Kseniya S. Kudryashova, О. В. Чертков, Dmitri Nikitin, Nikolai A. Pestov, Olga I. Kulaeva, Anastasija V. Efremenko, Alexander S. Solonin, М. П. Кирпичников, Vasily M. Studitsky, Alexey V. Feofanov,
Single positioned nucleosomes have been extensively employed as simple model experimental systems for analysis of various intranuclear processes. Here we describe an experimental system containing positioned mononucleosomes allowing transcription by various RNA polymerases. Each DNA template contains a pair of fluorescent labels (Cy3 and Cy5) allowing measuring relative distances between the neighboring coils of nucleosomal DNA using Forster resonance energy transfer (FRET). The single-particle FRET ( ...
Tópico(s): RNA and protein synthesis mechanisms
2015 - Springer Science+Business Media | Methods in molecular biology
Anton Yuryev, Zufar Mulyukov, Ekaterina Kotelnikova, Sergei Maslov, Sergei Egorov, Alexander P. Nikitin, Nikolai Daraselia, Ilya Mazo,
Scientific literature is a source of the most reliable and comprehensive knowledge about molecular interaction networks. Formalization of this knowledge is necessary for computational analysis and is achieved by automatic fact extraction using various text-mining algorithms. Most of these techniques suffer from high false positive rates and redundancy of the extracted information. The extracted facts form a large network with no pathways defined.We describe the methodology for automatic curation ...
Tópico(s): Computational Drug Discovery Methods
2006 - BioMed Central | BMC Bioinformatics
Anastasiia Kozachuk, Dmitri Melikhov, Nikolai Nikitin,
We revisit rare radiative leptonic decays ${B}_{s,d}\ensuremath{\rightarrow}\ensuremath{\gamma}{e}^{+}{e}^{\ensuremath{-}}$ and ${B}_{s,d}\ensuremath{\rightarrow}\ensuremath{\gamma}{\ensuremath{\mu}}^{+}{\ensuremath{\mu}}^{\ensuremath{-}}$ in the standard model and provide the updated estimates for various differential distributions (the branching ratios, the forward-backward asymmetry, and ${R}_{\ensuremath{\mu}/e}$, the ratio of the differential distribution for muons over electrons in the final state). ...
Tópico(s): High-Energy Particle Collisions Research
2018 - American Physical Society | Physical review. D/Physical review. D.
Alexander Yakhot, Lea T. Grinberg, Nikolai Nikitin,
A pulsatile laminar flow of a viscous, incompressible fluid through a stenosed artery was simulated by an immersed-boundary method. The method allows the use of a simple (rectangular) computational domain in order to simulate a flow around a complex geometry obstacle with surface irregularities (roughness). The influence of the shape and the surface roughness on the flow resistance was explored. The obtained numerical results were validated by comparison with published experimental and numerical results. ...
Tópico(s): Fluid Dynamics and Vibration Analysis
2004 - Elsevier BV | Journal of Biomechanics
Dmitri Melikhov, Nikolai Nikitin,
Long-distance QCD effects in ${B}_{d,s}\ensuremath{\rightarrow}{\ensuremath{\ell}}^{+}{\ensuremath{\ell}}^{\ensuremath{-}}\ensuremath{\gamma}$ decays are analyzed. We show that the contribution of the light vector-meson resonances related to the virtual photon emission from valence quarks of the $B$-meson, which was not considered in previous analyses, strongly influences the dilepton differential distribution. Taking into account photon emission from the $b$-quark loop, weak annihilation, and Bremsstrahlung ...
