The Specificity of Transgene Suppression in Plants by Exogenous dsRNA

The phenomenon of RNA interference (RNAi) is widely used to develop new approaches for crop improvement and plant protection. Recent investigations show that it is possible to downregulate plant transgenes, as more prone sequences to silencing than endogenous genes, by exogenous application of double-stranded RNAs (dsRNAs) and small interfering RNAs (siRNAs). However, there are scarce data on the specificity of exogenous RNAs. In this study, we explored whether plant transgene suppression is sequence-specific to exogenous dsRNAs and whether similar effects can be caused by exogenous DNAs that are known to be perceived by plants and induce certain epigenetic and biochemical changes. We treated transgenic plants of Arabidopsis thaliana bearing the neomycin phosphotransferase II (NPTII) transgene with specific synthetic NPTII-dsRNAs and non-specific dsRNAs, encoding enhanced green fluorescent protein (EGFP), as well as with DNA molecules mimicking the applied RNAs. None of the EGFP-dsRNA doses resulted in a significant decrease in NPTII transgene expression in the NPTII-transgenic plants, while the specific NPTII-dsRNA significantly reduced NPTII expression in a dose-dependent manner. Long DNAs mimicking dsRNAs and short DNA oligonucleotides mimicking siRNAs did not exhibit a significant effect on NPTII transgene expression. Thus, exogenous NPTII-dsRNAs induced a sequence-specific and RNA-specific transgene-suppressing effect, supporting external application of dsRNAs as a promising strategy for plant gene regulation.

On the origin of matrix mechanism in protocells and key problems of molecular biology

The theory of the emergence of the matrix mechanism in protocells on complexes of minerals (apatite, carbonate-apatite, calcite, and quartz) with the reciprocal proportions and with the participation of the gas phase radicals (NH3, CH4, and CO) is considered. The structure of apatite and carbonate-apatite predetermined the formation of a double helix of DNA with the complementary pairs of purine-pyrimidine bases, as well as RNA strands complementary to DNA, and helical protein chains combined into supramolecular structures with RNA. It is proposed that during the Archean Eon, a gradual replacement of the mineral matrix with organic matter took place. The site of the origin of the matrix mechanism is the defect-free and growing defective zone of apatite and carbonate-apatite. The size and specificity of DNA, complementary-bound RNA and protein molecules in supramolecular protein-RNA complexes increased as defects accumulated in the structure of minerals. An increase in the size of RNA transcripts was accompanied by an increase in the number of protein molecules in supramolecular protein-RNA complexes. At the first, anhydrous, stage, the formation of a transcriptional-translational apparatus in the form of a crystalline organic-mineral complex -DNA, RNA and protein, based on the "spiral into spiral" principle of gas phase elements. The appearance of water determined the launch of the transcriptional-translational apparatus and the transformation of the organo-mineral crystalline complex into a liquid-crystalline state. A detailed description of the preparation and launch of the matrix mechanism is given. The following problems are discussed: the origin of ribosomal proteins and the role of super-specific aminoacyl-tRNA synthetase as a true carrier of genetic information; properties of the genetic code and synthesis of protocells without violating the second law of thermodynamics; the origin of biological asymmetry; the appearance of nanobacteria and dark genetic matter of eukaryotic systems.Communicated by Ramaswamy H. Sarma.

Engineering of Chimeric Protein Based on E Protein Domain III of Tick- Borne Encephalitis Virus and OmpF Porin of Yersinia pseudotuberculosis

BACKGROUND

Tick-borne encephalitis poses a serious public health threat in the endemic regions. The disease treatment is restricted to symptomatic therapy, so great expectations are in the development of the prophylactic and therapeutic vaccines. The domain III of E protein of the tickborne encephalitis virus is the main antigenic domain which includes virus-specific epitopes recognized by neutralizing antibodies.

OBJECTIVES

The main objective of this study was to design, express, isolate and characterize the chimeric protein based on the fusion of domain III of E protein of the tick-borne encephalitis virus and bacterial porin OmpF from Yersinia pseudotuberculosis.

