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Vol 466, No 1 (2016)

Biochemistry, Biophysics and Molecular Biology

The first complete Mag family retrotransposons discovered in Drosophila

Glukhov I.A., Kotnova A.P., Stefanov Y.E., Ilyin Y.V.

Abstract

A retrotransposon of the Mag family was found in the Drosophila simulans genome for the first time. We also identified novel transposable elements representing the Mag family in seven Drosophila species. The high similarity between the 3’ and 5’ long terminal repeats in the found copies of transposable elements indicates that their retrotransposition has occurred relatively recently. Thus, the Mag family of retrotransposons is quite common for the genus Drosophila.

Doklady Biochemistry and Biophysics. 2016;466(1):1-4
pages 1-4 views

Mod(mdg4)-58.8, isoform of mod(mdg4) loci, directly interacts with MTACP1A and MTACP1B proteins of Drosophila melanogaster

Golovnin A.K., Kostyuchenko M.V., Georgiev P.G., Melnikova L.S.

Abstract

As a result of experiments in yeast two-hybrid system, coimmunoprecipitation of proteins from D. melanogaster embryo cell lysate, and immunostaining, it was shown for the first time that Mod(mdg4)-58.8 protein (isoform P), a product of mod(mdg4) locus, directly interacts with mtACP1A and mtACP1B proteins. These proteins are involved in de novo biosynthesis of fatty acids in mitochondria and are required for normal gametogenesis in males and females and, possibly, for the trachea development. This result expands the understanding of the role of mod(mdg4) locus products in the regulation of life activity of the eukaryotic cell.

Doklady Biochemistry and Biophysics. 2016;466(1):5-8
pages 5-8 views

Recombinant 1F9 spidroin microgels for murine full-thickness wound repairing

Moisenovich M.M., Malyuchenko N.V., Arkhipova A.Y., Goncharenko A.V., Kotlyarova M.S., Davydova L.I., Vasil’eva T.V., Bogush V.G., Agapov I.I., Debabov V.G., Kirpichnikov M.P.

Abstract

The study of the stimulating effect of the microgels (MGs) based on recombinant 1F9 spidroin on the regeneration of the deep skin wound in mice was carried out. The use of spidroin MGs was shown to increase significantly the quality of healing compared to the control. The introduction of the MG in the wound edges led to recovery of all the structural elements of the skin: the epidermis, the dermis, including vascular and nervous network, in the periphery of the wound underlying muscles, and skin appendages (sebaceous and sweat glands and hair follicles) was revealed.

Doklady Biochemistry and Biophysics. 2016;466(1):9-12
pages 9-12 views

Mathematics analysis of polymerase chain reaction kinetic curves

Sochivko D.G., Fedorov A.A., Varlamov D.A., Kurochkin V.E., Petrov R.V.

Abstract

The paper reviews different approaches to the mathematical analysis of polymerase chain reaction (PCR) kinetic curves. The basic principles of PCR mathematical analysis are presented. Approximation of PCR kinetic curves and PCR efficiency curves by various functions is described. Several PCR models based on chemical kinetics equations are suggested. Decision criteria for an optimal function to describe PCR efficiency are proposed.

Doklady Biochemistry and Biophysics. 2016;466(1):13-16
pages 13-16 views

Physicochemical conversion of human exometabolites for the NaCl involvement into the mass exchange in closed life support systems

Tikhomirov A.A., Kudenko Y.A., Trifonov S.V.

Abstract

The results of the original physicochemical method of NaCl recovery out of the mineralized human metabolites’ solution obtained after their oxidation in H2O2 aqueous solution under the influence of alternating electric current are presented. The technological stages of the newly developed method are described, and its efficiency at each stage is demonstrated. The possibility to efficiency isolate Na from the NaHCO3 solution by applying electrodialysis technology and temperature separation is demonstrated. The HCl synthesis from Cl2 and H2 released during electrolysis is stable, allowing its combining with electrodialysis aimed at NaCl production under the conditions of a closed life support system.

Doklady Biochemistry and Biophysics. 2016;466(1):17-19
pages 17-19 views

Characteristics of fatty acid composition of Gammarus lacustris inhabiting lakes with and without fish

Makhutova O.N., Sharapova T.A., Kalachova G.S., Shulepina S.P., Gladyshev M.I.