Tópico(s): High-Energy Particle Collisions Research
2004 - American Physical Society | Physical review. D. Particles, fields, gravitation, and cosmology/Physical review. D, Particles, fields, gravitation, and cosmology
A. Kozachuk, Dmitri Melikhov, Nikolai Nikitin,
We obtain predictions for a number of radiative decays ${B}_{(s)}\ensuremath{\rightarrow}V\ensuremath{\gamma}$, $V$ the vector meson, which proceed through the weak-annihilation mechanism. Within the factorization approximation, we take into account the photon emission from the $B$-meson loop and from the vector-meson loop; the latter subprocesses were not considered in the previous analyses but are found to have a sizeable impact on the ${B}_{(s)}\ensuremath{\rightarrow}V\ensuremath{\gamma}$ decay rate. ...
Tópico(s): High-Energy Particle Collisions Research
2016 - American Physical Society | Physical review. D/Physical review. D.
Irina Balakireva, Dmitri Melikhov, Nikolai Nikitin, Danila Tlisov,
We study the forward-backward and the $CP$-violating asymmetries (both time independent and time dependent) in rare semileptonic ${B}_{d}\ensuremath{\rightarrow}{\ensuremath{\rho}}^{0}{\ensuremath{\ell}}^{+}{\ensuremath{\ell}}^{\ensuremath{-}}$, ${B}_{s}\ensuremath{\rightarrow}\ensuremath{\phi}{\ensuremath{\ell}}^{+}{\ensuremath{\ell}}^{\ensuremath{-}}$, and radiative leptonic ${B}_{d,s}\ensuremath{\rightarrow}\ensuremath{\gamma}{\ensuremath{\ell}}^{+}{\ensuremath{\ell}}^{\ensuremath{-}}$ decays and investigate ...
Tópico(s): Neutrino Physics Research
2010 - American Physical Society | Physical review. D. Particles, fields, gravitation, and cosmology/Physical review. D, Particles, fields, gravitation, and cosmology
Ivan S. Kholodilov, Alexander G. Litov, Alexander S. Klimentov, Oxana A. Belova, Alexandra E. Polienko, Nikolai A. Nikitin, А. М. Щетинин, Anna Y. Ivannikova, Lesley Bell‐Sakyi, Alexander S. Yakovlev, С. В. Бугмырин, Liubov A. Bespyatova, Larissa V. Gmyl, Svetlana V. Luchinina, Anatoly P. Gmyl, Vladimir А. Gushchin, Galina G. Karganova,
In recent decades, many new flavi-like viruses have been discovered predominantly in different invertebrates and, as was recently shown, some of them may cause disease in humans. The Jingmenvirus (JMV) group holds a special place among flaviviruses and flavi-like viruses because they have a segmented ssRNA(+) genome. We detected Alongshan virus (ALSV), which is a representative of the JMV group, in ten pools of adult Ixodes persulcatus ticks collected in two geographically-separated Russian regions. ...
Tópico(s): Vector-borne infectious diseases
2020 - Multidisciplinary Digital Publishing Institute | Viruses
Ekaterina A. Evtushenko, Ekaterina M. Ryabchevskaya, Nikolai A. Nikitin, J.G. Atabekov, О. В. Карпова,
Abstract Plant viruses are biologically safe for mammals and can be successfully used as a carrier/platform to present foreign epitopes in the course of creating novel putative vaccines. However, there is mounting evidence that plant viruses, their virus-like and structurally modified particles may also have an immunopotentiating effect on antigens not bound with their surface covalently. Here, we present data on the adjuvant properties of plant viruses with various shapes (Tobacco mosaic virus, ...
Tópico(s): Bacteriophages and microbial interactions
2020 - Nature Portfolio | Scientific Reports
Mukharram M. Bikbov, Rinat M. Zainullin, Gyulli M. Kazakbaeva, Timur R. Gilmanshin, Venera F. Salavatova, Inga I. Arslangareeva, Nikolai A. Nikitin, Songhomitra Panda‐Jonas, Artur F. Zaynetdinov, R. A. Kazakbaev, Ildar F. Nuriev, Renat I. Khikmatullin, Yulia V. Uzianbaeva, Dilya F. Yakupova, Said K. Aminev, Jost B. Jonas,
Purpose To assess the prevalence of pterygia and its associations in a population in Russia. Design Population-based cross-sectional study. Methods The Ural Eye and Medical Study was performed in a rural and urban area in Ufa/Bashkortostan 1300 km east of Moscow. Out of 7328 eligible individuals aged 40+ years, 5899 (80.5%) individuals participated and underwent an ocular and systemic examination. Pterygia, defined as conjunctival extensions onto the clear cornea, were diagnosed upon slit-lamp examination ...