METHODS

The chimeric gene was obtained by the PCR based fusion method from two fragments containing overlapping linker sequences. Resulting plasmids were transformed into BL21(DE3) pLysS electrocompetent cells for subsequent heterologous protein expression. All recombinant proteins were purified using immobilized metal affinity chromatography under denaturing conditions. The identity of the chimeric protein was confirmed by MALDI-TOF mass spectrometry and immunoblot analysis. The content of antibodies against the EIII protein was estimated in mice blood serum by ELISA.

RESULTS

The bacterial partner protein was used for decreasing toxicity and increasing immunogenicity of antigen. The chimeric protein was successfully expressed by the Escherichia coli cells. The purified protein was recognized with immunoblots by anti-E protein of tick-borne encephalitis virus monoclonal antibodies. Furthermore, the protein was able to elicit antibody response against domain III of E protein in immunized mice.

CONCLUSION

The newly obtained chimeric antigen could be valuable for the development of the preventing tick-borne encephalitis subunit vaccines.

The influence of monogalactosyldiacylglycerols from different marine macrophytes on immunogenicity and conformation of protein antigen of tubular immunostimulating complex

The tubular immunostimulating complex (TI-complex) is a novel nanoparticulate antigen delivery system consisting of cholesterol, triterpene glycoside cucumarioside A(2)-2, and glycolipid monogalactosyldiacylglycerol (MGDG) isolated from marine macrophytes. MGDG is crucial for the formation of a lipid matrix for the protein antigen incorporated in TI-complexes. Fatty acid composition and the physical state of this glycolipid depend on the taxonomic position of marine macrophytes. Therefore, the aim of the present work was to study the capacity of MGDGs, isolated from five species of marine macrophytes, to influence conformation and to enhance immunogenicity of porin from Yersinia pseudotuberculosis (YOmpF) as a model antigen of subunit vaccine based on TI-complexes. The trimeric porin was chosen for these experiments, because it was approximately two times more immunogenic than monomeric porin incorporated in TI-complexes. Immunization of mice with YOmpF within TI-complexes, comprised of different MGDGs, revealed a dependence of the immunostimulating effect of TI-complexes on the microvicosity of this glycolipid. TI-complexes comprising MGDGs from Sargassum pallidum and Ulva fenestrata with medium microviscosity induced maximal levels of anti-porin antibodies (four times higher when compared with those induced by pure porin). The adjuvant effect of TI-complexes based on other MGDGs varied by 2.8, 2.3 and 1.3 times for TI-complexes comprised of MGDGs from Zostera marina, Ahnfeltia tobuchiensis, and Laminaria japonica, respectively. MGDGs are also able to influence cytokine mechanisms of immunological regulation. DSC and spectroscopic studies showed that maximal immunostimulating effect of TI-complexes correlated with a moderate stabilizing influence of MGDGs from S. pallidum and U. fenestrata on the conformation of porin. The results obtained suggest lipid "nanofluidics" as a novel strategy for optimizing the immune response to protein antigens within lipid particulate systems.

Tubular immunostimulating complex based on cucumarioside A2-2 and monogalactosyldiacylglycerol from marine macrophytes

Background

There is an urgent need to develop safe and effective adjuvants for the new generation of subunit vaccines. We developed the tubular immunostimulating complex (TI-complex) as a new nanoparticulate antigen delivery system. The morphology and composition of TI-complexes principally differ from the known vesicular immunostimulating complexes (ISCOMs). However, methodology for the preparation of TI-complexes has suffered a number of shortcomings. The aim of the present work was to obtain an antigen carrier consisting of triterpene glycosides from Cucumaria japonica, cholesterol, and monogalactosyldiacylglycerol from marine macrophytes with reproducible properties and high adjuvant activity.

Results

The cucumarioside A₂-2 - cholesterol - MGalDG ratio of 6:2:4 (by weight) was found to provide the most effective formation of TI-complexes and the minimum hemolytic activity in vitro. Tubules of TI-complexes have an outer diameter of about 16 nm, an inner diameter of 6 nm, and a length of 500 nm. A significant dilution by the buffer gradually destroyed the tubular nanoparticles. The TI-complex was able to increase the immunogenicity of the protein antigens from Yersinia pseudotuberculosis by three to four times.

