- Volume 138, Issue 11, 1992

A plant polysaccharide hydrolase cDNA, designated celD, was isolated from a cDNA library of the rumen fungus Neocallimastix patriciarum. The enzyme encoded by celD had endoglucanase, cellobiohydrolase and xylanase activities. Deletion analysis revealed that celD cDNA can be truncated to code for three catalytically active domains. Each domain had the same substrate specificity as the enzyme produced by the untruncated cel and also possessed cellulose-binding capacity. Substrate competition studies showed that carboxymethylcellulose and xylan appear to compete with methylumbelliferyl cellobioside for the same active site within each domain. Expression of celD transcript in the rumen fungus was constitutive and was not affected by the presence of cellulose in the culture medium.

Using an optimized transformation protocol we have studied the possible interactions between transforming plasmid DNA and the Hansenula polymorpha genome. Plasmids consisting only of a pBR322 replicon, an antibiotic resistance marker for Escherichia coli and the Saccharomyces cerevisiae LEU2 gene were shown to replicate autonomously in the yeast at an approximate copy number of 6 (copies per genome equivalent). This autonomous behaviour is probably due to an H. polymorpha replicon-like sequence present on the S. cerevisiae LEU2 gene fragment. Plasmids replicated as multimers consisting of monomers connected in a head-to-tail configuration. Two out of nine transformants analysed appeared to contain plasmid multimers in which one of the monomers contained a deletion. Plasmids containing internal or flanking regions of the genomic alcohol oxidase gene were shown to integrate by homologous single or double cross-over recombination. Both single- and multicopy (two or three) tandem integrations were observed. Targeted integration occurred in 1-22% of the cases and was only observed with plasmids linearized within the genomic sequences, indicating that homologous linear ends are recombinogenic in H. polymorpha. In the cases in which no targeted integration occurred, double-strand breaks were efficiently repaired in a homology-independent way. Repair of double-strand breaks was precise in 50-68% of the cases. Linearization within homologous as well as nonhomologous plasmid regions stimulated transformation frequencies up to 15-fold.

The yeast gene PBS2 encodes a presumed protein kinase. The gene is essential for manifestation of resistance to the antibiotic polymyxin B. Deletion of PBS2 enables a ras2–530 null mutant to grow on nonfermentable carbon sources; overexpression of PBS2 + enhances viability of a RAS2 Vol 19 mutant. Overexpression of PBS2 + also diminishes cellular response to mating pheromone MFα. These results suggest that the PBS2 and RAS2 genes affect a common pathway that may communicate with the pheromone response pathway. In addition, disruption of PBS2 renders cells sensitive to high osmolarity: exposure to 0.9 M-NaCl causes growth arrest, appearance of bizarre morphological forms, and eventual death. A mutation suppressing pbs2 deletion has been found. That mutation restores full polymyxin B resistance but only partially corrects the osmotic sensitivity defect. These observations indicate that PBS2 is involved in diverse physiological pathways in yeast.

Non-enterotoxigenic porcine Escherichia coli strains belonging to the serogroup O115 have been associated with septicaemia and diarrhoea. Putative factors important in the pathogenicity of E. coli of serogroup O115 include fimbrial antigen F165, haemagglutination (MRHA), lipopolysaccharide, serum resistance, capsule and production of aerobactin. Using TnphoA transposon insertion mutagenesis, two classes of mutants were obtained from E. coli of serotype O115:F165 with respect to the phenotypic expression of fimbrial antigen F165 and MRHA of sheep erythrocytes: class I, F165−MRHA−, serum resistant; class II, F165+MRHA−, serum resistant. In a chicken lethality model, class I mutants were either virulent or of intermediate virulence, while class II mutants were of intermediate virulence. Alkaline phosphatase activity of class I and class II TnphoA mutants showed similar environmental regulation to that of fimbrial antigen F165. Moreover, class I and class II mutants were mutated in the prs-like locus, and lacked a 18.5 kDa and/or a 17.5 kDa fimbrial band.