Tópico(s): Glaucoma and retinal disorders
2019 - Elsevier BV | American Journal of Ophthalmology
Mukharram M. Bikbov, R. R. Fayzrakhmanov, Gyulli M. Kazakbaeva, Rinat M. Zainullin, Inga I. Arslangareeva, Timur R. Gilmanshin, Venera F. Salavatova, Nikolai A. Nikitin, Svetlana R. Mukhamadieva, Dilya F. Yakupova, Renat I. Khikmatullin, Artur F. Zaynetdinov, Yulia V. Uzianbaeva, Said K. Aminev, Ildar F. Nuriev, Jost B. Jonas,
Non-communicable chronic diseases have become the leading causes of mortality and disease burden worldwide. With information about the frequency of diabetes as a major non-communicable chronic disease in Russia being scarce, we assessed the prevalence of diabetes and its associated factors in a rural and urban population in Russia.The Ural Eye and Medical Study is a population-based study in the city of Ufa/Russia and in villages in a distance of 65 km from Ufa. Inclusion criterion was an age of ...
Tópico(s): Cardiovascular Health and Risk Factors
2019 - Public Library of Science | PLoS ONE
О. А. Кондакова, Nikolai A. Nikitin, Ekaterina A. Evtushenko, Ekaterina M. Ryabchevskaya, J.G. Atabekov, О. В. Карпова,
Introduction: Anthrax is a dangerous bio-terror agent because Bacillus anthracis spores are highly resilient and can be easily aerosolized and disseminated. There is a threat of deliberate use of anthrax spores aerosol that could lead to serious fatal diseases outbreaks. Existing control measures against inhalation form of the disease are limited. All of this has provided an impetus to the development of new generation vaccines. Areas сovered: This review is devoted to challenges and achievements ...
Tópico(s): Bacterial Genetics and Biotechnology
2019 - Informa | Expert Review of Vaccines
Mukharram M. Bikbov, Gyulli M. Kazakbaeva, Timur R. Gilmanshin, Rinat M. Zainullin, Inga I. Arslangareeva, Venera F. Salavatova, Guzel Bikbova, Songhomitra Panda‐Jonas, Nikolai A. Nikitin, Artur F. Zaynetdinov, Ildar F. Nuriev, Renat I. Khikmatullin, Yulia V. Uzianbaeva, Dilya F. Yakupova, Said K. Aminev, Jost B. Jonas,
To assess the normal distribution of axial length and its associations in a population of Russia.The population-based Ural Eye and Medical Study included 5,899 (80.5%) individuals out of 7328 eligible individuals aged 40+ years. The participants underwent an ocular and systemic examination. Axial length was measured sonographically (Ultra-compact A/B/P ultrasound system, Quantel Medical, Cournon d'Auvergne, France).Biometric data were available for 5707 (96.7%) individuals with a mean age of 58.8±10. ...
Tópico(s): Ophthalmology and Visual Impairment Studies
2019 - Public Library of Science | PLoS ONE
Nikolai A. Nikitin, В. А. Зенин, Е.А. Трифонова, Ekaterina M. Ryabchevskaya, О. А. Кондакова, A. N. Fedorov, J.G. Atabekov, О. В. Карпова,
Spherical particles (SPs) generated by thermally denatured tobacco mosaic virus (TMV) coat protein can act as an adjuvant, as they are able to enhance the magnitude and longevity of immune responses to different antigens. Here, the toxicity of TMV SPs was assessed prior to it being offered as a universal safe adjuvant for the development of vaccine candidates. The evaluation included nonclinical studies of a local tolerance following the single administration of TMV SPs, and of the local and systemic ...
