A5084998742- Genomics and Phylogenetic Studies
- Mycobacterium research and diagnosis
- Fungal and yeast genetics research
- Genomics and Chromatin Dynamics
- Microbial Community Ecology and Physiology
- Genomics and Rare Diseases
- RNA modifications and cancer
- Genetic Associations and Epidemiology
- RNA Research and Splicing
- Tuberculosis Research and Epidemiology
- Plant tissue culture and regeneration
- Gut microbiota and health
- Molecular Biology Techniques and Applications
- CRISPR and Genetic Engineering
- Biofuel production and bioconversion
- Plant Pathogens and Fungal Diseases
- Biochemical and Molecular Research
- Cancer Genomics and Diagnostics
- Chromosomal and Genetic Variations
- Yeasts and Rust Fungi Studies
- RNA and protein synthesis mechanisms
- Protist diversity and phylogeny
- Probiotics and Fermented Foods
- Bioinformatics and Genomic Networks
- Adipose Tissue and Metabolism
Saint Petersburg Pasteur Institute
2023-2025
City Clinical Oncology Center
2006-2024
Virbac (France)
2024
North-Western State Medical University named after I.I. Mechnikov
2024
Research Institute of Obstetrics and Gynecology named after D.O. Ott
2021-2022
City Hospital No. 40
2022
St Petersburg University
2011-2021
Saint Petersburg State University of Economics
2017-2018
Abstract Purpose: Identification of tumor antigens is essential in advancing immune-based therapeutic interventions cancer. Particularly attractive targets are those molecules that selectively expressed by malignant cells and also for progression. Experimental Design Results: We have used a computer-based differential display analysis tool mining sequence tag clusters the human Unigene database identified Brachyury as novel antigen. Brachyury, member T-box transcription factor family, key...
Abstract Advantages and diagnostic effectiveness of the two most widely used resequencing approaches, whole exome (WES) genome (WGS) sequencing, are often debated. WES dominated large-scale projects because lower cost easier data storage processing. Rapid development 3 rd generation sequencing methods novel kits predicate need for a robust statistical framework allowing informative easy performance comparison emerging methods. In our study we developed set tools to systematically assess...
ABSTRACT Population allele frequency is crucially important for accurate interpretation of known and novel variants in medical genetics. Recently, several large databases, such as the Genome Aggregation Database (gnomAD), have been created to serve a global reference studies. However, frequencies many rare alleles vary dramatically between populations, population-specific often more informative than one. Many countries regions, including Russia, remain poorly studied from genetic...
Mutations in genomes of species are frequently distributed non-randomly, resulting mutation clusters, including recently discovered kataegis tumors. DNA editing deaminases play the prominent role etiology these mutations. To gain insight into enigmatic mechanisms localized hypermutagenesis that lead to cluster formation, we analyzed mutational single nucleotide variations (SNV) data obtained by whole-genome sequencing drug-resistant mutants induced yeast diploids AID/APOBEC deaminase and...
Introduction. Pathogenic strains of Escherichia coli are an important object surveillance within the One Health concept in wild, agriculture and human society. Migratory bird colonies high latitude avian may be points active intraspecies interspecies contact between different animal species, accompanied by spread pathogens. At same time, phylogeography E. relation to presence natural foci colibacillosis polar regions remains virtually unstudied. The aim this study was assess pathogenic...
Background/Objectives: New anti-tuberculosis compounds are needed to treat patients infected with multi- or extensively drug-resistant Mycobacterium tuberculosis strains. