Deoxyribonucleic acid base composition of Sporosarcina ureae

Summary The guanine + cytosine (GC) content of the DNAs of 11 cultures of Sporosarcina ureae and one culture of Bacillus pasteurii was determined using the methods of Marmur and Doty (1962), Frédéricq et al. (1961), and paper chromatography. The GC content in DNA of Sporosarcina ureae ranges from 39.3 to 44%. Bacillus pasteurii contained 40.4% GC in DNA. Our results support the opinion that Sporosarcina ureae is related both to non-sporeforming flagellated cocci of the genus Planococcus and to bacilli, particularly to Bacillus pasteurii.     

Comparison of the production of intracellular l-phenylalanine dehydrogenase by Rhodococcus species M4 and Sporosarcina ureae at 50 liter scale

Summary The production of l-phenylalanine dehydrogenase by Rhodococcus spec. M4 (DSM 3041) and Sporosarcina urea (DSM 317) at 50 1 scale was compared. Also at 50 1 scale Rhodococcus spec. M4 (DSM 3041) turns out to be a superior producer: max. 3×10⁴ U/l. Sporosarcina ureae (DSM 317) produces l-phenylalanine dehydrogenase at lower but still very acceptable level: max. 3.7×10³ U/l and 26.4% of the production capacity of Rhodococcus spec. M4 (DSM 3041) based on dry cell matter.     

Ammonium assimilation in Proteus vulgaris,Bacillus pasteurii,and Sporosarcina ureae

No active uptake of ammonium was detected in Proteus vulgaris, Bacillus pasteurii, and Sporosarcina ureae, which indicates that these bacteria depend on the passive diffusion of ammonia across the cell membrane. In P. vulgaris the glutamine synthetase-glutamate synthase (GS-GOGAT) pathway and glutamate dehydrogenase (GDH) were present, and these enzymes exhibited high affinities for ammonium. In B. pasteurii and S. ureae, however, no GS activity was detected, and GOGAT activity was only present in S. ureae. GDH enzymes were present in these two organisms, but showed only low affinity for ammonium, with apparent K _m-values of 55.2 mM in B. pasteurii and 36.7 mM in S. ureae, repectively. These observations explain why P. vulgaris is able to grow at neutral pH and low ammonium concentration (2 mM), while B. pasteurii and S. ureae require high ammonium concentration (40 mM) and alkaline pH for growth.Non-standard abbreviations GS glutamine synthetase - GOGAT glutamate synthase - GDH glutamate dehydrogenase - GT glutamyl transferase - MA methylammonium - NB nutrient broth - YE yeast extract - NA nocotinic acid     

Biosynthesis of Amino Acids from Hydrocarbons

Nine strains of bacteria, capable of synthesising amino acids from hydrocarbons, have been identified. Pseudomonas arvilla, Ps. fluorescens and Micrococcus ureae, previously reported as hydrocarbons assimilators, were found capable of synthesising amino acids. Pseudomonas taetrolens, Bacillus cereus var. mycoides, Bacillus subtilis and Bacillus sphaericus also synthesised amino acids from hydrocarbons.     

Production of tyrosine from sucrose or glucose achieved by rapid genetic changes to phenylalanine-producing <Emphasis Type="Italic">Escherichia coli</Emphasis> strains

Escherichia coli K12 strains producing l-phenylalanine were converted to l-tyrosine-producing strains using a novel genetic method for gene replacement. We deleted a region of the E. coli K12 chromosome including the pheA gene encoding chorismate mutase/prephenate dehydratase, its leader peptide (pheL), and its promoter using a new polymerase chain reaction-based method that does not leave a chromosomal scar. For high level expression of tyrA, encoding chorismate mutase/prephenate dehydrogenase, its native promoter was replaced with the strong trc promoter. The linked ΔpheLA and Ptrc-tyrA::Kan^R genetic modifications were moved into l-phenylalanine producing strains by generalized transduction to convert l-phenylalanine-producing strains to l-tyrosine-producing strains. Moreover, introduction of a plasmid carrying genes responsible for sucrose degradation into these strains enabled l-tyrosine-production from sucrose.     