The influence of outer membrane (OM) permeability on carbapenem susceptibility was studied in strains of Enterobacter cloacae, a species in which carbapenem resistance depends upon the conjunction of overproduction of the chromosomal cephalosporinase and reduction of OM permeability. Relative trans-OM diffusion rates were measured using the liposome swelling assay. Proteoliposomes were reconstituted with OM from the members of an isogenic set of E. cloacae strains, selected in vivo or in vitro, which produced either porins F and D (wild-type), or F or D only, or neither. For all but one mutant, and compared with the wild-type strain, the respective increases in MICs and decreases in trans-OM diffusion of carbapenems were: nil and 13 to 18%; 4- to 32-fold and 33 to 50%; ≥ 64-fold and ≥ 90%. Our results suggest (i) that carbapenems (and other β-lactam antibiotics) diffuse through porins F and D, but more rapidly through porin F, and (ii) that OM permeability is the critical factor in determining the level of MICs of carbapenems for cephalosporinase-overproducing strains of E. cloacae. The OM of one particular low-level carbapenem-resistant and porin F- and D-deficient mutant was at least five times more permeable to carbapenems than the similarly porin-deficient high-level resistant mutants. We infer from this observation the possible existence of an alternative carbapenem penetration pathway which could be associated with two as yet uncharacterized overproduced OM proteins of about 22 and 47 kDa.

The activation of catalase genes in response to oxidative stress may contribute to the intracellular survival of mycobacteria. In this report, the nucleotide sequence of a mycobacterial catalase gene is described. The deduced protein sequence of this Mycobacterium intracellulare gene (M185) was 60% identical to the Escherichia coli hydroperoxidase I (HPI) protein, 59% identical to the Salmonella typhimurium (HPI) catalase, and 47% identical to a Bacillus stearothermophilus peroxidase. The M185 protein, expressed in E. coli, has also been shown to have peroxidase and catalase activities. Furthermore, Southern blot hybridizations, which demonstrated that a M185 gene probe hybridizes with chromosomal DNA from thirteen different strains of mycobacteria, suggest that this catalase-peroxidase gene is prevalent in the mycobacterial genus. The availability of catalase gene probes should permit an evaluation, at the molecular level, of the role of catalase in mycobacterial pathogenesis.

Two strains of Legionella pneumophila serogroup 1 monoclonal subgroup Pontiac were grown for the first time in continuous culture using a chemically defined medium. The influence of temperature on physiology and morphology was investigated by fixing the growth rate (equal to the dilution rate, D) at 0.08 h-1 and controlling the pH and dissolved oxygen concentration of the culture. Serine provided the principal source of carbon and energy but growth was limited by tyrosine. The bacterium behaved as a microaerophile in this medium, with maximal growth occurring at 0.31 (mg O2) I-1 (equivalent to a dissolved oxygen tension of 4% (v/v) air saturation at 30 °C). The cultures consisted of flagellated, short rods at 24 °C, but exhibited an increased level of pleomorphism and the loss of flagella as the temperature was increased to 37°C. The presence of intracellular granules was noted, and their abundance was temperature-dependent. Polyhydroxybutyrate was present in L. pneumophila, and the proportion of the cell dry weight that it accounted for varied with temperature, being maximal at 24 °C. The ratio of saturated to unsaturated fatty acids in the cells decreased as the temperature was reduced towards 24 °, so as to maintain membrane fluidity at low growth temperature.