Tópico(s): Viral gastroenteritis research and epidemiology
2018 - Elsevier BV | Regulatory Toxicology and Pharmacology
Mukharram M. Bikbov, R. R. Fayzrakhmanov, Gyulli M. Kazakbaeva, Rinat M. Zainullin, Venera F. Salavatova, Timur R. Gilmanshin, Inga I. Arslangareeva, Nikolai A. Nikitin, Songhomitra Panda‐Jonas, Svetlana R. Mukhamadieva, Dilya F. Yakupova, Renat I. Khikmatullin, Said K. Aminev, Ildar F. Nuriev, Artur F. Zaynetdinov, Yulia V. Uzianbaeva, Jost B. Jonas,
With information about frequency of bone fractures in Russia mostly missing, we assessed the frequency of previous bone fractures in a Russian population. The population-based study Ural Eye and Medical Study included 5899 (80.5%) out of 7328 eligible individuals (mean age: 59.0 ± 10.7 years; range: 40-94 years). The history of previous bone fractures was assessed in a standardized interview for 5397 (91.5%) individuals. Mean frequency of any previous bone fracture was 1650/5397 (30.6%; 95% confidence ...
Tópico(s): Bone fractures and treatments
2018 - Nature Portfolio | Scientific Reports
Е.А. Трифонова, В. А. Зенин, Nikolai A. Nikitin, M. S. Yurkova, Ekaterina M. Ryabchevskaya, E. V. Putlyaev, Е.К. Петрова, О. А. Кондакова, A. N. Fedorov, J.G. Atabekov, О. В. Карпова,
A novel rubella candidate vaccine based on a structurally modified plant virus – spherical particles (SPs) – was developed. SPs generated by the thermal remodelling of the tobacco mosaic virus are promising platforms for the development of vaccines. SPs combine unique properties: biosafety, stability, high immunogenicity and the effective adsorption of antigens. We assembled in vitro and characterised complexes (candidate vaccine) based on SPs and the rubella virus recombinant antigen. The candidate vaccine ...
Tópico(s): Bacteriophages and microbial interactions
2017 - Elsevier BV | Antiviral Research
Todor A. Popov, Nils Åberg, Jean Emberlin, Peter Josling, N I Ilyina, Nikolai P. Nikitin, Martin K. Church,
HPMC-p, an inert micronized powder form of hydroxy-propyl-methyl-cellulose, when insufflated nasally, provides a natural barrier against pollen allergens and noxious agents. This overview assesses the efficacy and safety of this patented powder product and delivery system without an analogue among the cellulose derivatives. Areas covered: Twenty-six studies with HPMC-p were critically appraised to obtain an updated characteristic of the product. Most studies assessed the efficacy of HPMC-p as a ...
Tópico(s): Nasal Surgery and Airway Studies
2017 - Taylor & Francis | Expert Review of Respiratory Medicine
Е.К. Петрова, Evgeniya Pechnikova, Maryia Mishyna, Tatiana I. Manukhova, Olga S. Sokolova, Nikolai A. Nikitin, J.G. Atabekov, О. В. Карпова,
Plant viruses and their virus-like particles (VLPs) have a lot of advantages for biotechnological applications including complete safety for humans. Alternanthera mosaic virus (AltMV) is a potentially promising object for design of novel materials. The 3D structures of AltMV virions and its VLPs were obtained by single particle EM at ~13Å resolution. The comparison of the reconstructions and a trypsin treatment revealed that AltMV CPs possesses a different fold in the presence (virions) and absence ...
