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Vol 72, No 1 (2017)

Methods

Purification of protein–DNA complexes by native gel electrophoresis for electron microscopy study

Valieva M.E., Derkacheva N.I., Sokolova O.S.

Abstract

Electrophoretic separation under native conditions may be used for purification of protein molecules and their complexes with DNA and other ligands. Here, we employed this approach to separate protein-DNA complexes with a molecular weight of approximately 200 kDa: mono- and dinucleosomes. The purified mononucleosomes were subjected to single particle electron microscopy study using negative stain contrasting, and the two-dimensional projections of the nucleosomes at 25 Å resolution were obtained. A comparison of the nucleosome projections before and after separation in the native PAGE revealed different orientation of particles on the carbon film.

Moscow University Biological Sciences Bulletin. 2017;72(1):1-5
pages 1-5 views

Mycology and Algology

The survival of micromycetes exposed to space conditions

Ponizovskaya V.B., Dyakov M.Y., Antropova A.B., Bilanenko E.N., Mokeeva V.L., Ilyin V.K.

Abstract

Original data on the survival of fungal spores exposed to space conditions are presented. The experiment was carried out on the Earth-orbiting Russian satellite Foton-M4. The flight duration of the satellite was 45 days. Thirteen fungal species (hyaline as well as pigmented) from 10 genera recovered from destructed stone materials were studied. Sterile quartz sand was inoculated by the fungal spores and was placed into Eppendorf tubes. During the space flight, the Eppendorf tubes with fungal spores were kept inside the Foton descent capsule in the “Biokont” containers and on the external surface of the capsule in the “Exobiofrost” containers exposed to the open space as well. Spores of ten species (77% of all tested species), i.e. Acremonium charticola, Aspergillus niger, Aspergillus versicolor, Chaetomium globosum, Cladosporium sphaerospermum, Penicillium chrysogenum, Penicillium verrucosum, Purpureocillium lilacinum, Sarocladium kiliense, and Trichoderma harzianum, survived after the flight both inside and outside the descent capsule. Only three species (23% of all tested species), i.e. Acremonium furcatum, Engyodontium album and Verticillium zaregamsianum, failed to survive outside as well as inside the capsule. Spore viability differed depending on the fungal species. Thus, spores of some fungal species are able to survive under the complex of stress factors such as low temperature values, radiation, etc. We have shown that micromycetes can be used as a model group for study of eukaryotic organisms’ resistance to stress factors, due to their high tolerance not only to extreme terrestrial environments, but to the extraterrestrial ones as well.

Moscow University Biological Sciences Bulletin. 2017;72(1):6-12
pages 6-12 views

Microbiology

Phenotypic and phylogenetic characterization of actinomycetes isolated from Lasius niger and Formica cunicularia ants

Zakalyukina Y.V., Biryukov M.V., Golichenkov M.V., Netrusov A.I.

Abstract

Multiple actinomycete strains were isolated from two ant species, Lasius niger and Formica cunicularia, and their phenotypic properties and phylogenetic position were studied. Partial sequencing of 16S rRNA assigned the greater part of them to the genus Streptomyces, but only one belonged to Nocardia. However, some isolates had significant color and morphological differences from their closest phylogenetic relatives. The abundance and biodiversity of actinomycete communities isolated from L. niger ants greatly exceeded those found for F. cunicularia. All of the actinomycetes associated with F. cunicularia ants demonstrated cellulolytic activity, but only one had such ability among the strains associated with black ants.

Moscow University Biological Sciences Bulletin. 2017;72(1):13-19
pages 13-19 views

Ability of extracellular proteinases of micromycetes Aspergillus flavipes, Aspergillus fumigatus, and Aspergillus sydowii to affect proteins of the human haemostatic system

Osmolovskiy A.A., Kurakov A.V., Kreyer V.G., Baranova N.A., Egorov N.S.

Abstract

The effect of extracellular proteinases of A. flavipes A17, A. fumigatus D1, and A. sydowii 1 on proteins of the human haemostasis system was studied. It was shown that A. fumigatus D1 proteinases are able to hydrolyze a wide range of chromogenic peptide substrates of specific human proteinases of the haemostatic system. Proteinases formed by A. flavipes A17 and A. sydowii 1 have a narrow specificity, mainly to thrombin and plasmin substrates. It was first shown that proteinase of A. flavipes A17 is capable to activate protein C and Factor X. Extracellular proteinase produced by A. sydowii 1 has greater fibrinolytic activity as compared with proteinases produced by A. flavipes A17 and A. fumigatus D1.