Pseudomonas aeruginosa has two siderophore-based high-affinity iron-uptake systems utilizing pyoverdin and pyochelin. Using strain IA1, a mutant deficient in production of both siderophores, we have shown that addition of purified siderophore to the growth medium induces expression of specific iron-regulated outer-membrane proteins and increases 55Fe-siderophore transport. Addition of pyoverdin from the parent strain PAO1 or from a clinical strain 0:12 induced expression of an 85 kDa IROMP and increased the rate of 55Fe-pyoverdin transport. Transport rates for 55Fe-PAO1 pyoverdin increased from 1.27 to 3.57 pmol Fe min-1 per 109 cells. Addition of purified pyochelin induced expression of a 75 kDa IROMP accompanied with increased 55Fe-pyochelin uptake without affecting 55Fe-pyoverdin transport. 55Fe-pyochelin transport increased from 0.3 to 10.6 pmol min-1 per 109 cells. Addition of pyoverdin from the parent strain or a chromatographically distinct pyoverdin caused increased reactivity with an anti-85 kDa mAb in Western blotting, indicating that the same receptor is being induced. These results suggest that P. aeruginosa can respond specifically to the presence of siderophore and moreover that not only can the pyoverdin receptor transport its cognate ferri-pyoverdin but also different ferri-pyoverdins, albeit at a reduced rate.

The primary structures of helices A to G of all bacteriorhodopsin (BR)-like retinal proteins identified in newly isolated halobacteria have been determined from the nucleotide sequence of the BR-like protein genes. Using PCR methods, gene fragments encoding the A- to G-helix region of BR-like proteins were directly amplified from the total genomic DNA of the seven new halobacterial strains. Oligonucleotide primers corresponding to highly conserved regions in the helices A to G were designed from the nucleotide sequences of bacterioopsin (bop) and archaeopsin-I (aop-I), and some primers were effective for the amplification of the gene encoding C- to G-helix region of all new BR-like proteins. The primer corresponding to A-helix region was designed either from the nucleotide sequence of bop and aop-I or from the N-terminus amino acid sequence of a BR-like protein. Three new BR-like proteins were identified from the amino acid sequence, which was deduced from the nucleotide sequence of the genes encoding A- to G-helix region of the BR-like proteins. It was found that not only the amino acid sequence, but also the nucleotide sequence of the gene encoding the C- and G-helix region, in which a number of important residues for proton translocation are located, is highly conserved in three new BR-like proteins. Analysis of the primary structures of the A- to G-helix region of new BR-like proteins revealed that one has about 85% homology with aR-I and aR-II, and the rest have about 55% homology with halobium BR, aR-I and aR-II. From the results of the sequence analysis, we suggest that BR and BR-like proteins (functioning as light-driven proton pumps) can be classified into three types (BR type, aR type and a new type), and each of these types has 50-55% homology to each other in amino acid sequence.

Addition of 15 μM-CuSO4 to Schizosaccharomyces pombe 972 growing in a defined medium resulted in a biphasic growth curve and selection for a copper-resistant subpopulation. A clonal isolate of this subpopulation, designated strain SW40, had a decreased copper content per cell compared to the wild-type strain 972. The copper-resistance trait was stable in the absence of selection, and was the result of a single recessive chromosomal mutation. Copper resistance was not the result of metal ion efflux, extracellular chelation or an increased oxidative stress response. The results are consistent with a copper-resistance mechanism in which a modification of the cytoplasmic membrane results in decreased copper accumulation.

Invertase activity in wild-type and several mutant strains of Neurospora crassa, was significantly enhanced by supplementing the culture medium with cyclic AMP (5.0 mM). Cyclic AMP stimulated invertase by (i) increasing overall enzyme production and (ii) substituting for natural carbohydrate inducers (i.e. galactose or raffinose) as a requirement for maximal enzyme production. The effect of cAMP was specific for the nucleotide and was sensitive to glucose repression. The effect of exogenous cAMP was also studied in mycelial and cell-wall-less derivatives of a ‘slime’ strain. It was observed that cAMP stimulated invertase production in the mycelial phenotype of ‘slime’, while its cell-wall-less derivative was totally refractory to the effect of the nucleotide. These findings indicate that the effect of cAMP on N. crassa invertase production could be mediated with the participation of cell surface elements.

