A5070717199- RNA and protein synthesis mechanisms
- CRISPR and Genetic Engineering
- Advanced biosensing and bioanalysis techniques
- Mass Spectrometry Techniques and Applications
- Bacterial Genetics and Biotechnology
- Marine and environmental studies
- Electrohydrodynamics and Fluid Dynamics
- Bacteriophages and microbial interactions
- Ion-surface interactions and analysis
- Pharmaceutical and Antibiotic Environmental Impacts
- X-ray Diffraction in Crystallography
- Microbial Natural Products and Biosynthesis
- Antimicrobial Peptides and Activities
- Plasma Diagnostics and Applications
- Electrochemical sensors and biosensors
- Advanced Chemical Sensor Technologies
- Various Chemistry Research Topics
- Spectroscopy and Laser Applications
- Plasma Applications and Diagnostics
- Plant Virus Research Studies
- Atomic and Molecular Physics
- Spectroscopy and Quantum Chemical Studies
- Advanced Fluorescence Microscopy Techniques
- RNA modifications and cancer
- Analytical chemistry methods development
Institute of Molecular Genetics
2023-2024
Peter the Great St. Petersburg Polytechnic University
2017-2024
Kurchatov Institute
2023-2024
Russian Academy of Sciences
2024
Moscow Aviation Institute
2021
Institute of Gene Biology
2020
Institute for Analytical Instrumentation
2014-2019
We report the bioinformatic prediction and structural validation of two lasso peptides, acinetodin klebsidin, encoded by genomes several human-associated strains Acinetobacter Klebsiella. Computation three-dimensional structures these peptides using NMR NOESY constraints verifies that they contain a motif. Despite lack sequence similarity to each other or microcin J25, prototypical peptide transcription inhibitor from Escherichia coli, klebsidin also inhibit transcript elongation E. coli RNA...
Type II CRISPR-Cas9 RNA-guided nucleases are widely used for genome engineering. II-A SpCas9 protein from Streptococcus pyogenes is the most investigated and highly enzyme of its class. Nevertheless, it has some drawbacks, including a relatively big size, imperfect specificity restriction to DNA targets flanked by an NGG PAM sequence. Cas9 orthologs other bacterial species may provide rich largely untapped source biochemical diversity, which can help overcome limitations SpCas9. Here, we...
Abstract CRISPR-Cas defense systems opened up the field of genome editing due to ease with which effector Cas nucleases can be programmed guide RNAs access desirable genomic sites. Type II-A SpCas9 from Streptococcus pyogenes was first Cas9 nuclease used for and it remains most popular enzyme its class. Nevertheless, has some drawbacks including a relatively large size restriction targets flanked by an ‘NGG’ PAM sequence. The more compact II-C orthologs help overcome limitation SpCas9. Yet,...
Cas12e proteins (formerly CasX) form a distinct subtype of Class II type V CRISPR-Cas effectors. Recently, it was shown that DpbCas12e from Deltaproteobacteria and PlmCas12e Planctomycetes can introduce programmable double-stranded breaks in mammalian genomes. Thus, along with Cas9 Cas12a effectors, could be harnessed for genome editing engineering. The location cleavage points DNA targets is important application Cas nucleases biotechnology. reported to produce extensive 5ʹ-overhangs at...
Abstract Many essential processes in the cell depend on proteins that use nucleoside triphosphates (NTPs). Methods directly monitor often-complex dynamics of these at single-molecule level have helped to uncover their mechanisms action. However, measurement throughput is typically limited for NTP-utilizing reactions, and quantitative dissection complex over multiple sequential turnovers remains challenging. Here we present a method controlling NTP-driven reactions experiments via local...
ФИЗИКА ПРИБОРОСТРОЕНИЯ 3 УДК 537.632 А. В. Прокофьев, Я. Фофанов, И. Плешаков, Е. Бибик ЛАЗЕРНОЕ ПОЛЯРИЗАЦИОННО-ОПТИЧЕСКОЕ НАБЛЮДЕНИЕ АГЛОМЕРАЦИИ МАГНИТНЫХ НАНОЧАСТИЦ В ЖИДКОЙ СРЕДЕ работе описано применение лазерного метода количественного поляризационно-оптического анализа к изучению структур, формирующихся в магнитной жидкости c избытком поверхностно-активного вещества.Показано, что добавление определенных количеств олеиновой кислоты коллоидному раствору магнетита керосине заметно...