Conclusions

We propose an optimized methodology for the preparation of homogeneous TI-complexes containing only tubular particles, which would achieve reproducible immunization results. We suggest that the elaborated TI-complexes apply as a universal delivery system for different subunit antigens within anti-infectious vaccines and enhance their economic efficacy and safety.

Seasonal changes of fatty acid composition and thermotropic behavior of polar lipids from marine macrophytes

Major glyco- and phospholipids as well as betaine lipid 1,2-diacylglycero-O-4'-(N,N,N-tri-methyl)-homoserine (DGTS) were isolated from five species of marine macrophytes harvested in the Sea of Japan in summer and winter at seawater temperatures of 20-23 and 3 degrees C, respectively. GC and DSC analysis of lipids revealed a common increase of ratio between n-3 and n-6 polyunsaturated fatty acids (PUFAs) of polar lipids from summer to winter despite their chemotaxonomically different fatty acid (FA) composition. Especially, high level of different n-3 PUFAs was observed in galactolipids in winter. However, the rise in FA unsaturation did not result in the lowering of peak maximum temperature of phase transition of photosynthetic lipids (glycolipids and phosphatidylglycerol (PG)) in contrast to non-photosynthetic ones [phosphatidylcholine (PC) and phosphatidylethanolamine (PE)]. Different thermotropic behavior of these lipid groups was accompanied by higher content of n-6 PUFAs from the sum of n-6 and n-3 PUFAs in PC and PE compared with glycolipids and PG in both seasons. Seasonal changes of DSC transitions and FA composition of DGTS studied for the first time were similar to PC and PE. Thermograms of all polar lipids were characterized by complex profiles and located in a wide temperature range between -130 and 80 degrees C, while the most evident phase separation occurred in PGs in both seasons. Polarizing microscopy combined with DSC has shown that the liquid crystal - isotropic melt transitions of polar lipids from marine macrophytes began from 10 to 30 degrees C mostly, which can cause the thermal sensitivity of plants to superoptimal temperatures in their environment.

The possibility of the formation of protocells and their structural components on the basis of the apatite matrix and cocrystallizing minerals

This paper presents the author's theory on the possibility of simultaneous hard-phase synthesis of various organic molecules from gas-phase elements on the basis of the apatite matrix and cocrystallizing minerals (carbonate-apatite, calcite, mica). These molecules and their ensembles gave rise to living systems and protocells of the pro- and eukaryotic types. Synthesis might have occurred through gradual substitution of the mineral matrix by crystal organic matter. The structure and size of the molecules synthesized were determined by the structure, physical parameters, and arrangement of organizing centers in the crystal lattice. Apatite phosphates were embedded in a synthesized nucleic helix and their size and purine-pyrimidine complementarity were determined. Apatite and cocrystallizing minerals were seen to be involved in the synthesis of four basic classes of cell components: apatite-DNA and nucleoproteide complexes; carbonate-apatite-enzymes, other proteins involved in DNA replication, all RNA types and their complexes with the specific proteins and enzymes of transcription and translation; calcite-cytoskeletal proteins; and mica-membrane lipids and proteins. The evidence supporting this theory is presented. A possible mechanism to account for the transition from crystal through organo-mineral crystal to liquid crystal (protocell) and a model of the occurrence of the matrix mechanism of transcription and translation are proposed. Some principal problems in the biochemistry and molecular biology of the origin of life on the Earth are discussed.

Morphological and immunological characterization of immunostimulatory complexes based on glycoglycerolipids from Laminaria japonica

Some physicochemical properties of glycoglycerolipids (monogalactosyldiacylglycerol, digalactosyldiacylglycerol and sulfoquinovosyldiacylglycerol) from the sea algae Laminaria japonica, as well as their ability to become incorporate into immunostimulating complexes (ISCOMs), used as a delivery system of microbial and tumor antigens in vesicular form, were studied. These glycolipids were found to differ essentially in fatty acid composition, unsaturation index and thermotropic behavior. The possibility of ISCOM modification by embedding the glycolipids studied instead of a phospholipid component in vesicles was shown. A preliminary research of the immunogenicity of the pore-forming protein from Yersinia pseudotuberculosis in modified (by monogalactosyldiacylglycerol) and typical (egg phosphatidylcholine) ISCOMs did not reveal a significant enhancement of immune response in comparison with that of isolated protein.