Six biodegradative actinomycete strains were grown on a dimeric model lignin compound of the β-aryl ether type. Although only two strains, Thermomonospora mesophila and Streptomyces badius, utilized the compound as a carbon and energy source and produced substantial amounts of monomeric products, all of the strains could demethylate the substrate and oxidize Cα on the phenylpropane side-chain. Streptomyces sp. EC1 produced small amounts of aromatic acids and unidentified lignin-derived products when grown on straw. This organism also produced cell-bound demethylase requiring H2O2 and Mn2+, protocatechuate 3,4-dioxygenase and β-carboxymuconate decarboxylase activity in response to growth on low-molecular-mass aromatic compounds but not lignocellulose or its polysaccharide components. Extracellular peroxidase and catalase activity were detected in all of the strains. These data are used to propose a scheme by which actinomycete attack of the lignin component of plant biomass can be envisaged.

Studies on hydroaromatic metabolism in the actinomycete Amycolatopsis methanolica revealed that the organism grows rapidly on quinate (but not on shikimate) as sole carbon- and energy source. Quinate is initially converted into the shikimate pathway intermediate 3-dehydroquinate by an inducible NAD+-dependent quinate/shikimate dehydrogenase. 3-Dehydroquinate dehydratase subsequently converts 3-dehydroquinate into 3-dehydroshikimate, which is used partly for the biosynthesis of aromatic amino acids, and is partly catabolized via protocatechuate and the β-ketoadipate pathway. Enzyme studies and analysis of mutants clearly showed that the single 3-dehydroquinate dehydratase present in A. methanolica has a dual function, the first example of a 3-dehydroquinate dehydratase enzyme involved in both the catabolism of quinate and the biosynthesis of aromatic amino acids. This enzyme was purified over 1700-fold to homogeneity. Its further characterization indicated that it is a Type II 3-dehydroquinate dehydratase, a thermostable enzyme with a large oligomeric structure (native M r 135 × 103) and a subunit M r of 12 × 103. Characterization of aromatic amino acid auxotrophic mutants of A. methanolica suggested that genes encoding 3-dehydroquinate synthase and 3-dehydroquinate dehydratase are genetically linked but their transcription results in the synthesis of two separate proteins.

Pyrimidine base catabolism in Pseudomonas stutzeri ATCC 17588 was investigated and was found to occur by means of the reductive pathway. Pyrimidine bases and their respective reductive pathway catabolic products could serve as nitrogen sources for growth of P. stutzeri. Activities of the three enzymes associated with the reductive pathway of pyrimidine catabolism were detected in cells of P. stutzeri. The initial enzyme of the reductive pathway, dihydropyrimidine dehydrogenase, utilized NADH as its nicotinamide cofactor. Cells grown on pyrimidine bases as nitrogen sources contained elevated dehydrogenase activity relative to those grown on ammonium sulphate as nitrogen source. Activities of the second and third reductive pathway enzymes, dihydropyrimidinase and N-carbamoyl-β-alanine amidohydrolase, respectively, were also affected by growth conditions. If pyrimidine or dihydropyrimidine bases served as nitrogen sources, increases in the levels of these enzymes were observed compared to their activities determined when the nitrogen source was ammonium sulphate.

Alginate lyases (alginases) have been prepared from strains of Azotobacter vinelandii and Azotobacter chroococcum in which they were located in the periplasm. The enzymes are present in wild-type strains of each species and in mutants failing to encyst or produce bacterial alginate. The lyases have been partially purified by ion exchange chromatography and by affinity chromatography on a matrix prepared from poly-D-mannuronic acid. Although several bacterial and algal alginate preparations were degraded by the enzymes, highest activity was found on poly-D-mannuronic acid or on algal alginates with high mannuronic acid content. The major product from enzymes of either bacterium was an unsaturated uronic acid, when either alginates or poly-D-mannuronic acid were used as substrates. When tested against a series of algal alginates of increasing D-mannuronic acid content, the enzyme activity was highest against alginates of high D-mannuronic acid content, indicating that the enzymes are endo-D-mannurono-lyases. The alginases from the two bacterial species are not identical in their substrate specificity although both show the same generalized type of action.