Miroslav Němec

Electrochemical study of heavy metals and metallothionein in yeast Yarrowia lipolytica

The bioaccumulation of heavy metals (cadmium, nickel, cobalt and zinc) and the effect of these metals on the production of metallothionein and metallothionein-like proteins (MT) in Yarrowia lipolytica was studied by electrochemical methods. The concentrations of heavy metals were determined by differential pulse voltammetry (DPV). A combination of the constant current chronopotentiometric stripping analysis (CPSA) and adsorptive transfer stripping technique (AdTS) was used to determine the content of MT in cells. Both the bioaccumulation of heavy metals and the production of MT in different cell compartments of Y. lipolytica exposed to heavy metals were monitored. The LD(50) of each metal was determined from the number of viable cells in yeast cultures: LD(50)Cd (37.5 microM), LD(50)Ni (570 microM), LD(50)Co (700 microM), and LD(50)Zn (1800 microM). The highest concentrations of heavy metals were found in the cell wall and membrane debris while the lowest concentrations were detected in the cytoplasm. Cadmium and nickel showed the most significant effect on the production of MT. This study provides new insights into the ecophysiology of microorganisms and demonstrates the potential use of these electrochemical methods in biotechnology.

QSAR for acute toxicity of saturated and unsaturated halogenated aliphatic compounds

Abstract Training-set of 19 compounds — 11 haloalkanes and 8 haloalkenes — was selected from a group of 58 halogenated aliphatic hydrocarbons using statistical experimental design. Strictly defined method was used for preparation of water solutions and toxicity measurements of volatile and poorly water-soluble halogenated aliphatic substances. The acute toxicity expressed as the effective concentrations (EC50) was determined for the compounds in the training set using the Microtox test. The quantitative structure-activity relationships (QSAR) models for haloaliphatic compounds were constructed using the Projection of latent structures method. Size of the molecules was the most important parameter for toxicity of saturated haloaliphatic compounds. This characteristics can be related to accumulation of the haloalkanes in biological membranes or binding to biomacromolecules. Toxicity of 2-chlorobutane was significantly higher than expected from its size. This compound, as the only representative of sB-substituted chloroderivatives in the data set, has probably different mode of action than terminally substituted compounds. Three unsaturated compounds — cis-1,2-dichloroethylene, trans- 1,4-dichlorobutene, and cis-1,4-dichlorobutene — displayed similar mode of action to that observed for haloalkanes, while another two haloalkenes — 3-chloropropylene, and 2,3-dibromopropylene displayed different - reactive - type of toxicity. The steric parameters had to be complemented by four electronic descriptors for explanation of their high toxicity.

Ribotyping of lactobacilli isolated from spoiled beer

Twenty-nine Lactobacillus strains contaminating beers in different Czech breweries as well as representative type strains obtained from the Czech Collection of Microorganisms were characterized using ribotyping with EcoRI and a probe made complementary to 16S and 23S rRNA genes. Biochemical test results assigned the 29 strains to the species L. brevis, L. plantarum, L. buchneri and L. paracasei subsp. paracasei. Ribotyping separated L. brevis, L. plantarum and L. paracasei subsp. paracasei strains into species-specific ribogroups in full correspondence with biotyping; L. buchneri strains were split into two ribogroups. Characteristic band patterns for each species and even typical bands of certain sizes were observed.

Characterization of Rhodococcus wratislaviensis strain J3 that degrades 4-nitrocatechol and other nitroaromatic compounds

The bacterial strain J3 was isolated from soil by selective enrichment on mineral medium containing 4-nitrocatechol as the sole carbon and energy source. This strain was identified as Rhodococcus wratislaviensis on the basis of morphology, biochemical, physiological and chemotaxonomic characterization and complete sequencing of the 16S rDNA gene. The isolated bacterium could utilize 4-nitrocatechol, 3-nitrophenol and 5-nitroguaiacol as sole carbon and energy sources. Stoichiometric release of nitrites was measured during degradation of 4-nitrocatechol both in growing cultures and for stationary phase cells. The J3 strain was unable to degrade 4-nitroguaiacol, 2-nitrophenol, 4-nitrophenol, 2,4-dinitrobenzoic acid, 4,5-dimethoxy-2-nitrobenzoic acid and 2,3-difluoro-6-nitrophenol. The J3 strain is deposited in the Czech Collection of Microorganisms as CCM 4930.

Growth parameters of Borrelia burgdorferi sensu stricto at various temperatures

Growth of Borrelia burgdorferi sensu stricto (prototype strain B-31) was studied in Barbour-Stoenner-Kelly BSK-H liquid medium, supplemented with 4.5% rabbit serum and antibiotics (phosphomycin, rifampicin), at various temperatures to early stationary growth phase. The number of cells was determined by darkfield microscopy. In the range of cultivation temperatures of 25 degrees C to 37 degrees C, generation time was between 8.26 and 12.36 h (the shortest one at 33 degrees C), and the specific growth rate between 0.056 and 0.083 h-1 (the highest one at 33 degrees C). The optimum growth temperature for B. burgdorferi was 33 degrees C, although good growth was also observed at 28 degrees C, 30 degrees C, 35 degrees C and 37 degrees C. The strain grew well but slowly at the temperature of 25 degrees C, whereas no growth was observed at 20 degrees C.