Characterization of thermophilicCampylobacter: I. Carbon-substrate utilization tests

The carbon-substrate utlization profile of 234 wild strains of thermophilic campylobacters originating from different animal sources and different part of the world was studied using a microgallery as well as the profile of 25 type strains ofCampylobacter species and reference strains ofCampylobacter-like organisms. Among the 98 substrates tested, succinate, fumarate,d-l-lactate,l-malate, pyruvate,l-glutamate,l-aspartate, andl-serine (with one exception for the last two) were always utilized by the wild strains, and acetate, propionate,d-malate, 2-cetoglutarate, itaconate, citrate, andl-proline by some of the strains. A strong association was found between assimilation ofd-malate and a positive hippurate test.     

Prevalence of a Novel Capsule-Associated Lipoprotein Among Pasteurellaceae Pathogenic in Animals

Capsular serotype A strains of Pasteurella multocida of avian origin express a 40-kDa lipoprotein (Plp-40) thought to attach the extracellular polysaccharide to the cell surface. The objective of the present study was to assess the prevalence of Plp-40 in P. multocida strains of disparate serotypes and host origins, as well as other pathogenic members of the family Pasteurellaceae. Exponential-phase reference and clinical isolates were radiolabeled with [³H]-palmitate, lysed to obtain whole-cell protein fractions, and analyzed using SDS-PAGE and fluorography to assess lipoprotein content. The ability to produce Plp-40 was found to be conserved among certain P. multocida reference and clinical strains of different host origins including avian, human, porcine, bovine, feline, canine, ovine, and cervine, but not rabbit. Production of a 40-kDa lipoprotein was exhibited by all clinical isolates of Pasteurella aerogenes, Pasteurella pneumotropica, Actinobacillus suis, Actinobacillus suis-like organism, and Actinobacillus pleuropneumoniae examined, but not Pasteurella (Mannheimia) haemolytica, Actinobacillus lignieresii, or Haemophilus spp. These data suggest that, while not all Pasteurellaceae are able to produce a 40-kDa lipoprotein under the present experimental conditions, expression is somewhat conserved among diverse isolates of disparate host origins. Received: 28 September 2001 / Accepted: 15 October 2001     

On the isolation of dipicolinic acid from endospores of Sarcina ureae

Summary The isolation of an ultraviolet absorbing material from spores of Sarcina ureae and its identification as dipicolinic acid (DPA) is described. The DPA was present in amounts ranging from 4–7% of the spore dry weight, but was not detected in vegetative cells.The contention that the spores of Sarcina ureae are unusual or atypical, and that the organism is a morphologically aberrant Bacillus species is discussed and found wanting.     

The rhizobia of lupinus densiflorus Benth., with some remarks on the classification of root nodule bacteria

Summary Four strains of rhizobia from Lupinus densiflorus Benth. were found to differ from the normal slow-growing strains of Rhizobium lupini by a rapid growth on agar medium, a somewhat different pattern of carbon metabolism, good growth in simple synthetic media, and also in their host plant relationships. Three strains had subpolar flagella like other lupine rhizobia, and the same was found to be predominant in a fourth strain previously described as having peritrichous flagellation.Two strains formed effectively nitrogen-fixing root nodules in Lotus corniculatus and Anthyllis vulneraria where the other two formed semieffective or ineffective nodules. All four strains formed ineffective nodules in Lotus uliginosus and Ornithopus sativus. The slow-growing strains of Rh. lupini mostly produce ineffective nodules in Lotus corniculatus but have now been seen to be effective in Lotus uliginosus.Instead of trying to define Rh. lupini as a cross-inoculation group it seems preferable to abandon it as a species and to transfer the fastgrowing strains to Rhizobium leguminosarum sensu Graham (1964) and De Ley and Rassel (1965), in spite of their predominantly subpolar flagellation. The familiar slow-growing strains would remain in the broad group of slow-growing root nodule bacteria with purely subpolar flagellation, called Phytomyxa japonica by Graham (1964) and Rhizobium japonicum by De Ley and Rassel (1965).     

Yeast strains from Livingston Island, Antarctica

Five yeast strains were isolated from soil and moss samples from the Livingston Island (Antarctica) and identified according to morphological, cultural and physiological characteristics. All strains had an optimum growth temperature of 15°C; none grew above 25°C. They assimilatedD-glucose.D-galactose, sucrose, cellobiose, trehalose, 2-keto-d-gluconate,D-xylose,d-ribose and melezitose. Four of them were nonfermentative, only one, which formed pseudomycelium fermented glucose, galactose, trehalose. Two strains were identified as pinkred yeasts belonging to genusRhodotorula—R. minuta andR. mucilaginosa; two were related to the genusCryptococcus—C. albidus andC. laurentii, one wasCandida oleophila.     

Structure of the peptidoglycans of Moraxella glucidolytica and Moraxella lwoffi grown on hydrocarbons

The peptidoglycans of Moraxella glucidolytica and Moraxella lwoffi grown on aliphatic hydrocarbons were isolated. They contained muramic acid. glucosamine, alanine, d-glutamic acid and meso-diaminopimelic acid in a molar ratio of about 0.5:0.5:1.6:1.0:1.0 (M. glucidolytica) and 0.8:0.7:1.3:1.0:1.0 (M. lwoffi).The peptidoglycans were lysozyme-resistant. However, when treated with formamide, they could be partially degraded by lysozyme. The fragments were purified and their structure determined. In both strains, the peptide subunits consisted mainly of tripeptides (l-Ala-d-Glu-meso-DAP) and tetrapeptides (l-Ala-d-Glu-meso-DAP-d-Ala), most of them being directly cross-linked. It is concluded that in both strains the primary structures of the peptidoglycans are closely related.     

Conversion of L-Hydroxyproline to glutamate by extracts of strains of Pseudomonas convexa and Pseudomonas fluorescens

Summary Three strains of Pseudomonas convexa and three strains of Pseudomonas fluorescens were found able to utilize L-hydroxyproline as sole source of carbon and nitrogen. Sonic extracts of these organisms converted L-hydroxyproline to glutamic acid.     

Methylglyoxal Bypass Identified as Source of Chiral Contamination in l(+) and d(−)-lactate Fermentations by Recombinant Escherichia coli

Two new strains of Escherichia coli B were engineered for the production of lactate with no detectable chiral impurity. All chiral impurities were eliminated by deleting the synthase gene (msgA) that converts dihydroxyacetone-phosphate to methylglyoxal, a precursor for both l(+)- and d(−)-lactate. Strain TG113 contains only native genes and produced optically pure d(−)-lactate. Strain TG108 contains the ldhL gene from Pediococcus acidilactici and produced only l(+)-lactate. In mineral salts medium containing 1 mM betaine, both strains produced over 115 g (1.3 mol) lactate from 12% (w/v) glucose, >95% theoretical yield.     

From scratch to value: engineering <Emphasis Type="Italic">Escherichia coli</Emphasis> wild type cells to the production of <Emphasis Type="SmallCaps">l</Emphasis>-phenylalanine and other fine chemicals derived from chorismate

Recombinant strains of Escherichia coli K-12 for the production of the three aromatic amino acids (l-phenylalanine, l-tryptophan, l-tyrosine) have been constructed. The largest demand is for l-phenylalanine (l-Phe), as it can be used as a building block for the low-calorie sweetener, aspartame. Besides l-Phe, an increasing number of shikimic acid pathway intermediates can be produced from appropriate E. coli mutants with blocks in this pathway. The last common intermediate, chorismate, in E. coli not only serves for production of aromatic amino acids but can also be used for high-titer production of non-aromatic compounds, e.g., cyclohexadiene-transdiols. In an approach to diversity-oriented metabolic engineering (metabolic grafting), platform strains with increased flux through the general aromatic pathway were created by suitable gene deletions, additions, or rearrangements. Examples for rational strain constructions for l-phenylalanine and chorismate derivatives are given with emphasis on genetic engineering. As a result, l-phenylalanine producers are available, which were derived through several defined steps from E. coli K-12 wild type. These mutant strains showed l-phenylalanine titers of up to 38 g/l of l-phenylalanine (and up to 45.5 g/l using in situ product recovery). Likewise, two cyclohexadiene-transdiols could be recovered.     

Leclercia adecarboxylata Gen. Nov., Comb. Nov., formerly known asEscherichia adecarboxylata.

