A5018576573- Gut microbiota and health
- Clostridium difficile and Clostridium perfringens research
- Cancer Immunotherapy and Biomarkers
- Probiotics and Fermented Foods
- Helicobacter pylori-related gastroenterology studies
- Microscopic Colitis
- Antibiotic Resistance in Bacteria
- Mycobacterium research and diagnosis
- Gastrointestinal motility and disorders
- Pharmacological Effects of Natural Compounds
- Genomics and Phylogenetic Studies
- Epigenetics and DNA Methylation
- Liver Disease and Transplantation
- Salivary Gland Disorders and Functions
- Digestive system and related health
- Neurological disorders and treatments
- Evolution and Genetic Dynamics
- Biochemical Analysis and Sensing Techniques
- Tryptophan and brain disorders
- Cutaneous Melanoma Detection and Management
- Colorectal Cancer Screening and Detection
- Tracheal and airway disorders
- Oral microbiology and periodontitis research
- Immunotherapy and Immune Responses
- Otolaryngology and Infectious Diseases
Federal Medical-Biological Agency
2017-2024
Engelhardt Institute of Molecular Biology
2023
Federal Research and Clinical Center of Physical-Chemical Medicine named after Y.M. Lopukhin
2017-2022
Fecal microbiota transplantation (FMT) has been recently approved by FDA for the treatment of refractory recurrent clostridial colitis (rCDI). Success FTM in rCDI led to a number studies investigating effectiveness its application other gastrointestinal diseases. However, majority effects FMT were evaluated on patients with initially altered microbiota. The aim our study was estimate gut composition healthy volunteers and monitor long-term outcomes.We have performed combined analysis three...
Human gut microbiome plays an important role both in health and disease. Use of antibiotics can alter microbiota composition, which leads to various deleterious events. Here we report a whole genome sequencing metagenomic/genomic study the intestinal changes caused by Helicobacter pylori (HP) eradication therapy. The analyzed dataset included 80 metagenomes from 40 patients before after HP obtained SOLiD 5500W technology, 10 ones 4 Illumina HiSeq 2500 19 genomes Enterococcus spp. recovered...
Since periodontitis and type 2 diabetes mellitus are complex diseases, a thorough understanding of their pathogenesis requires knowing the relationship these pathologies with other disorders environmental factors. In this study, representability subgingival periodontal microbiome 46 subjects was studied by 16S rRNA gene sequencing shotgun pooled samples. We examined 15 patients chronic (CP), associated (CPT2DM), 16 healthy (Control). The severity generalized in both groups (CP CPT2DM)...
To date, transcriptomics have been widely and successfully employed to study gene expression in different cell growth phases of bacteria. Since bifidobacteria represent a major component the gut microbiota healthy human that is associated with numerous health benefits for host, it important them using transcriptomics. In this study, we applied RNA-Seq technique global B. longum at order better understand response bifidobacterial cells specific conditions gut. We shown lag phase, ABC...
Abstract Background Recent advancements in next-generation sequencing (NGS) technology have ushered significant improvements speed and data throughput, thereby enabling the simultaneous analysis of a greater number samples within single run. This has proven particularly valuable context microbial community profiling, offering powerful tool for characterizing composition at species level given sample. profiling process typically involves 16S ribosomal RNA (rRNA) gene fragments. By scaling up...
Immunotherapy has proven to be a boon for patients battling metastatic melanoma, significantly improving their clinical condition and overall quality of life. A compelling link between the composition gut microbiome efficacy immunotherapy been established in both animal models human patients. However, precise biological mechanisms by which microbes influence treatment outcomes remain poorly understood. Using robust dataset 680 fecal metagenomes from melanoma patients, detailed catalog...
Antibiotic resistance is an important global public health problem. Human gut microbiota accumulator of genes potentially providing them to pathogens. It develop tools for identifying the mechanisms how transmitted between microbial species and pathogens.We developed MetaCherchant-an algorithm extracting genomic environment antibiotic from metagenomic data in form a graph. The was validated on number simulated published datasets, as well applied new 'shotgun' metagenomes patients with...
ABSTRACT Inflammatory bowel diseases are characterized by chronic intestinal inflammation and alterations in the gut microbiota composition. Bacteroides fragilis , which secretes outer membrane vesicles (OMVs) with polysaccharide A (PSA), can moderate inflammatory response possibly alter In this study, we created a murine model of sodium dextran sulfate (DSS)-induced colitis treated it B. OMVs. We monitored efficiency OMV therapy determining disease activity index (DAI) performing...
Abstract Despite advances in immunotherapy, clinical responses remain heterogeneous, underscoring the need to elucidate gut microbiome’s role modulating therapeutic efficacy. We conducted a large-scale genome-resolved metagenomic analysis of 624 stool samples from 11 cohorts spanning five cancer types three continents identify conserved microbial biomarkers immunotherapy response. Responders (R; n = 362) exhibited enrichment Blautia species, linked acetate production CO 2 via Wood-Ljungdahl...
Background Advancements in sequencing technologies, such as Illumina and Oxford Nanopore Technologies (ONT), have significantly improved microbiome research. However, variations platforms, primer selection, DNA quality may influence microbial diversity assessments, particularly studies of gut microbiota. This study systematically evaluates these factors mouse microbiota analysis, comparing 16S rRNA gene metagenome (MS) across both platforms. Results Our findings highlight the critical...
