A5072316966- Microbial infections and disease research
- Genomics and Phylogenetic Studies
- RNA modifications and cancer
- Bacteriophages and microbial interactions
- RNA and protein synthesis mechanisms
- Herpesvirus Infections and Treatments
- Aquaculture disease management and microbiota
- Liver Disease Diagnosis and Treatment
- Blood groups and transfusion
- Molecular Biology Techniques and Applications
- Cancer-related molecular mechanisms research
- Diet, Metabolism, and Disease
- Circadian rhythm and melatonin
- Plant Reproductive Biology
- Phytochemistry and Biological Activities
- Viral Infections and Vectors
- Plant chemical constituents analysis
- Horticultural and Viticultural Research
- Insect and Arachnid Ecology and Behavior
- Metabolomics and Mass Spectrometry Studies
- Fungal Biology and Applications
- Phytoplasmas and Hemiptera pathogens
- Biochemical and Structural Characterization
- Suicide and Self-Harm Studies
- Stress Responses and Cortisol
Federal Research and Clinical Center of Physical-Chemical Medicine named after Y.M. Lopukhin
2013-2024
Federal Medical-Biological Agency
2013-2024
Zenyaku Kogyo (Japan)
2019
Federal Research Centre of Nutrition and Biotechnology
2019
Physico-Technical Institute
2014
Ovarian cancer ascites is a native medium for cells that allows investigation of their secretome in natural environment. This interest as promising source potential biomarkers, and also cell–cell communication. The aim this study was to elucidate specific features the malignant metabolome proteome. In order omit components systemic response formation, we compared with cirrhosis ascites. Metabolome analysis revealed 41 differed significantly between Most identified cancer-specific metabolites...
The MGISEQ-2000 developed by MGI Tech Co. Ltd. (a subsidiary of the BGI Group) is a new competitor such next-generation sequencing platforms as NovaSeq and HiSeq (Illumina). Its principle based on DNB cPAS technologies, which were also used in previous version BGISEQ-500 device. However, reagents for have been refined platform utilizes updated software. method an advanced technology cPAL previously created Complete Genomics. In this paper, authors compare results whole-genome DNA sample from...
The avian bacterial pathogen Mycoplasma gallisepticum is a good model for systems studies due to small genome and simplicity of regulatory pathways. In this study, we used RNA-Seq MS-based proteomics accurately map coding sequences, transcription start sites (TSSs) transcript 3′-ends (T3Es). We obtained data investigate roles TSSs T3Es in stress-induced transcriptional responses. identified 1061 at false discovery rate 10% showed that almost all M. initiated from classic TATAAT promoters...
We report the results obtained in 2012–2013 by Russian Consortium for Chromosome-centric Human Proteome Project (C-HPP). The main scope of this work was transcriptome profiling genes on human chromosome 18 (Chr 18), as well their encoded proteome, from three types biomaterials: liver tissue, hepatocellular carcinoma-derived cell line HepG2, and blood plasma. tissue independently performed using two RNaseq platforms (SOLiD Illumina) also droplet digital PCR (ddPCR) quantitative RT-PCR....
Protein degradation is a basic cell process that operates in general protein turnover or to produce bioactive peptides. However, very little known about the qualitative and quantitative composition of plant peptidome, actual result this degradation. In study we comprehensively analyzed peptidome systematically peptide generation process. We thoroughly native pools Physcomitrella patens moss two developmental stages as well protoplasts. Peptidomic analysis was supplemented by transcriptional...
Human hepatoma HepG2 cells are used as an in vitro model of the human liver. High-throughput transcriptomic sequencing is advanced approach for assessing functional state a tissue or cell type. However, influence experimental factors, such sample preparation method and inter-laboratory variation, on profile has not been evaluated. The whole-transcriptome was performed using SOLiD platform validated droplet digital PCR. gene expression compared to results obtained with same another laboratory...
DNA repair is essential for the maintenance of genome stability in all living beings. Genome size as well repertoire and abundance components may vary among prokaryotic species. The bacteria Mollicutes class feature a small size, absence cell wall, parasitic lifestyle. A number genes make good model "minimal cell" concept.In this work we studied system Mycoplasma gallisepticum on genomic, transcriptional, proteomic levels. We detected 18 out 22 members protein level. found that respective...
(
We present a systematic study of three bacterial species that belong to the class Mollicutes, smallest and simplest bacteria, Spiroplasma melliferum, Mycoplasma gallisepticum, Acholeplasma laidlawii. To understand difference in basic principles metabolism regulation adaptation environmental conditions species, we analyzed metabolome these bacteria. Metabolic pathways were reconstructed using proteogenomic annotation data provided by our lab. The results metabolome, proteome genome profiling...