Tópico(s): Animal Virus Infections Studies
2017 - Public Library of Science | PLoS ONE
Nikolai A. Nikitin, Е.А. Трифонова, О. В. Карпова, J.G. Atabekov,
Tópico(s): Bacteriophages and microbial interactions
2016 - Pleiades Publishing | Moscow University Biological Sciences Bulletin
Nikolai A. Nikitin, Alexander L. Ksenofontov, Е.А. Трифонова, М. В. Архипенко, Е.К. Петрова, О. А. Кондакова, М. П. Кирпичников, J.G. Atabekov, Evgeny Dobrov, О. В. Карпова,
We developed a method for the fast transformation of virions of tobacco mosaic virus (TMV) in so-called spherical particles (SPs) of different sizes. These SPs turned out to be highly useful for the preparation of different kinds of important biotechnological products. In this communication, we report that a representative of the flexuous helical virus group-potato virus X (PVX), produces SPs as well, but these SPs differ from TMV SPs in several important aspects. PVX SPs may be useful biotechnological ...
Tópico(s): Viral Infectious Diseases and Gene Expression in Insects
2016 - Wiley | FEBS Letters
Nikolai A. Nikitin, Е.А. Трифонова, Evgeniy G. Evtushenko, М. П. Кирпичников, J.G. Atabekov, О. В. Карпова,
Now, as before, transmission electron microscopy (TEM) is a widely used technique for the determination of virions size. In some studies, dynamic light scattering (DLS) has also been applied for this purpose. Data obtained by different authors and using different methods could vary significantly. The process of TEM sample preparation involves drying on the substrate, which can cause virions to undergo morphology changes. Therefore, other techniques should be used for measurements of virions size in ...
Tópico(s): Viral gastroenteritis research and epidemiology
2015 - Public Library of Science | PLoS ONE
Е.А. Трифонова, Nikolai A. Nikitin, М. П. Кирпичников, О. В. Карпова, J.G. Atabekov,
The technique of obtaining spherical particles from rod-like plant virus, tobacco mosaic virus, in a preparative scale was developed. The conditions of tobacco mosaic virus isolation for obtaining spherical particles were selected. Spherical particles were examined by methods of electron microscopy, nanoparticle tracking analysis, and dynamic light scattering. Information about inner structure of spherical particles was obtained. High electron density of spherical particles was demonstrated. The ...
Tópico(s): Bacteriophages and microbial interactions
2015 - Pleiades Publishing | Moscow University Biological Sciences Bulletin
Nikolai A. Nikitin, Е.К. Петрова, Е.А. Трифонова, О. В. Карпова,
Influenza is one of the most contagious and rapidly spreading infectious diseases and an important global cause of hospital admissions and mortality. There are some amounts of the virus in the air constantly. These amounts is generally not enough to cause disease in people, due to infection prevention by healthy immune systems. However, at a higher concentration of the airborne virus, the risk of human infection increases dramatically. Early detection of the threshold virus concentration is essential ...
Tópico(s): Climate Change and Health Impacts
2014 - Hindawi Publishing Corporation | Advances in Virology
Nils Åberg, S. Tetjana Ospanova, Nikolai P. Nikitin, Jean Emberlin, Åslög Dahl,
A nasally applied cellulose powder is increasingly used in many countries as a remedy for allergic rhinitis. In 2009, a 4-week study in birch pollen-allergic children showed a reduction in nasal symptoms. The best effect occurred on days with lower pollen counts. The present study in grass pollen-allergic adults used the same basic design.In May 2013, a double-blind, placebo-controlled study was conducted in 108 patients with allergic rhinitis due to grass pollen (18-40 years of age). SMS on mobile ...