The nameLeclercia adecarboxylata is proposed for a group of the family Enterobacteriacae previously known asEscherichia adecarboxylata. Leclercia adecarboxylata can be phenotypically differentiated from all other species of Enterobacteriaceae. The members of this species are positive for motility, indole production, methyl red, growth in the presence of KCN, malonate, beta-galactosidase, beta-xylosidase, esculin hydrolysis, gas production fromd-glucose, and acid production fromd-cellobiose,d-lactose, melibiose,l-rhamnose, adonitol,d-arabitol, dulcitol, and salicin; the strains were negative for Voges-Proskauer, citrate (Simmons), H₂S (Kligler), lysine and ornithine decarboxylases, arginine dihydrolase, phenylalanine deaminase, gelatinase, DNase, Tween-80 hydrolysis, and acid production from myoinositol and alpha-methyl-d-glucoside. Fermentation ofd-raffinose,d-sucrose, andd-sorbitol is variable with strains. DNA relatedness of 11 strains ofL. adecarboxylata to three strains including the type strain of this species averaged 80% in reactions at 65°C. DNA relatedness to other species in Enterobacteriaceae was 2%–32%, indicating that this species was placed in a new genusLeclercia gen. nov. The type strain ofL. adecarboxylata is ATCC 23216.     

Control of urease formation in certain aerobic bacteria

Summary During nitrogen starvation, a 20- to 250-fold increase in specific urease activity was observed in extracts of P. aeruginosa, P. fluorescens, Hydrogenomonas, M. denitrificans, M. cerificans and B. megaterium. In contrast to these species, high levels of urease were observed in P. vulgaris strains and in S. ureae under all growth conditions. No urease was detectable in strains of E. coli, S. marcescens and B. polymyxa, regardless of growth conditions.Incubated in the absence of an exogenous nitrogen source, the specific urease activity increased during a period of 10 to 20 h in P. aeruginosa, Hydrogenomonas and M. denitrificans. Phosphate starvation did not significantly effect urease formation in these strains. The increase in specific urease activity was found to be repressed by exogenous nitrogen sources, including urea. Inhibition by chloramphenicol, other inhibitors, and by the lack of oxygen or fructose, indicated that a derepressive urease formation may occur in these strains. The involvement of traces of urea possibly released from endogenous sources during starvation is discussed.     

Phylogenetic and biochemical characterization of the oil-producing yeast Lipomyces starkeyi

Lipomyces starkeyi is an oleaginous yeast, and has been classified in four distinct groups, i.e., sensu stricto and custers α, β, and γ. Recently, L. starkeyi clusters α, β, and γ were recognized independent species, Lipomyces mesembrius, Lipomyces doorenjongii, and Lipomyces kockii, respectively. In this study, we investigated phylogenetic relationships within L. starkeyi, including 18 Japanese wild strains, and its related species, based on internal transcribed spacer sequences and evaluated biochemical characters which reflected the phylogenetic tree. Phylogenetic analysis showed that most of Japanese wild strains formed one clade and this clade is more closely related to L. starkeyi s.s. clade including one Japanese wild strain than other clades. Only three Japanese wild strains were genetically distinct from L. starkeyi. Lipomyces mesembrius and L. doorenjongii shared one clade, while L. kockii was genetically distinct from the other three species. Strains in L. starkeyi s.s. clade converted six sugars, d-glucose, d-xylose, l-arabinose, d-galactose, d-mannose, and d-cellobiose to produce high total lipid yields. The Japanese wild strains in subclades B, C, and D converted d-glucose, d-galactose, and d-mannose to produce high total lipid yields. Lipomyces mesembrius was divided into two subclades. Lipomyces mesembrius CBS 7737 converted d-xylose, l-arabinose, d-galactose, and d-cellobiose, while the other L. mesembrius strains did not. Lipomyces doorenjongii converted all the sugars except d-cellobiose. In comparison to L. starkeyi, L. mesembrius, and L. doorenjongii, L. kockii produced higher total lipid yields from d-glucose, d-galactose, and d-mannose. The type of sugar converted depended on the subclade classification elucidated in this study.     

Deoxyribonucleic acid relatedness inYersinia enterocolitica andYersinia enterocolitica-like organisms

Yersinia enterocolitica andY. enterocolitica-like strains were characterized by DNA relatedness. These strains formed four distinct DNA relatedness groups: (i) the 5 classical biotypes ofY. enterocolitica sensu stricto as designated by Wauters; (ii) strains that are rhamnose positive and also positive in tests for melibiose, α-methyl-d-glucoside, raffinose, and Simmons' citrate; (iii) strains that are rhamnose positive but negative in tests for melibiose, α-methyl-d-glucoside, and raffinose; (iv) sucrose-negative, Voges-Proskauer-negative, trehalose-positive strains.