Abstract

The effect of a biotic factor—the presence of predatory fish in water—on the composition and content of fatty acids in crustaceans was studied in the populations of the lake amphipod Gammarus lacustris from two lakes with fish and three lakes without fish. It was found that, at an overall increase in the quantity and quality of food resources (namely, increase in the content of eicosapentaenoic acid and docosahexaenoic acid (DHA) in the biomass), the relative rate of DHA accumulation in gammarids in the lakes without fish is higher than in the lake with fish.

Doklady Biochemistry and Biophysics. 2016;466(1):20-22
pages 20-22 views

Genomic and proteomic profiles of Acholeplasma laidlawii strains differing in sensitivity to ciprofloxacin

Medvedeva E.S., Davydova M.N., Mouzykantov A.A., Baranova N.B., Grigoreva T.Y., Siniagina M.N., Boulygina E.A., Chernova O.A., Chernov V.M.

Abstract

As a result of comparative analysis of complete genomes as well as cell and vesicular proteomes of A. laidlawii strains differing in sensitivity to ciprofloxacin, it was first shown that the mycoplasma resistance to the antibiotic is associated with the reorganization of genomic and proteomic profiles, which concerns many genes and proteins involved in fundamental cellular processes and realization of bacterial virulence.

Doklady Biochemistry and Biophysics. 2016;466(1):23-27
pages 23-27 views

The strengthening role of D:D interactions in fibrin self-assembly under oxidation

Rosenfeld M.A., Leonova V.B., Bychkova A.V., Kostanova E.A., Biryukova M.I., Sultimova N.B., Konstantinova M.L., Gorobets M.G.

Abstract

The effect on ozone-induced oxidation on the self-assembly of fibrin in the presence of fibrin-stabilizing factor FXIIIa of soluble cross-linked fibrin oligomers was studied in a medium containing moderate urea concentrations. It is established that fibrin oligomers were formed by the protofibrils cross-linked through γ-γ dimers and the fibrils additionally cross-linked by through α-polymers. The oxidation promoted both the accumulation of greater amounts of γ-γ dimers and the formation of protofibrils, fibrils, and their dissociation products emerging with increasing urea concentrations, which have a high molecular weight. It is concluded that the oxidation enhances the axial interactions between D-regions of fibrin molecules.

Doklady Biochemistry and Biophysics. 2016;466(1):28-31
pages 28-31 views

Audiogenic epilepsy and GABAergic system of the colliculus inferior in Krushinsky-Molodkina rats

Solius G.M., Revishchin A.V., Pavlova G.V., Poletaeva I.I.

Abstract

GABAergic brain system is an important link in the pathological circuits of rodent audiogenic epilepsy (AE). The number of GABAergic neurons in the inferior colliculi of KM strain rats (AE prone) was not different from that of the control non-prone strain. At the same time, the glutamate decarboxylase mRNA expression (the key enzyme of GABA synthesis) was 5 times higher than in control. The data evidence that the GABAergic system does play an important role in AE proneness.

Doklady Biochemistry and Biophysics. 2016;466(1):32-34
pages 32-34 views

Highly immunogenic variant of attenuated vaccinia virus

Yakubitskyi S.N., Kolosova I.V., Maksyutov R.A., Shchelkunov S.N.

Abstract

The LIVPΔ6 strain of vaccinia virus (VACV) was created by genetic engineering on the basis of previously obtained attenuated 1421ABJCN strain by target deletion of the A35R gene encoding an inhibitor of antigen presentation by the major histocompatibility complex class II. 1421ABJCN is the LIVP strain of VACV with five inactivated virulence genes encoding hemagglutinin (A56R), γ-interferon-binding protein (B8R), thymidine kinase (J2R), complement-binding protein (C3L), and Bcl2-like inhibitor of apoptosis (N1L). The highly immunogenic LIVPΔ6 strain could be an efficient fourth-generation attenuated vaccine against smallpox and other orthopoxvirus infections.

Doklady Biochemistry and Biophysics. 2016;466(1):35-38
pages 35-38 views

New interpretation of the redox properties of cytochrome b559 in photosystem II

Kaminskaya O.P., Shuvalov V.A.

Abstract

A model of heme–quinone redox interaction has been developed for cytochrome b559 in photosystem II. The quinone QC in the singly protonated form may function as an interacting quinone. The electrostatic effect between the charges on the heme iron of the cytochrome and QCH leads to appearance of three forms of the cytochrome with different redox potentials. A simple and effective mechanism of redox regulation of the electron transfer pathways in photosystem II is proposed.