Tópico(s): Respiratory and Cough-Related Research
2014 - Karger Publishers | International Archives of Allergy and Immunology
Nikolai A. Nikitin, Е.А. Трифонова, О. В. Карпова, J.G. Atabekov,
Abstract Nanoparticle tracking analysis (NTA) was first applied to biologically active nanocomplexes to obtain concurrent information on their size, state of aggregation, concentration, and antigenic specificity in liquid. The subject of the NTA was an immunogenic complex (a candidate nanovaccine) comprised of spherical particles (SPs) generated by thermal remodeling of the tobacco mosaic virus and Rubella virus tetraepitopes exposed on the surface of SP.
Tópico(s): Bacteriophages and microbial interactions
2013 - Oxford University Press | Microscopy and Microanalysis
Е.А. Трифонова, Nikolai A. Nikitin, Anatoly P. Gmyl, Ekaterina A. Lazareva, О. В. Карпова, J.G. Atabekov,
Previously, we described some structural features of spherical particles (SPs) generated by thermal remodelling of the tobacco mosaic virus. The SPs represent a universal platform that could bind various proteins. Here, we report that entire isometric virions of heterogeneous nature bind non-specifically to the SPs. Formaldehyde (FA) was used for covalent binding of a virus to the SPs surface for stabilizing the SP-virus complexes. Transmission and high resolution scanning electron microscopy showed ...
Tópico(s): Protein purification and stability
2013 - Taylor & Francis | Journal of Biomolecular Structure and Dynamics
Evgeny Dobrov, Nikolai A. Nikitin, Е.А. Трифонова, E. Yu. Parshina, В. В. Макаров, Г. В. Максимов, О. В. Карпова, J.G. Atabekov,
Conversion of the rod-like tobacco mosaic virus (TMV) virions into "ball-like particles" by thermal denaturation at 90-98 °C had been described by R.G. Hart in 1956. We have reported recently that spherical particles (SPs) generated by thermal denaturation of TMV at 94-98 °C were highly stable, RNA-free, and water-insoluble. The SPs were uniform in shape but varied widely in size (53-800 nm), which depended on the virus concentration. Here, we describe some structural characteristics of SPs using circular ...
Tópico(s): Insect and Pesticide Research
2013 - Taylor & Francis | Journal of Biomolecular Structure and Dynamics
О. В. Карпова, Nikolai A. Nikitin, Sergey Chirkov, Е.А. Трифонова, Anna Sheveleva, Ekaterina A. Lazareva, J.G. Atabekov,
We reported recently that RNA-free spherical particles (SPs) generated by thermal remodelling of tobacco mosaic virus (TMV) are capable of binding GFP to their surface. Here, we show that SPs represent a universal particle platform that can form compositions by binding a diversity of various foreign proteins/epitopes of viral and non-viral origin to their surface. Numerous molecules of a foreign protein linked to the SP surface were revealed by immunogold electron microscopy. Several SP-based compositions ...
Tópico(s): Transgenic Plants and Applications
2011 - Microbiology Society | Journal of General Virology
Nikolai A. Nikitin, A. S. Malinin, A. A. Rakhnyanskaya, Е.А. Трифонова, О. В. Карпова, Alexander A. Yaroslavov, J.G. Atabekov,
Tópico(s): Microfluidic and Capillary Electrophoresis Applications
2011 - MAIK Nauka/Interperiodica | Polymer Science Series A
М. В. Архипенко, Е.К. Петрова, Nikolai A. Nikitin, Anna D. Protopopova, Evgeniy V. Dubrovin, I. V. Yaminskii, Н.П. Родионова, О. В. Карпова, J.G. Atabekov,
Potato virus X (PVX) and some other potexviruses can be reconstituted in vitro from viral coat protein (CP) and RNA. PVX CP is capable of forming viral ribonucleoprotein complexes (vRNP) not only with homologous, but also with foreign RNAs. This paper presents the structure and properties of vRNP assembled in vitro upon incubation of PVX CP and RNAs of various plant and animal viruses belonging to different taxonomic groups. We have shown that the morphology and translational properties of vRNPs containing ...
Tópico(s): Bacteriophages and microbial interactions
2011 - | Acta Naturae