ФИЗИКА ПРИБОРОСТРОЕНИЯ 3 УДК 537.632 А. В. Прокофьев, Я. Фофанов, И. Плешаков, Е. Бибик ЛАЗЕРНОЕ ПОЛЯРИЗАЦИОННО-ОПТИЧЕСКОЕ НАБЛЮДЕНИЕ АГЛОМЕРАЦИИ МАГНИТНЫХ НАНОЧАСТИЦ В ЖИДКОЙ СРЕДЕ работе описано применение лазерного метода количественного поляризационно-оптического анализа к изучению структур, формирующихся в магнитной жидкости c избытком поверхностно-активного вещества.Показано, что добавление определенных количеств олеиновой кислоты коллоидному раствору магнетита керосине заметно...
The effect of the gas flow to ion transport from atmosphere forevacuum region is determined experimentally. Experimental volt-ampere characteristics carried by gas-dynamic behind nozzle are obtained. It shown that fraction current passing through under influence can be increased several times in relation value due only extraction electric field. In this case, depending on magnitude field penetrating beyond skimmer, redistributed between and collector. was found that, experimental conditions,...
Antibiotic streptolydigin (Stl) inhibits bacterial transcription by blocking the trigger loop folding in active center of RNA polymerase (RNAP), which is essential for catalysis. We use acoustic force spectroscopy to characterize dynamics elongation ternary complexes (ECs) RNAP presence Stl at a single-molecule level. found that induces long-lived stochastic pauses while instantaneous velocity between unaffected. enhances short-lived associated with an off-pathway early paused state...
Antibiotic streptolydigin (Stl) inhibits bacterial transcription by blocking the trigger loop folding in active center of RNA polymerase (RNAP), which is essential for catalysis. We use acoustic force spectroscopy to characterize dynamics elongation ternary complexes RNAP (ECs) presence Stl at a single-molecule level. found that induces long-lived stochastic pauses while instantaneous velocity between unaffected. enhances short-lived associated with an off-pathway elemental paused state...
Abstract Type II CRISPR-Cas9 RNA-guided nucleases are commonly used for genome engineering. To date, all characterized Cas9-based editors, including the widely SpCas9, have limitations such as their relatively large size and restriction of targets flanked by a specific PAM sequence. Here, we biochemically more compact SpCas9 ortholog, SuCas9, from Streptococcus uberis , bacterium inhabiting mammary glands dairy cattle. SuCas9 recognizes novel 5′-NNAAA-3′ PAM, efficiently cleaves DNA in vitro...
ABSTRACT CRISPR-Cas12d is a distinct V-D type system discovered in the metagenomes of Candidate Phyla Radiation bacteria. It stands out from most closely related systems due to its 17-19 nucleotide short spacer region and specialized stabilizing scoutRNAs. We made significant improvements this by modifying scoutRNA create sgRNA, which greatly simplifies use. found mutations RuvC domain effector protein KbCas12d that resulted loss nuclease activity. obtained two catalytically inactive...
CRISPR/Cas systems are defense for bacteria and archaea. Several classes of these have now been characterized. In addition to the main directed nuclease activity, type II class V possess specific collateral which formed basis a new diagnostic systems. result this work we obtained data characterizing activity two orthologues demonstrated that CRISPR system ScCas12a has greater specificity compared AsCas12a.
Measurements of the mass distribution xenon clusters in a pulsed supersonic beam during ionization by electrons and photons are carried out. For electron impact, an gun was used. The energy varied range 15 – 70 eV. Third harmonic titanium-sapphire femtosecond laser with wavelength 263 nm used for multiphoton optical ionization. Clusters XeN N < 1000 were observed beam,. It is shown that shape spectrum electronic ionizations coincide at near threshold (15 20 eV). At 30 eV substantially...
As an ion gate for the formation of a short pulse in mobility spectrometer, gridless design with two coaxial diaphragms is proposed. It has been experimentally shown that, depending on geometric and electrical parameters this shutter, there optimal duration electric opening gate, which provide maximum amplitude pulse.