Fatty acid composition of individual polar lipid classes from marine macrophytes

Major glycolipids [monogalactosyldiacylglycerol (MGDG), digalactosyldiacylglycerol (DGDG), sulfoquinovosyldiacylglycerol (SQDG)) and phospholipids (phosphatidylcholine (PC), phosphatidylethanolamine (PE) and phosphatidylglycerol (PG)] as well as betaine lipid 1,2-diacylglycero-O-4'-(N,N,N-tri-methyl)-homoserine (DGTS) were isolated from Anfeltia tobuchiensis (Rhodophyta), Laminaria japonica, Sargassum pallidum (Phaeophyta), Ulva fenestrata (Chlorophyta) and Zostera marina (Embriophyta), harvested in the Sea of Japan. GC analysis of their fatty acid (FA) composition revealed that the n-6 polyunsaturated FAs (PUFAs) shared the most part of the sum of n-6 and n-3 PUFAs in PC and PE compared with glycolipids and PG. In algae, it was related to the prevalence of 20:4n-6 over 20:5n-3 in non-photosynthetic lipids. Percentage of n-6 PUFAs as well as the sum of n-3 and n-6 PUFAs decreased in the following sequence: PC-->PE-->PG. The saturation increased in the lines of MGDG-->DGDG-->SQDG and PC-->PE-->PG. PG was close to SQDG by the level of saturation. Distribution of C(18) and C(20) PUFAs in polar lipids depended on taxonomic position of macrophytes. Balance between C(18) and C(20) PUFAs was preferably shifted to the side of C(20) PUFAs in PC and PE that was observed in contrast to glycolipids and PG from L. japonica containing both series of FAs. The set of major FAs of polar lipid classes can essentially differ from each other and from total lipids of macrophytes. For example, MGDG was found to accumulate characteristic fatty acids 16:4n-3, 16:3n-3, 18:3n-6 and 18:4n-3, 20:3n-6 in U. fenestrata, Z. marina, L. japonica and S. pallidum, respectively.

Morphological and immunological characterization of immunostimulatory complexes based on glycoglycerolipids from Laminaria japonica

Some physicochemical properties of glycoglycerolipids (monogalactosyldiacylglycerol, digalactosyldiacylglycerol and sulfoquinovosyldiacylglycerol) from the sea algae Laminaria japonica, as well as their ability to become incorporate into immunostimulating complexes (ISCOMs), used as a delivery system of microbial and tumor antigens in vesicular form, were studied. These glycolipids were found to differ essentially in fatty acid composition, unsaturation index and thermotropic behavior. The possibility of ISCOM modification by embedding the glycolipids studied instead of a phospholipid component in vesicles was shown. A preliminary research of the immunogenicity of the pore-forming protein from Yersinia pseudotuberculosis in modified (by monogalactosyldiacylglycerol) and typical (egg phosphatidylcholine) ISCOMs did not reveal a significant enhancement of immune response in comparison with that of isolated protein.

Thermotropic behavior of major phospholipids from marine invertebrates: changes with warm-acclimation and seasonal acclimatization

