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Vol 53, No 3 (2017)

Article

Signal and regulatory effects of methylglyoxal in eukaryotic cells (review)

Kosmachevskaya O.V., Shumaev K.B., Topunov A.F.

Abstract

Methylglyoxal (MG) is one of the physiological glucose metabolites formed in living organisms. The data on the influence of MG on different internal systems of eukaryotic cells, including the central signaling pathways, are been discussed in the review. The central signaling pathways are stress-activated and sensitive to the action of reactive oxygen species. Integration of the literary data and authors’ results has allowed the conclusion that MG action on cells is multidirectional and is determined by its concentration and the physiological state of the cell. The cellular reaction upon increasing MG concentrations has a phase pattern and can be described by the hormesis concept. It has been hypothesized that MG participates in the formation of the braking regulatory circuit, which modulates the sensitivity of hypothalamus neurons to glucose. It is concluded that MG has a possible role in the functioning of the great biological clock. We propose that the data discussed in this review allow methylglyoxal to be considered a molecule with signal and regulatory functions.

Applied Biochemistry and Microbiology. 2017;53(3):273-289
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New recombinant producer of human ω-amidase based on Escherichia coli

Krasnikov B.F., Deryabina Y.I., Isakova E.P., Biriukova I.K., Shevelev A.B., Antipov A.N.

Abstract

A new artificial gene encoding human ω-amidase (Nit2) adapted for highly efficient expression in E. coli has been established. A pQE-Nit2 plasmid construct controlled by the T5 promoter has been engineered for its expression. The nit2 gene within the pQE-Nit2 construct has optimized codon usage and an artificial 6His-tag sequence inserted directly after the ATG initiation codon. This tag provides the possibility of single-step purification of a product via metal chelate chromatography. The codon-usage optimization involves the inclusion of several codons of extremely rare occurrence in natural E. coli ORFs within a 30 a.a-long N-terminal region. Other codons included in the N-terminus have moderate occurrence in E. coli. The subsequent sequence of the artificial gene has been composed of the most frequently occurring codons in E. coli. The recombinant producer based on the pQE-Nit2 construct allowed purification of the enzyme with an activity of 6.2 ± 0.2 μmol/min/mg protein, which corresponds to or slightly exceeds the specific activity of rat liver Nit2. The omega-amidase preparation is necessary for the screening of potential inhibitors that can be used as candidate drugs to cure hyperammonemia disorders in liver pathologies and oncological diseases.

Applied Biochemistry and Microbiology. 2017;53(3):290-295
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Synonymous codon changes at the 5′-end of the gene strongly impact the heterologous protein expression in Escherichia coli

Bashir S., Iqbal M., Sadaf S., Akhtar M.W.

Abstract

This study describes the impact of 5′-end codon modulation on the expression of a heterologous gene, human granulocyte colony stimulating factor (GCSF), in Escherichia coli. Fourteen different constructs (pGCSF-01 to pGCSF-14) carrying single or multiple synonymous substitutions at +2, +3 and further down from +4 to +7 codons, were prepared and their expression was monitored in E. coli BL21 Codon-Plus (DE3) RIPL using a strong T7 lac-promoter based expression system. A single nucleotide change at +2 Thr codon (ACC→ACA) either alone or in combination with +3 Pro codon (CCC/CCT/CCA) resulted in the expression enhancement of an otherwise poorly expressed native-GCSF, to a level that corresponded to 45–50% of the total E. coli BL21 CodonPlus (DE3) RIPL cellular proteins. The differences in GCSF expression amongst different constructs could be attributed to the preferential or non-preferential codon usage, reduced number of G/C nucleotides and the stability of mRNA secondary structure formed near the 5′-end coding region. The expression of GCSF achieved was in the form of biologically inactive inclusion bodies that were solubilized using mild concentration of a non-ionic surfactant and refolded by a simplified, step-dialysis approach. Biological activity of the purified GCSF, assessed in induced neutropenic mice, was similar to the commercially available preparation of the GCSF analog (filgrastim).

Applied Biochemistry and Microbiology. 2017;53(3):296-303
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Effect of extra- and intracellular sources of CO2 on anaerobic utilization of glucose by Escherichia coli strains deficient in carboxylation-independent fermentation pathways

Skorokhodova A.Y., Gulevich A.Y., Debabov V.G.

Abstract

The effect of extra- and intracellular CO2 sources on anaerobic glucose utilization by Escherichia coli strains deficient in the main pathways of mixed acid fermentation and possessing a modified system of glucose transport and phosphorylation was studied. Intracellular CO2 generation in the strains was ensured resulting from the oxidative decarboxylation of pyruvic acid by pyruvate dehydrogenase. Endogenous CO2 formation by pyruvate dehydrogenase stimulated anaerobic glucose consumption by the strains due to the involvement in the fermentation process of condensation reactions between oxaloacetic acid and acetyl-CoA. The availability of an external CO2 source (dissolved in medium sodium bicarbonate) promoted utilization of carbohydrate substrate by favoring the predominant participation in the fermentation of reactions directly dependent on phosphoenolpyruvate carboxylation. The positive effect of the availability of exogenous СО2 was sharply decreased in recombinant strains with the impaired functionality of the reductive branch of the tricarboxylic acid cycle. As a result, intracellular СО2 generation coupled to acetyl-CoA formation promoted anaerobic glucose utilization by cells of the corresponding mutants more markedly than the presence in the medium of dissolved sodium bicarbonate.

Applied Biochemistry and Microbiology. 2017;53(3):304-309
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Identification of the di-n-butyl phthalate-biodegrading strains and the biodegradation pathway in strain LMB-1

Fang Y., Zhang L., Wang J., Zhou Y., Ye B.

Abstract

DNA isolated from a greenhouse soil (Nanjing, Jiangsu Province, China) was suitable for PCR amplification of gene segment coding for the 16S rRNA. Diverse PCR products were characterized by cloning and sequencing, and analysis of bacterial colonies showed the presence over 26 phyla. The most bacteria belonged to Proteobacteria, Actinobacteria, Gemmatimonadetes, Acidobacteria and Planctomycetes. Furthermore, after the enrichment procedure of DBP-degrading microorganisms, 4 strains were isolated from the soil sample with di-n-butyl phthalate (DBP) biodegradability, and they were identified to be Rhizobium sp., Streptomyces sp., Pseudomonas sp. and Acinetobacter sp. Analysis of the degradation products by LC-MS led to identification of metabolites of DBP in strain LMB-1 (identified as Rhizobium sp.) which suggests that DBP was degraded through β-oxidation, demethylation, de-esterification and cleavage of aromatic ring.

Applied Biochemistry and Microbiology. 2017;53(3):310-317
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Characterization flavanone 3β-hydroxylase expressed from Populus euphratica in Escherichia coli and its application in dihydroflavonol production

Pei J., Dong P., Wu T., Zhao L., Cao F., Tang F.

Abstract

Flavanone 3β-hydroxylase plays very important role in the biosynthesis of flavonoids. A putative flavanone 3β-hydroxylase gene (Pef3h) from Populus euphratica was cloned and over-expressed in Escherichia coli. Induction performed with 0.1 mM IPTG at 20°C led to localization of PeF3H in the soluble fraction. Recombinant enzyme was purified by Ni-NTA affinity. The optimal activity of PeF3H was revealed at pH 7.6 and 35°C. The purified enzyme was stable over pH range of 7.6–8.8 and had a half-life of 1 h at 50°C. The activity of PeF3H was significantly enhanced in the presence of Fe2+ and Fe3+. The KM and Vmax for the enzyme using naringenin as substrate were 0.23 mM and 0.069 μmoles mg–1min-1, respectively. The Km and Vmax for eriodictyol were 0.18 mM and 0.013 μmoles mg–1min–1, respectively. The optimal conditions for naringenin bioconversion in dihydrokaempferol were obtained: OD600 of 3.5 for cell concentration, 0.1 mM IPTG, 5 mM α-ketoglutaric acid and 20°C. Under the optimal conditions, naringenin (0.2 g/L) was transformed into 0.18 g/L dihydrokaempferol within 24 h by the recombinant E. coli with a corresponding molar conversion of 88%. Thus, this study provides a promising flavanone 3β-hydroxylase that may be used in biosynthetic applications.

Applied Biochemistry and Microbiology. 2017;53(3):318-324
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Preparation, properties and potential applications of exopolysaccharides from bacteria of the genera Xanthobacter and Ancylobater

Kichemazova N.V., Bukharova E.N., Selivanov N.Y., Bukharova I.A., Karpunina L.V.

Abstract

Two new bacterial biopolymers (exopolysaccharides), ancylan and xylophilan, have been isolated and characterized. The optimal parameters for ancylan and xylophilan production under laboratory conditions were selected. Their physicochemical properties and effects on microorganisms (bacteria, fungi, and ciliates) were studied. The results suggest the potential application of these new exopolysaccharides in medicine and veterinary science.

Applied Biochemistry and Microbiology. 2017;53(3):325-330
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Cyanide detoxification by microbial consortia of natural-industrial complexes of gold heap leaching

Belykh M.P., Petrov S.V., Chikin A.Y., Adelshin R.V., Belkova N.L.

