maxima also increased, providing support for the theory that “hotter is better”.     

Identification and characterization of a phospholipase A2 from the venom of the Saw-scaled viper: Novel bactericidal and membrane damaging activities

Phospholipase A₂ (PLA₂), a common toxic component of snake venom, has been implicated in various pharmacological effects. In this study, a basic myotoxic PLA₂, named EcTx-I was isolated from Echis carinatus snake venom by using gel filtration on Superdex G-75, and reverse phase HPLC on C18 and C8 Sepharose columns. PLA₂, EcTx-I was 13,861.72 molecular weight as estimated by MALDI-TOF (15 kD by SDS-PAGE), and consisted of 121 amino acid residues cross-linked by seven disulfide bonds. The N-terminal sequences revealed significant homology with basic myotoxic PLA₂s from other snake venoms. The purified PLA₂ EcTx-I was evaluated (250 μg/ml) for bactericidal activity of a wide variety of human pathogens against Burkholderia pseudomallei (KHW&TES), Enterobacter aerogenes, Escherichia coli, Proteus vulgaris, Proteus mirabilis, Pseudomonas aeruginosa and Staphylococcus aureus. EcTx-I showed strong antibacterial activity against B. pseudomallei (KHW) and E. aerogenes among the tested bacteria. Other Gram-negative and Gram-positive bacteria showed only a moderate effect. However, the Gram-positive bacterium E. aerogenes failed to show any effect on EcTx-I protein at tested doses. The most significant bacteriostatic and bactericidal effect of EcTx-I was observed at MICs of >15 μg/ml against (B. pseudomallei, KHW) and MICs >30 μg/ml against E. aerogenes. Mechanisms of bactericidal and membrane damaging effects were proved by ultra-structural analysis. EcTx-I was able to induce cytotoxicity on THP-1 cells in vitro as well as lethality in BALB/c mice. EcTx-I also induced mild myotoxic effects on mouse skin, but was devoid of hemolytic effects on human erythrocytes up to 500 μg/ml. It is shown that the toxic effect induced by E. carinatus venom is due to the presence of myotoxic PLA₂ (EcTx-I). The result also corroborates the hypothesis of an association between toxic and enzymatic domains. In conclusion, EcTx-I displays a heparin binding C-terminal region, which is probably responsible for the cytotoxic and bactericidal effects.     

Regulation of the L-arabinose catabolic pathway in Aerobacter aerogenes

Three enzymes of the l-arabinose catabolic pathway in Aerobacter aerogenes, l-arabinose isomerase, l-ribulokinase, and l-ribulose-5-phosphate 4-epimerase, are specifically induced in the presence of l-arabinose. Mutants constitutive for kinase activity are also constitutive for the isomerase and 4-epimerase activities, suggesting that these three enzymes are coordinately controlled in A. aerogenes. l-Ribulokinase activity can still be induced in the presence of l-arabinose in an isomerase-deficient strain of A. aerogenes. Since l-arabinose is not converted to l-ribulose in such a strain, it appears that l-arabinose must be the inducer of l-ribulokinase, as well as the coordinately controlled isomerase and 4-epimerase. As in the metabolism of l-arabinose, growth of A. aerogenes on l-arabitol also requires a 4-epimerase for the conversion of l-ribulose-5-phosphate to d-xylulose-5-phosphate. However, loss of ability to metabolize l-arabinose, due to a deficiency in 4-epimerase synthesis in the presence of l-arabinose, does not affect growth on l-arabitol. In addition, synthesis of the 4-epimerase associated with l-arabitol metabolism is not accompanied by l-arabinose isomerase or l-ribulokinase synthesis. These results suggest either the existence of two different l-ribulose-5-phosphate 4-epimerases in A. aerogenes, or of two different regulatory mechanisms for the control of the same epimerase.     

A Novel Signal Transduction Pathway that Modulates rhl Quorum Sensing and Bacterial Virulence in Pseudomonas aeruginosa

The rhl quorum-sensing (QS) system plays critical roles in the pathogenesis of P. aeruginosa. However, the regulatory effects that occur directly upstream of the rhl QS system are poorly understood. Here, we show that deletion of gene encoding for the two-component sensor BfmS leads to the activation of its cognate response regulator BfmR, which in turn directly binds to the promoter and decreases the expression of the rhlR gene that encodes the QS regulator RhlR, causing the inhibition of the rhl QS system. In the absence of bfmS, the Acka-Pta pathway can modulate the regulatory activity of BfmR. In addition, BfmS tunes the expression of 202 genes that comprise 3.6% of the P. aeruginosa genome. We further demonstrate that deletion of bfmS causes substantially reduced virulence in lettuce leaf, reduced cytotoxicity, enhanced invasion, and reduced bacterial survival during acute mouse lung infection. Intriguingly, specific missense mutations, which occur naturally in the bfmS gene in P. aeruginosa cystic fibrosis (CF) isolates such as DK2 strains and RP73 strain, can produce BfmS variants (BfmS_L181P, BfmS_L181P/E376Q, and BfmS_R393H) that no longer repress, but instead activate BfmR. As a result, BfmS variants, but not the wild-type BfmS, inhibit the rhl QS system. This study thus uncovers a previously unexplored signal transduction pathway, BfmS/BfmR/RhlR, for the regulation of rhl QS in P. aeruginosa. We propose that BfmRS TCS may have an important role in the regulation and evolution of P. aeruginosa virulence during chronic infection in CF lungs.     