Ribotyping and Biotyping of Staphylococcus epidermidis Isolated from Hospital Environment

TheStaphylococcus strains acquired from scrapings from hospital environments were identified to the species level based on their biochemical properties. From the monitored sample theStaphylococcus epidermidis strains were selected for more accurate typing and tested on their virulence factor and ribotyped. The biotyping ofS. epidermidis did not show any considerable intraspecific variation of these isolates and there were no atypical reactions, with the exception of three strains (out of 33). In contrast, the results of ribotyping showed greater heterogeneity of strains and unequivocally demonstrated the relation between the ribotype and the place of sample drawing. In addition to this fact, the found ribotypes repeat in the same environment in the long term which suggests the occurrence and persistence of the same strains of conditionally pathogenic bacteria in hospital environment. We showed that ribotyping is a suitable method for precise and reliable detection of some coagulase-negative staphylococci.

Enzyme activities of Borrelia burgdorferi sensu lato

Activities of 19 enzymes were tested by the API ZYM system in 13 strains ofBorrelia burgdorferi sensu lato (B. burgdorferi sensu stricto,B. afzelii, B. garinii, B. lusitaniae, B. valaisiana) grown in liquid BSK-H medium supplemented with rabbit serum. All strains produced acid phosphatase, esterase (C4), esterase-lipase (C8), leucine arylamidase and naphthol-AS-BI-phosphohydrolase. Nine strains also produced alkaline phosphatase, and three strains produced α-glucosidase. The API ZYM system probably cannot be used for differentiation betweenB. burgdorferi sensu lato genomospecies.

Red-pink pigmented Hymenobacter coccineus sp. nov., Hymenobacter lapidarius sp. nov. and Hymenobacter glacialis sp. nov., isolated from rocks in Antarctica

Four rod-shaped and Gram-stain-negative bacterial strains, CCM 8647, CCM 8649T, CCM 8643T and CCM 8648T, were isolated from rock samples collected on James Ross Island, Antarctica. Extensive biotyping, fatty acid profiling, chemotaxonomy, 16S rRNA gene sequencing and whole-genome sequencing was applied to isolates to clarify their taxonomic position. Phylogenetic analysis based on 16S rRNA gene sequencing indicated that all four isolates belonged to the genus Hymenobacter. Strains CCM 8649T and CCM 8647 were most closely related to Hymenobacter arizonensis OR362-8T (94.4 % 16S rRNA gene sequence similarity), strain CCM 8643T to Hymenobacter terrae DG7AT (96.3 %) and strain CCM 8648T to Hymenobacter glaciei VUG-A130T (96.3 %). The predominant fatty acids of CCM 8649T and CCM 8647 were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), C16 : 1ω5c and iso-C15 : 0, whereas those of CCM 8643T and CCM 8648T were summed feature 3 (C16 : 1ω7c/C16 : 1ω6c) and C16 : 1ω5c. The quinone systems contained exclusively menaquinone MK-7. The major polyamine was sym-homospermidine. All four strains contained the major polar lipid phosphatidylethanolamine. The G+C content of genomic DNA ranged from 60-63 mol%. Whole-genome sequencing data supported the finding that isolates represented distinct species of the genus Hymenobacter. On the basis of the results obtained, three novel species are proposed for which the names Hymenobacter coccineus sp. nov., Hymenobacter lapidarius sp. nov. and Hymenobacter glacialis sp. nov. are suggested, with the type strains CCM 8649T (=LMG 29441T=P5239T), CCM 8643T (=LMG 29435T=P3150T) and CCM 8648T (=LMG 29440T=P5086T), respectively.

The influence of the growth phase of enteric bacteria on electrotransformation with plasmid DNA

Salmonella typhimurium LB5000 andEscherichia coli JM109 were transformed by electroporation. In accordance with the chemical transformation methods, the growth phase of these electrocompetent bacteria had a strong impact on transformation efficiency. Survival of bacteria, after the high-voltage electrical pulse was also influenced by the growth phase. Both bacterial species were most successfully electrotransformed when microbial cells were harvested at the late lag phase. The second optimum for transformation reachedE. coli cells in the mid-exponential andS. typhimurium cells in the late exponential phase. Transformation efficiencies ranged from 3.4×104 to 2.7×105 transformants per μg DNA in the case ofS. typhimurium and from 2.8 × 102 to 8.8×105 transformants per μg DNA in the case ofE. coli. Survival of cells after the electrical pulse in late lag and late exponential phases was about 20% higher than during other phases of growth. Preparing electrocompetent cells from later phases of their growth is more useful for practice, because it provides more biomass with good yield of transformants.

Use of immobilized cells of the strainCorynebacterium sp. for 4-nitrophenol degradation

Abstract4-Nitrophenol degrading bacterial strainCorynebacterium sp. 8/3 was isolated from chemically polluted soil. The product of cometabolic transformation of 4-nitrophenol was identified as 4-nitrocatechol., Effect of immobilization (encapsulation in calcium alginate) ofCorynebacterium sp. cells on the process of 4-nitrophenol transformation was investigated. 4-Nitrophenol was converted by encapsulated cells and encapsulation had a protective effect, on 4-nitrophenol degrading bacteria in repeated cycles of incubation. Transformation of 4-nitrophenol to 4-nitrocatechol by encapsulated cells was influenced by pH of medium but was not influenced by concentration of alginate and CaCl2. The count of viable cells in alginate beads declined approximately by one order of magnitude after 10 d of incubation.