Abstract

Microorganisms that have adapted not only to high concentrations of pollutants but also to environmental conditions develop in autochthonous microbial communities of natural-industrial complexes of gold heap leaching. The biotechnological potential and diversity of autochthonous microbial communities involved in cyanide detoxification was evaluated by the example of a deposit situated in the Sakha (Yakutia) Republic. Under the zoning conditions of the ore heap, the biological component had a greater impact on cyanide destruction than chemical transformation. Metabolically active representatives of a microbial consortium are capable of surviving developed under these conditions. Phylotypes of the genus Serratia and family Alcaligenaceae that are capable of cyanide destruction and are potentially promising for the detoxification of wastes of gold heap leaching were revealed.

Applied Biochemistry and Microbiology. 2017;53(3):331-337
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Intermicrobial relationships of the pea nodule symbiont Serratia sp. Ent16 and its colonization of the host endorhizosphere

Garipova S.R., Garifullina D.V., Baimiev A.H., Khairullin R.M.

Abstract

A strain of Serratia sp. Ent16 isolated from internal tissues of pea nodule inhibited in vitro growth of the plant pathogens Fusarium oxysporum and Bipolaris sorokiniana and the model strain Rhizobium leguminosarum bv viceae 1078 but had a considerably weaker antagonistic effect on the Rhizobium strain Rh16 from its own nodule. Cells of the Ent16 strain tagged by the gfp gene (the Ent16-gfp strain) were not seen in the pea endorhizosphere when plants were grown in a rich culture medium. The development of symbiosis was favored by plant germination on filter paper. Confocal microscopy showed that individual cells of the Ent16-gfp strain were attached to the outer side of root hair cell walls, while agglomerations of fluorescent bacterial cells were detected in the zone of exoderm of lateral root formation and in root vessels. A series of scanned sections of pea root revealed the presence of the Ent16-gfp strain in lateral root primordia, through which the bacteria penetrated the endorhizosphere.

Applied Biochemistry and Microbiology. 2017;53(3):338-345
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Strains of Bacillus ssp. regulate wheat resistance to Septoria nodorum Berk.

Burkhanova G.F., Veselova S.V., Sorokan’ A.V., Blagova D.K., Nuzhnaya T.V., Maksimov I.V.

Abstract

The ability of Bacillus subtilis Cohn and Bacillus thuringiensis Berliner to induce systemic resistance in wheat plants to the casual agent of Septoria nodorum Berk., blotch has been studied. It has been shown that strains of Bacillus ssp. that possess the capacity for endophytic survival have antagonistic activity against this pathogen in vitro. A reduction of the degree of Septoria nodorum blotch development on wheat leaves under the influence of Bacillus spp. was accompanied by the suppression of catalase activity, an increase in peroxidase activity and H2O2 content, and expression of defence related genes such us PR-1, PR-6, and PR-9. It has been shown that B. subtilis 26 D induces expression levels of wheat pathogenesis-related (PR) genes which marks a SA-dependent pathway of sustainable development and that B. thuringiensis V-5689 and V-6066 induces a JA/ET-dependent pathway. These results suggest that these strain Bacillus spp. promotes the formation of wheat plant resistance to S. nodorum through systemic activation of the plant defense system. The designed bacterial consortium formed a complex biological response in wheat plants infected phytopathogen.

Applied Biochemistry and Microbiology. 2017;53(3):346-352
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Protective effect of inhibitors of succinate dehydrogenase on wheat seedlings during osmotic stress

Kolupaev Y.E., Karpets Y.V., Yastreb T.O., Firsova E.N.

Abstract

The effect of malonate and sedaxane, a compound with the fungicidal effect which act as succinate dehydrogenase inhibitors, on the resistance of etiolated wheat seedlings (Triticum aestivum L.) to osmotic stress caused by 12% PEG 6000 solution, was studied. The presowing treatment of seeds with 0.3 mM sedaxane solution significantly reduced the inhibitory effect of osmotic stress on seedling growth. The protective effect of 10 mM malonate was significant when it was added to the incubation medium of the roots; the effect of preseeding treatment with malonate was less significant. Unlike malonate, malate had no positive effect on seedling growth under osmotic stress. The activity of succinate dehydrogenase and the hydrogen peroxide content decreased in seedlings after the treatment of roots with malonate and sedaxane. Pretreatment with sedaxane and the addition of malonate to the incubation medium of roots prevented the accumulation of a lipid peroxidation product, malondialdehyde, which is caused by osmotic stress, and increased peroxidase activity. It was concluded that the stress-protective effect of sedaxane and malonate on wheat seedlings might be due to the inhibition of succinate dehydrogenase-dependent formation of reactive oxygen species and the prevention of oxidative cell damage.

Applied Biochemistry and Microbiology. 2017;53(3):353-358
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Flor yeast strains from culture collection: Genetic diversity and physiological and biochemical properties

Kishkovskaia S.A., Eldarov M.A., Dumina M.V., Tanashchuk T.N., Ravin N.V., Mardanov A.V.