Doklady Biochemistry and Biophysics. 2016;466(1):39-42
pages 39-42 views

Pressure algometry and enzyme-linked immunosorbent assay of natural antibodies in the evaluation of pain syndrome

Levashova A.I., Artiushkova O.Y., Morozova V.S., Petrochenko S.N., Myagkova M.A., Moseikin I.A., Panchenko L.F.

Abstract

The dynamics of possible markers of pain syndrome: pain pressure thresholds of intolerance (PTI) and natural antibodies to mediators of pain processing (nAbs) in blood serum at dorsalgia was studied. We have shown that most men and women had reduced PTIs. Night PTIs were lower than daytime PTIs regardless of the gender. The study of the content of nAbs to opioids and biogenic amines by ELISA have shown a prolonged maintenance of their elevated and high levels that could evoke long-term effect in pain chronization. Thus, the pressure algometry and ELISA of nAbs to pain processing mediators make it possible to assess the individual pain status objectively and, on this bases, to propose personal schemes of treatment.

Doklady Biochemistry and Biophysics. 2016;466(1):43-46
pages 43-46 views

Metagenomic bacterial community profiles of chicken embryo gastrointestinal tract by using T-RFLP analysis

Ilina L.A., Yildirim E.A., Nikonov I.N., Filippova V.A., Laptev G.Y., Novikova N.I., Grozina A.A., Lenkova T.N., Manukyan V.A., Egorov I.A., Fisinin V.I.

Abstract

Thirty microbial phylotypes of microorganisms were found in the gastrointestinal tract of chicken belonging to the Hajseks White breed, and 38 phylotypes were found in the gastrointestinal tract of chicken belonging to the Hajseks Brown breed. The microbiome of the gastrointestinal tract of the chicken embryos of the Hajseks White breed was dominated by the typical representatives of avian intestinal microflora—bacteria of the family Enterobacteriaceae (47.3%), orders Actinomycetales (13.6%) and Bifidobacteriales (20.6%), and the family Lachnospiraceae (1.1%). The microbiome of the gastrointestinal tract of the chicken embryos of the Hajseks Brown breed was dominated by the pathogenic bacteria of the order Rickettsiales (94.8%). The metagenome of gastrointestinal tract of both breeds also contained a small number of genes of unidentified bacteria.

Doklady Biochemistry and Biophysics. 2016;466(1):47-51
pages 47-51 views

Nuclear mtDNA pseudogenes as a source of new variants of mitochondrial genes: A case study of Siberian rubythroat Luscinia calliope (muscicapidae, aves)

Spiridonova L.N., Red’kin Y.A., Valchuk O.P.

Abstract

First evidence for the presence of copies of mitochondrial cytochrome b gene of the subspecies group Luscinia calliope anadyrensis–L. c. camtschatkensis in the nuclear genome of nominative L. c. calliope was obtained, which indirectly indicates the nuclear origin of the subspecies-specific mitochondrial haplotypes in Siberian rubythroat. This fact clarifies the appearance of mitochondrial haplotypes of eastern subspecies by exchange between the homologous regions of the nuclear and mitochondrial genomes followed by fixation by the founder effect. This is the first study to propose a mechanism of DNA fragment exchange between the nucleus and mitochondria (intergenomic recombination) and to show the role of nuclear copies of mtDNA as a source of new taxon-specific mitochondrial haplotypes, which implies their involvement in the microevolutionary processes and morphogenesis.

Doklady Biochemistry and Biophysics. 2016;466(1):52-56
pages 52-56 views

Drosophila polytene chromosome bands formed by gene introns

Zhimulev I.F., Boldyreva L.V., Demakova O.V., Poholkova G.V., Khoroshko V.A., Zykova T.Y., Lavrov S.A., Belyaeva E.S.

Abstract

Genetic organization of bands and interbands in polytene chromosomes has long remained a puzzle for geneticists. It has been recently demonstrated that interbands typically correspond to the 5’-ends of house-keeping genes, whereas adjacent loose bands tend to be composed of coding sequences of the genes. In the present work, we made one important step further and mapped two large introns of ubiquitously active genes on the polytene chromosome map. We show that alternative promoter regions of these genes map to interbands, whereas introns and coding sequences found between those promoters correspond to loose grey bands. Thus, a gene having its long intron “sandwiched” between to alternative promoters and a common coding sequence may occupy two interbands and one band in the context of polytene chromosomes. Loose, partially decompacted bands appear to host large introns.