FlgM proteins from different bacteria exhibit different structural characteristics

Intrinsically disordered proteins (IDPs) are a unique class of proteins that do not require a stable structure for function. The importance of IDPs in many biological processes has been established but there remain unanswered questions about their evolution and conservation of their disordered state within a protein family. Our group has been studying the structural similarities among orthologous FlgM proteins, a model class of IDPs. We have previously shown that the FlgM protein from the thermophile Aquifex aeolicus has more structure at A. aeolicus' physiological temperature (85 °C) than is observed for the Salmonella typhimurium FlgM, suggesting that the disordered nature of FlgM varies among organisms and is not universally conserved. In this work, we extend these studies to the FlgM proteins from Escherichia coli, Pseudomonas aeruginosa, Proteus mirabilis, and Bacillus subtilis. We demonstrate that the B. subtilis, E. coli, and S. typhimurium FlgMs exist in a premolten globule-like conformation, though the B. subtilis FlgM is in a more compacted conformation than the other two. The P. aeruginosa and P. mirabilis FlgM proteins exist in a currently unknown conformation that is not either coil-like or premolten globule-like. The P. aeruginosa FlgM appears to contain more weak intramolecular contacts given its more compacted state than the P. mirabilis FlgM. These results provide experimental evidence that members of the same protein family can exhibit different degrees of disorder, though understanding how different disordered states evolve in the same protein family will require more study.     

Host range of conjugation and replication functions of the Escherichia coli sex plasmid Flac. Comparison with the broad host-range plasmid RK2

The Escherichia coli conjugative plasmid Flac has a restricted host range, in that transfer to Pseudomonas aeruginosa is not detectable. The molecular basis for this host-range restriction was studied by a separate comparison of the replication and conjugation systems of Flac with those of the broad host-range plasmid RK2. The origin of transfer of Flac (oriT_F) was cloned onto a small RK2 replicon. The hybrid plasmid, pDG2906, could be transferred efficiently by both the Flac and RK2 conjugation systems to an E. coli recipient. The Flac conjugation system was able to transfer pDG2906 to P. aeruginosa, but only at a frequency of 10^?4 of that of the RK2 conjugation system. A second hybrid plasmid, containing the replication region of Flac with the transfer region of RK2, could not be established in P. aeruginosa. These results show that Flac is able to mediate low frequency transfer to P. aeruginosa, and that the lack of replication in Pseudomonas is ultimately responsible for the restricted host range.     

Effects of polyurethane foams on microbial growth in fuel-water systems

Four, open-cell, ester-base polyurethane foams were examined for their effect on growth of fuel-utilizing organisms in jet fuel-water systems. Three foams contained a potential biocide, tetraethylthiuram E (0.66%), sodium omadine (0.07%), or zinc omadine (0.07%), all w/v. These were compared with a control foam which did not contain an additive. Each foam was examined in fuel-water systems containing JP-4 fuel, JP-4 fuel plus 0.1% anti-icing additive (AIA), or JP-5 fuel. Pure cultures of a fuel-grown bacterium, Pseudomonas aeruginosa, and of a fuel-grown fungus, Hormodendrum (Cladosporium) sp., served as test organisms. In control cultures without foam and in cultures containing control foam, P. aeruginosa achieved maximum stationary-phase populations of approximately 10⁸ viable cells per ml, and Hormodendrum sp. produced an extensive mycelial mat. In the three fuel systems examined, tetraethylthiuram E- and sodium omadine-containing foams had little effect on growth of the bacterium; foam with zinc omadine decreased the rate of bacterial growth but had little effect on total populations. Tetraethylthiuram E decreased the rate of fungal growth and showed its greatest effect in JP-4 plus AIA. Foam with sodium omadine or zinc omadine markedly decreased fungal growth in all three fuel systems. The data suggest that either sodium omadine or zinc omadine in polyurethane foam may be a useful antifungal agent; and that tetraethylthiuram E and AIA could exert a synergistic effect, particularly at AIA concentrations which have been reported to occur in some field situations.     

Nutritional Requirement for Production of Antifungal Substance by Enterobacter aerogenes and Bacillus subtilis Antagonists of Phytophthora cactorum1

Anker's medium with glucose and Thornton's medium were most suitable for growing Enterobacter aerogenes and Bacillus subtilis respectively, antagonists of P. cactorum, the causal agent of apple crown rot. Calcium nitrate was thebest source of nitrogen for growing cultures of E. aerogenes and B. subtilis. E. aerogenes produced the maximum amount of antifungal substance at 200 and 400 mg/l of nitrogen in the medium. Phosphate supplied either in the potassium or calcium form did not change the growth of either antagonist. An addition of 200 mg/l of N and 400 mg/l of P significantly enhanced the production of antifungal substance by E. aerogenes on Anker's medium with glucose. Thornton's medium supplemented with 200 mg/l of N and 100 mg/l of P produced the maximum amount of antifungal substance from B. subtilis. Generally, soil extracts without enrichment did not support the growth of either antagonist; E. aerogenes required at least 400 mg/lof, both N and P while B. subtilis required 200 mg/l of N and 800 mg/l of P for the maximum production of antifungal substance. When ammonium phosphate was added to soil extracts, only a small amount of antifungal substance was produced by E. aerogenes and none by B. subtilis. These results indicate that E. aerogenes and B. subtilis need N and P fertilization of the sterilized soil for the maximum production of the antifungal substance that inhibits the growth of P. cactorum.