Abstract

Sixteen flor yeast strains from the Magarach Collection of the Microorganisms for Winemaking (Yalta, Crimea), which are used for production of sherry, were analyzed for morphophysiological, cultural, and biochemical properties. Long-term storage did not affect their viability or the preservation of major properties, such as their flor- and aldehyde-forming abilities, and the ability to produce wines with typical sherry properties. Significant variation in the strains was observed mainly in the aldehyde-forming and flor-forming abilities and flor properties. Interdelta typing was shown to be the most informative technique to study the genetic diversity of flor yeast strains. Certain correlations between genetic polymorphisms and the enological properties of the strains were observed. The presence of a 24-bp long deletion in the ITS1 spacer of the ribosomal gene cluster, a typical feature of Spanish flor yeast strains, is correlated with a high level of production of aldehydes and acetales, efficient flor formation, and the ability to produce high quality sherry. The presence of a specific deletion in the promoter of the FLO11 gene appeared to be less informative, since the aldehyde and acetal production and flor formation abilities of such strains were variable. The studies of intraspecies genetic polymorphism by various molecular markers have revealed a high degree of phylogenetic closeness of some yeast flor strains from different geographic regions.

Applied Biochemistry and Microbiology. 2017;53(3):359-367
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Penicillium verrucosum as promising candidate for bioremediation of environment contaminated with synthetic detergent at high concentration

Jakovljević V.D., Vrvić M.M.

Abstract

The aim of this study was to investigate the effect of synthetic detergent Merix (Henkel, Kruševac, Serbia), and its particular components—ethoxylated oleyl-cetyl alcohol and sodium tripolyphosphate on the growth and metabolic activity of Penicillium verrucosum. During 19 days of fungal cultivation in Czapek-Dox liquid medium supplemented with or without 0.5% pollutants, the following parameters were observed: pH, the total biomass dry weight, the quantity of free and total organic acids and proteolytic activity. The detergent caused a slight stimulatory (2.41%) effect whereas sodium tripolyphosphate and ethoxylated oleyl-cetyl alcohol provided a slight inhibitory action (0.59 and 2.75%, respectively) on the fungal biomass. The pollutants decreased pH values of the media and the quantity of free organic acids. In contrast, they enhanced the quantity of total organic acids. Proteolytic activity remained nearly unchanged (95.8%) in the presence of detergent and reduced to 80.1% in sodium tripolyphosphate-supplemented medium. In contrast, the enzyme activity sharply increased (260.8%) with ethoxylated oleyl-cetyl alcohol. The obtained results indicate the potential of P. verrucosum in bioremediation of environment contaminated with synthetic detergent taken in high concentration.

Applied Biochemistry and Microbiology. 2017;53(3):368-373
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Aromatic and monoterpene alcohol accumulation by Eremothecium ashbyi strains differing in riboflavinogenesis

Semenova E.F., Shpichka A.I., Presnyakova E.V.

Abstract

We examined the accumulation of phenylethanol, geraniol, citronellol, and nerol by Eremothecium ashbyi Guillermond 1935 strains characterized by different levels of riboflavin synthesis. There was a significant positive correlation between riboflavin and monoterpene alcohol biosyntheses (Spearman’s correlation coefficients = 0.81–1.00, p ≤ 0.05). Strain accumulation of the main secondary metabolites such as vitamin B2 and aroma forming compounds was found to be accompanied with an increase in the lipid droplet quantities and the vacuole filling with lipophilic compounds. These phenomena may be used as an indirect measure of riboflavinogenesis intensity and essential oil synthesis.

Applied Biochemistry and Microbiology. 2017;53(3):374-380
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A novel Bod-mediator biosensor based on Ferrocene and Debaryomyces hansenii yeast cells

Zaitseva A.S., Arlyapov V.A., Yudina N.Y., Nosova N.M., Alferov V.A., Reshetilov A.N.

Abstract

The mediators ferrocene, 1,1'-dimethylferrocene, ferrocene carboxaldehyde, ferrocene acetonitrile, neutral red, 2,6-dichlorophenolindophenol, thionine, methyl blue, and potassium ferricyanide were used in combination with Debaryomyces hansenii yeast cells to create a biosensor receptor for biochemical oxygen demand (BOD) assays. In this eukaryote, ferrocene and neutral red were observed to efficiently transfer electrons. The biosensor based on ferrocene was characterized by long-term stability (39 days) and a wide range of substrate specificity. The lower detected concentration boundary was 25.2 mg O2/dm3. A high correlation (R = 0.9971) was observed between the results obtained with water samples by this approach and the standard method. This is the first attempt to create a combination of yeast cells and a mediator. The biosensor can be employed for further research on the possibilities of its conventional use.

Applied Biochemistry and Microbiology. 2017;53(3):381-387
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