Doklady Biochemistry and Biophysics. 2016;466(1):57-60
pages 57-60 views

The effect of γ-radiation on resting eggs and life cycle of cladoceran Moina macrocopa

Zadereev E.S., Lopatina T.S., Zotina T.A., Oskina N.A., Dementyev D.V., Petrichenkov M.V.

Abstract

We investigated the effects of γ-irradiation on the survival of resting eggs of the cladoceran Moina macrocopa and on the parameters of the life cycle of neonates hatched from the irradiated eggs. It was shown that γ-irradiation in a wide range of doses (from the background level to 100 Gy) had no effect on survival of eggs and mortality of neonates hatched from the irradiated eggs. However, exceeding the absorbed dose of 40 Gy sharply decreased the reproductive potential of the neonates hatched from irradiated eggs.

Doklady Biochemistry and Biophysics. 2016;466(1):61-65
pages 61-65 views

The antitumor effect of magnetic nanodisks and DNA aptamer conjugates

Kim P.D., Zamay S.S., Zamay T.N., Prokopenko V.S., Kolovskaya O.S., Zamay G.S., Princ V.Y., Seleznev V.A., Komonov A.I., Spivak E.A., Rudenko R.Y., Dubinina A.V., Komarov A.V., Denisenko V.V., Komarova M.A., Sokolov A.E., Narodov A.A., Zjivaev V.P., Zamay A.S.

Abstract

Here we describe a method of forming large arrays (up to 109 pieces) of free magnetic Ni-nanodisks 50 nm thick coated on both sides with layers of 5 nm thick Au. The antitumor effect of the magnetic nickel gold-coated nanodisks and DNA aptamer conjugates was evaluated in vivo and in vitro. Under the influence of rotating magnetic field, the studied nanodisks can cause the death of Ehrlich ascites carcinoma cells.

Doklady Biochemistry and Biophysics. 2016;466(1):66-69
pages 66-69 views

Development of a biosensor for electrochemical detection of tumor-associated proteins in blood plasma of cancer patients by aptamers

Zamay G.S., Zamay T.N., Kolovskaya O.S., Krat A.V., Glazyrin Y.E., Dubinina A.V., Zamay A.S.

Abstract

A molecular biosensor based on DNA aptamers (aptasensor) for the diagnosis of lung cancer in blood plasma samples was designed. To create the aptasensor, the aptamer 17_80, obtained in the study of postoperative material, was used. The affinity and binding selectivity of the aptamer 17_80 to the lung tumor tissue was confirmed on histological sections of postmortem samples of lung tissue. Using affinity enrichment and mass spectrometry, a possible target molecule of the aptamer 17_80, vimentin, was found.

Doklady Biochemistry and Biophysics. 2016;466(1):70-73
pages 70-73 views

Signal molecules during the organism development: Central and peripheral sources of noradrenaline in rat ontogenesis

Murtazina A.R., Nikishina Y.O., Bondarenko N.S., Sapronova A.J., Ugrumov M.V.

Abstract

Using the method of high performance liquid chromatography with electrochemical detection, the age dynamics of the content of noradrenaline (NA) in the brain, adrenal gland, and the organ of Zuckerkandl in prenatal (18th and 21st days of embryogenesis) and early postnatal (3, 7, 15, and 30th days) periods of development was studied. The potential contribution of these organs to the formation of physiologically active concentration of noradrenalin in the blood was also assessed. The results suggest that, during the development of the organism, the activity of the sources of noradrenaline in the general circulation changes, which gives a reason to assume the existence of humoral interaction between NA-producing organs in the perinatal period of ontogenesis.

Doklady Biochemistry and Biophysics. 2016;466(1):74-76
pages 74-76 views

Molecular mechanism of modulation of nociceptive neuron membrane excitability by a tripeptide

Shelykh T.N., Rogachevsky I.V., Nozdrachev A.D., Veselkina O.S., Podzorova S.A., Krylov B.V., Plakhova V.B.

Abstract

Using the whole-cell patch-clamp method, the ability of arginine-containing tripeptide Ac-RER-NH2, dipeptide Ac-RR-NH2, and free Arg molecule to modulate the membrane excitability of nociceptors was studied. Extracellular Ac-RER-NH2 upon interaction with the outer membrane of the nociceptive neuron decreases the Zeff value of the activation gating system of Nav1.8 channels. Thus, the tripeptide Ac-RER-NH2 can be considered as a new effective and safe analgesic.

Doklady Biochemistry and Biophysics. 2016;466(1):77-80
pages 77-80 views