A gene-centric approach was applied for a large-scale study of expression products single chromosome. Transcriptome profiling liver tissue and HepG2 cell line independently performed using two RNA-Seq platforms (SOLiD Illumina) also by Droplet Digital PCR (ddPCR) quantitative RT-PCR. Proteome shotgun LC-MS/MS as well selected reaction monitoring with stable isotope-labeled standards (SRM/SIS) cells. On the basis SRM/SIS measurements, protein copy numbers were estimated Chromosome 18 (Chr 18)...
// P.A. Shatalov 1 , N.A. Falaleeva E.A. Bykova D.O. Korostin 2 V.A. Belova A.A. Zabolotneva A.P. Shinkarkina A. Yu Gorbachev 3 M.B. Potievskiy V.S. Surkova Zh V. Khailova Kulemin Denis Baranovskii 4 Kostin A.D. Kaprin and P.V. Shegai National Medical Research Radiological Centre of the Ministry Health Russian Federation, Obninsk 249036, Russia Center for Precision Genome Editing Genetic Technologies Biomedicine, Pirogov University, Moscow 117997, FSBI "Lopukhin Federal Clinical...
Mycoplasmas are the smallest known microorganisms, with drastically reduced genome sizes. One of essential biochemical pathways lost in mycoplasmas is methylation-mediated DNA repair (MMR), which responsible for correction base substitutions, insertions, and deletions both bacteria higher organisms. We found that histone-like protein encoded by himA/hup_2 gene Mycoplasma gallisepticum (mgHU) recognizes typical MMR substrates, contrast to homologues from other species. The recognition...
Abstract Background MGISEQ-2000 developed by MGI Tech Co. Ltd. (a subsidiary of the BGI Group) is a new competitor such next-generation sequencing platforms as NovaSeq and HiSeq (Illumina). Its principle based on DNB cPAS technologies, which were also used in previous version BGISEQ-500 device. However, reagents for have been refined platform utilizes updated software. The method an advanced technology cPAL previously created Complete Genomics. Result In this paper, authors compare results...
Abstract Despite the fact term “proteome” was proposed to characterize a set of proteins in one mycoplasma species, proteome response various exposures this bacteria are still obscure. Commonly, authors studying proteomic on perturbation models mycoplasmas use single approach and do not confirm their findings by alternative methods. Consequently, results analysis should be validated complementary techniques. In study we utilized three approaches (SWATH, MRM, 2D-DIGE) assess Mycoplasma...
Adhesive-invasive E. coli has been suggested to be associated with the development of Crohn’s disease (CD). It is assumed that they can provoke onset inflammatory process as a result invasion intestinal epithelial cells and then, due survival inside macrophages dendritic cells, stimulate chronic inflammation. In previous reports, we have shown passage CD isolate ZvL2 on minimal medium M9 supplemented sodium propionate (PA) carbon source stimulates inhibits adherent-invasive properties...
BACKGROUND: The peptidic hormone leptin (Lep) occupies a central place in the control of energy homeostasis and body weight mammals. A convenient model for studying role impaired Lep reception is Zucker-LEPRfa rats, which carry mutation homozygote LEPR gene. Quercetin (Q; 3.3 ‘, 4’, 5.7-pentahydroxyflavone) currently being considered as one promising biologically active substances, allows to correct metabolic disorders obesity syndrome. AIM: study changes expression genes liver tissue rats...
The review presents data on studies of the role mycoplasmas as infectious agents in carcinogenesis, well their participation cancer drug therapy and impact outcome treatment. Mycoplasmas are particular interest because they have unique abilities to readily attach enter eukaryotic cells, modulate functional state, induce chronic inflammation while evading host’s immune system. will highlight confirming increased colonization tumor tissue by compared healthy ones, describe molecular mechanisms...
Studies of suicide genetics can be divided into 3 periods: 1) period classical methods behavioral genetics; 2) candidate genes association studies, and 3) genome-wide studies. The majority studies using strategy has been dedicated to main neurotransmitter systems (serotonine, catecholamines, GABA, excitatory aminoacids system, etc.) in the last decade — stress-reactivity system neurotrophins. On other hand among GWAS findings are that involved neurodevelopment, neuroplasticity, cell adhesion...
The avian bacterial pathogen Mycoplasma gallisepticum is a good model for transcriptional regulation studies due to its small genome and relative simplicity. In this study, we used RNA-Seq experiments combined with MS-based proteomics accurately map coding sequences (CDSs), transcription start sites (TSSs) terminators (TTs) decipher their roles in stress-induced responses. We identified 1061 TSSs at an FDR (false discovery rate) of 10% showed that almost all M. initiated from classic TATAAT...
The CRX gene encoding the cone-rod homeobox protein is a specific photoreceptor transcription factor crucial for retinal function. Persons temporarily residing in Arctic zone during polar summer may suffer from disturbances associated with extremely high ambient illumination. These environmental changes are mediated by photoreceptors; therefore, it important to study expression of genes order assess individual capacities sensory adaptation day conditions.To reveal dynamics level humans after...