Conformational peculiarities of nuclear protein HMGB1 and specificity of its interaction with DNA

Changes in the secondary structure of DNA and non-histone chromosomal protein HMGB1 were studied by circular dichroism and UV spectroscopy. We have demonstrated that the HMGBI protein is able to change its secondary structure upon binding to DNA. We estimated the proportion of bound protein on the assumption that there were two spectrally distinguishable forms of the HMGB1 in solution. The bound protein fraction decreases with increasing protein to DNA ratios (r) from 0.48 at r = 0.13 to 0.06 at r = 2.43. It has been shown that HMGB1 is able to induce considerable changes in DNA structure even when the amount of the protein directly associated with DNA is low.     

Novel inositol catabolic pathway in Thermotoga maritima

myo‐inositol (MI) is a key sugar alcohol component of various metabolites, e.g. phosphatidylinositol‐based phospholipids that are abundant in animal and plant cells. The seven‐step pathway of MI degradation was previously characterized in various soil bacteria including Bacillus subtilis. Through a combination of bioinformatics and experimental techniques we identified a novel variant of the MI catabolic pathway in the marine hyperthermophilic bacterium Thermotoga maritima. By using in vitro biochemical assays with purified recombinant proteins we characterized four inositol catabolic enzymes encoded in the TM0412–TM0416 chromosomal gene cluster. The novel catabolic pathway in T. maritima starts as the conventional route using the myo‐inositol dehydrogenase IolG followed by three novel reactions. The first 2‐keto‐myo‐inositol intermediate is oxidized by another, previously unknown NAD‐dependent dehydrogenase TM0412 (named IolM), and a yet unidentified product of this reaction is further hydrolysed by TM0413 (IolN) to form 5‐keto‐l ‐gluconate. The fourth step involves epimerization of 5‐keto‐l ‐gluconate to d ‐tagaturonate by TM0416 (IolO). T. maritima is unable to grow on myo‐inositol as a single carbon source. The determined in vitro specificity of the InoEFGK (TM0418–TM0421) transporter to myo‐inositol‐phosphate suggests that the novel pathway in Thermotoga utilizes a phosphorylated derivative of inositol.     

Short-term variations of mycosporine-like amino acids in the carrageenan-producing red macroalga Mazzaella laminarioides (Gigartinales,Rhodophyta) are related to nitrate availability

Journal of Applied Phycology - The effect of solar UV radiation exposure and NO3– supply on mycosporine-like amino acids (MAAs) accumulation in the carrageenan-producing red macroalga...     

Analysis of informativeness of immunohistochemical and flow cytometric methods for estrogen receptor α assessment

Informative capacity analysis of immunohistochemistry (IHC) and flow cytometry (FCM) in the assessment of estrogen receptor α (ERα) expression in breast cancer tissue was performed. Similar frequencies of expression were shown by both methods: 27% of ERα-negative and 73% ERα-positive cases. However, IHC evaluation detected low levels in only 20% of ERα-positive cases, whereas low levels of ERα detected by FCM were 2 times more often (48%). Moreover, FCM revealed positive expression (23–60%) in 33% of IHC ERα-negative cases. Among IHC ER-positive cases, zero ERα expression was detected by FCM in 12.5%. The approaches to minimize errors in routine clinical determination of the estrogen receptor status were proposed.     

Phenomenon of pili formation in Yersinia enterocolitica

In Y. enterocolitica strain, serovar 0:10, the capacity for the formation of pili inducing the mannose-resistant hemagglutination (MRHA) of formolated sheep red blood cells was due to the presence of plasmid pYE10. MRHA-inducing pili differed serologically from Y. pestis and Y. tuberculosis adhesion pili. Plasmid pYE10 was immobilized for transfer to cells of Escherichia coli strain HB101 (rec A) by means of pRP 4. The expression of MRHA-inducing pili in the new host the rec A-independent character of the synthesis. Y. enterocolitica cells containing pYE10 agglutinated in tissue-culture media with 10% of serum added at 37 degrees C.     

Immunization with cellulose-immobilized antigens. The development of A. E. Gurvitch concept

A highly purified TUL4-CBD chimeric protein was obtained by one stage purification method. TUL4-CBD protein consists of TUL4 Francisella tularensis mature peptide sequence, Gly-Ser spacer and cellulose binding domain (CBD) of Anaerocellum thermophilum. The TUL4-CBD protein was shown to induce production of specific antibodies to TUL4 protein in laboratory animals.     

Experimental study and numerical simulation of ion cyclotron heating of a hydrogen plasma in the T-11M tokamak

Results are presented from investigations of the possibility of heating a hydrogen plasma at the fundamental harmonic of the ion cyclotron frequency in the T-11M tokamak. The fluxes of charge-exchange atoms that escape from the plasma in the radial direction and across the toroidal magnetic field (transverse neutrals) were recorded by a Lakmus neutral particle analyzer. Measurements by the analyzer show that, during an RF pulse, the ion temperature increases by approximately 50–100 eV. Such plasma parameters as the ion temperature, rotation velocity, and isotopic composition were measured by a high-resolution spectrometer. According to the data from high-resolution spectroscopy, the ion temperature increases by approximately 150 eV. Results from numerical simulations of the ion cyclotron resonance heating of a hydrogen plasma in the T-11M tokamak are also given.     

The Immunoregulatory Effects of Endoglucanase Preparations on Plant Resistance to Fungal Infections

The effects of enzymatic preparations—pectomacerin, hemicellulase, andTrichoderma viride 13/10 cellulase—on plant immunological status were studied using two pathosystems, carrot root–white rot agent (Sclerotinia libertiana) and carrot root–black rot agent (Rhizopus nigricans) as examples. It was demonstrated that these preparations reduced the plant damage by infections, namely, decreased the permeability of cell membranes in the infected tissue and stimulated its defense responses, which were expressed as a stable elevation in the content of phenolic compounds and formation of tissue protective barriers.     

Biophysical analysis of the endoplasmic reticulum-resident chaperone/heat shock protein gp96/GRP94 and its complex with peptide antigen

Animals vaccinated with heat shock protein (HSP)--peptide complexes develop specific protective immunity against cancers from which the HSPs were originally isolated. This autologous specific immunity has been demonstrated using a number of HSP--peptide antigen complexes. A prototypical HSP-based cancer vaccine is the gp96--peptide antigen complex, which is currently undergoing human clinical trials. Here, we analyzed the structure of a recombinant wild-type and a mutant gp96 protein and their peptide complexes using a number of biophysical techniques. Gel filtration chromatography, dynamic light scattering, and equilibrium analytical ultracentrifugation demonstrated that both a wild-type gp96 and a gp96 mutant lacking a dimerization domain formed higher order structures. More detailed analysis using scanning transmission electron microscopy indicated that both the wild-type and dimerization deletion mutant gp96 protein were organized, unexpectedly, into large aggregates. Size distributions ranged from dimers to octamers and higher. Circular dichroism and intrinsic Trp fluorescence suggested that the gp96 dimerization domain deletion mutant protein was more compact than the wild-type gp96. A fluorescent peptide antigen was synthesized, and the peptide-binding properties of wild-type and the dimerization domain deletion mutant gp96 were studied. Fluorescence lifetime and anisotropy decay showed that the bound antigenic peptide was located in a hydrophobic pocket, with considerable free space for the rotation of the probe. Deletion of the dimerization domain affected the peptide-binding microenvironment, although peptide-binding affinity was reduced by only a small extent. Peptide--gp96 complexes were extremely stable, persisting for many days in the cold. The extraordinary stability of peptide--gp96 complexes and the plasticity of the peptide-binding pocket support the proposed relay of diverse peptides to MHC and/or other molecules via molecular recognition.