The crystal-liquid crystal-isotropic melt phase transitions of phosphatidylcholine (PC) and phosphatidylethanolamine (PE) from muscle tissue of five species (actinia Metridium senile fimbriatum, mussel Crenomytilus grayanus, sea-urchin Strongylocentrotus intermedius, starfish Distolasterias nipon and the ascidian Halocynthia aurantium) of marine invertebrates, collected in winter at 0 degrees C and then acclimated to 18.5 degrees C for 5 days, were studied by differential scanning calorimetry and polarising microscopy. To elevate temperature from 0 to 18.5 degrees C, we used the rate of 4.5 degrees C/h. Although phase transitions of both phospholipids from animals collected in summer occurred already at temperatures below -1.7 oC (minimal temperature of seawater in winter), compensatory mechanisms resulted in a decrease by 29-43 oC in the phase transition temperature of PE in winter. Thermotropic behavior of PCs changed in various trends. However, the total heat of their phase transitions always decreased in winter compared with summer. For all species, except the mussel, the time of warm-acclimation was insufficient to adjust the thermotropic behavior of either phospholipid. Nevertheless, the unsaturation index decreased to achieve summer values, due primarily to decreased proportions of eicosapentaenate and docosahexaenate. The accumulation of arachidonate, during warm-acclimation, might be connected to the signalling properties of n-6 eicosanoids. Absence of effective homeoviscous mechanisms suggests that most of the studied marine invertebrates have very limited capacity to survive an acute temperature elevation, e.g. at the appearance of thermal currents.

Seasonal changes in thermotropic behavior of phosphatidylcholine and phosphatidylethanolamine in different organs of the ascidian Halocynthia aurantium

Differential scanning calorimetry and polarising microscopy were used to investigate the crystal-liquid crystal-isotropic melt phase transitions of phosphatidylcholine (PC), and phosphatidylethanolamine (PE), isolated from muscles, gill pouches, gonads and digestive glands of Halocynthia aurantium, collected in summer and winter. We also analyzed the fatty chain composition of these phospholipids. In summer, the crystalline to liquid crystalline phase transitions of PC and PE from different organs were more co-operative than in winter. Their peak maximum temperatures were close and temperature ranges overlapped for summer samples. Peak maximum temperatures of winter samples decreased sharply, by 18-27 degrees C for PC and by 10-44 degrees C for PE, respectively, depending on the organ. Total heat changes of transitions also decreased. Thermograms were completely located at temperatures below -1.7 degrees C (minimal temperature of seawater in winter). In contrast to summer samples, peak maximum temperatures for PC and PE in winter differed significantly, (by 14-30 degrees C depending on organ), while the temperature ranges of their transitions still showed considerable overlap. Simultaneously, the temperature ranges of the liquid crystalline to isotropic phase transitions decreased. The main reason for changes in thermotropic behavior of phospholipids seems to be the decrease of saturated/unsaturated ratios. The existence of stable and thermoadaptative labile phospholipid pools in the membrane structure is proposed. The relationship of these transitions to low- and high-temperature adaptation is discussed.

Thermotropic behaviour of membrane lipids from brown marine alga Laminaria japonica

Microcalorimetry was used to show that transition-temperature ranges of phospho- and glycolipids of the brown marine alga Laminaria japonica were similar (from -62 to -47 degrees C up to 62-65 degrees C), except for monogalactosyldiacylglycerol, the low-temperature limit of which was shifted to -78 degrees C. As was shown by polarizing microscopy, the low-enthalpy peaks at temperatures of approx. 30-45 degrees C corresponded to isotropic melting of galactolipids and coincided with the high-temperature limit for photosynthetic and mitochondrial activity of the algae. As a whole, a classical interrelation was observed between thermotropic behaviour and the fatty acid unsaturation of lipids.

Role of lipids in molecular thermoadaptation mechanisms of seagrass Zostera marina

By using the combined approaches of microcalorimetric analysis and polarizing microscopy, the crystal-liquid crystal-isotropic melt phase transition of major phospholipids (phosphatidylcholine and phosphatidylethanolamine) and glycolipids (monogalactosyldiacylglycerol and digalactosyldiacylglycerol) isolated from marine seagrass Zostera marina were investigated. Here we discuss the results in view of the fatty acid structures of the lipids studied.

A universal reagent for phospholipid analysis

A simple procedure for preparing a stable stock reagent an working reagents for the detection and determination of phospholipids is proposed, and a simple, rapid and accurate thin-layer chromatographic technique is suggested. The results obtained for egg yolk phospholipids are presented as an example.

Modified spray for the detection of phospholipids on thin-layer chromatograms

A simplified method for the preparation of the Dittmer-Lester spray for the detection of phospholipids on thin-layer chromatograms is described.