Moscow University Biological Sciences Bulletin. 2017;72(1):20-24
pages 20-24 views

Molecular Biology

Molecular modeling of interactions of agitoxin 2 with Kv1.3 voltage-gated potassium channel

Volyntseva A.D., Novoseletsky V.N., Shaitan K.V., Feofanov A.V.

Abstract

The Kv1.3 voltage-gated potassium channel is involved in a number of processes in excitable and nonexcitable cells: maintenance of resting membrane potential, signal transduction, apoptosis, regulation of cell volume, activation and proliferation of white blood cells. Blocking this channel is an effective approach for the treatment of autoimmune, oncological, chronic inflammatory, and metabolic diseases. The most prospective blockers of Kv1.3 are toxins isolated from the venom of scorpions. Knowledge of the molecular aspects of binding of peptide blockers with the channel is an important condition for the creation of highly effective and selective ligands. In the present work, a complex of hybrid channel KcsA-Kv1.3 with agitoxin 2 was built using homology modeling and molecular dynamics simulation. Analysis of formed contacts allowed us to reveal a complete pattern of interactions and to identify key residues that are responsible for the toxin binding affinity. Results of computational experiment are consistent with the experimental data and important for drug development.

Moscow University Biological Sciences Bulletin. 2017;72(1):25-29
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Genome sequencing and transcriptome assembly of the parasitoid wasp Megaphragma amalphitanum (Hymenoptera: Trichogrammatidae)

Prokhortchouk E.B., Nedoluzhko A.V., Sharko F.S., Tsygankova S.V., Boulygina E.S., Rastorguev S.M., Sokolov A.S., Mazur A.M., Polilov A.A., Skryabin K.G.

Abstract

Miniaturization of organisms is one of the most interesting evolutionary phenomena. This is a very common process and is widely represented in multicellular organisms: invertebrates (nemertean, nematodes, brachiopods, mollusks, arachnids, and insects), and vertebrates (fishes, amphibians, birds, and even mammals). Miniaturization leads to a significant reduction in the body size and simplification of some systems and organs without loss of species viability. Typically, this complex evolutionary modification is associated with occupation of the new ecological niches by the species. Reduction can affect not only the overall size of the organism but also the size of its cells as well as promote changes in the genome and the structure of specific genes. Parasitoid wasp Megaphragma amalphitanum (Hymenoptera: Trichogrammatidae) is considered one of the smallest insects described to date. Therefore, it represents an attractive object for the studies of genetic aspects of body size reduction during evolution. Whole genome sequencing of M. amalphitanum and subsequent genome annotation and transcriptome assembly allow us to define the changes in the genetic material during organism miniaturization in relation to the larger Hymenoptera species. Our preliminary analysis revealed that genome size of M. amalphitanum is 346 Mb and transcriptome size is 27.5 Mb.

Moscow University Biological Sciences Bulletin. 2017;72(1):30-32
pages 30-32 views

Physiology

Comparative analysis of the effect of stimulation with a binaural beat and similar kinds of sounds on the falling asleep process: A brief note

Shumov D.E., Arsen’ev G.N., Sveshnikov D.S., Dorokhov V.B.

Abstract

Beats are the physical phenomenon appearing when two oscillation processes of close frequencies are superimposed. In acoustics, there is also the concept of binaural beats, a subjective feeling of the listener when acoustic tones of slightly different frequencies are applied separately to each ear. Commercial products based on the effect of binaural beats enjoy steady popularity in the market of the modern technological tools for psycho- and physiotherapy. In particular, they are applied to improve sleep. But it is the objective evaluation of the physiologic effect of binaural beats on the sleep onset process that has very little evidence for support. This paper provides comparative analysis of the time to fall asleep determined by the onset of the second daytime sleep stage (sleep spindle appearance). The subjects listened to a monotonous sound of three similar kinds: a combination of binaural beats with pink noise, a similar sound with a combination of monaural beats, and a similar sound without any beat. Stimulation by the combination of binaural beats is shown to produce the least sleep onset time as compared to the similar sound containing monaural beats and to the similar sound without beats. Further investigation is required to obtain results that are more consistent.

Moscow University Biological Sciences Bulletin. 2017;72(1):33-36
pages 33-36 views