Motivation: Microbial communities consist of thousands microorganisms and viruses have a tight connection with an environment, such as gut microbiota modulation host body metabolism. However, the direct relationship between presence certain microorganism state often remains unknown. Toolkits using reference-based approaches are limited to microbes present in databases. Reference-free methods require enormous resources for metagenomic assembly or results many poorly interpretable features...
The human gut microbiome plays an important role in both health and disease. Recent studies have demonstrated a strong influence of the composition on efficacy cancer immunotherapy. However, available not yet succeeded finding reliable consistent metagenomic markers that are associated with response to Therefore, reanalysis published data may improve our understanding association between treatment response. In this study, we focused melanoma-related data, which more abundant than from other...
About 15% of patients with parkinsonism have a hereditary form Parkinson’s disease (PD). Studies on the early stages PD pathogenesis are challenging due to lack relevant models. The most promising ones models based dopaminergic neurons (DAns) differentiated from induced pluripotent stem cells (iPSCs) forms PD. This work describes highly efficient 2D protocol for obtaining DAns iPSCs. is rather simple, comparable in efficiency previously published protocols, and does not require viral...
Sweet-tasting proteins (SPs) are of plant origin initially isolated from tropical fruits. They thousands times sweeter than sucrose and most artificial sweeteners. SPs a class capable causing sweet taste sensation in humans when interacting with the T1R2/T1R3 receptor. SP thaumatin has already been introduced food industry some countries. Other SPs, such as monellin brazzein, promising products. An important stage researching addition to confirming absence toxicity, mutagenicity,...
Antimicrobial resistance poses a serious threat to global public health. The COVID-19 pandemic underscored the need monitor dissemination of antimicrobial genes and understand mechanisms driving this process. In study, we analyzed changes oropharyngeal fecal resistomes patients with undergoing therapy in hospital setting. A targeted sequencing panel 4,937 was used comprehensively characterize resistomes. Our results demonstrated that resistome is homogeneous, showing low variability over...
Применение фекальной трансплантации в лечении заболеваний пищеварительного тракта (первый клинический опыт)П.Л.Щербаков 1, 2 , Н
Abstract Background All living organisms have developed during evolution complex time-keeping biological clocks that allowed them to stay attuned their environments. Circadian rhythms cycle on a near 24 h clock. These encompass variety of changes in the body ranging from blood hormone levels metabolism, gut microbiota composition and others. The microbiota, return, influences host stress response physiological associated with it, which makes it an important determinant health. Lactobacilli...
Antibiotic therapy can lead to the disruption of gut microbiota community with possible negative outcomes for human health. One diseases which treatment scheme commonly included antibiotic intake is Helicobacter pylori infection. The changes in taxonomic and functional composition patients be assessed using "shotgun" metagenomic sequencing. Ten stool samples were collected from 4 infection before directly after H. eradication course. Additionally, two subjects, 1 month end treatment. subject...
As permanent residents of the normal gut microbiota, bifidobacteria have evolved to adapt host's immune response whose priority is eliminate pathogenic agents. The mechanisms that ensure survival commensals during inflammation and maintain stability core component microbiota in such conditions remain poorly understood. We propose a new vitro approach study resistance factors based on high-performance sequencing followed by transcriptome analysis. This allowed us detect differentially...
The resistance of bacterial pathogens to antibiotics is one the most important issues modern health care. human microbiota can accumulate determinants and transfer them pathogenic by means horizontal gene transfer. Thus, it develop methods prediction monitoring in populations.We present agent-based VERA model, which allows simulation spread pathogens, including possible from a commensal community. model considers opportunity residents stay town or medical institution, have incorrect...
We assumed that the enrichment of successful gut microbes by lantibiotic/antibiotic resistance genes can be related to microbiota colonization third-party microbe phenomena and bacterium-derived or host-derived antimicrobial substances. According this assumption, competition between donor-derived recipient-derived as well host immunity may play a key role in FMT-related redistribution recipient structure.
Abstract Background Fecal microbiota transplantation (FMT) is now approved for the treatment of refractory recurrent clostridial colitis, but a number studies are ongoing in inflammatory bowel diseases, i.e., Crohn’s disease, nonspecific ulcerative and other autoimmune conditions. In most cases, effects FMT evaluated on patients with initially altered microbiota. The aim present study was to evaluate gut composition healthy volunteers track long-term changes. Results We have performed...
The abundance of Enterococci in the human intestinal microbiota environment is usually < 0.1% total bacterial fraction. multiple resistance to antibiotics opportunistic Enterococcus spp. alarming for world medical community because their high prevalence among clinically significant strains microorganisms. are able collect different mobile genetic elements and transmit wide range Gram-positive Gram-negative species microorganisms, including transmission vancomycin methicillin-resistant...
С течением времени подходы к изучению резистентности антибиотикам трансформировались от сосредоточения на выделенных в виде чистой культуры патогенных микроорганизмах исследованию уровне микробных сообществ, составляющих биотопы человека и окружающей среды. По мере того, как продвигается изучение устойчивости антибиотикам, возникает необходимость использования комплексного подхода для улучшения информирования мирового сообщества о наблюдаемых тенденциях этой области. Все более очевидным...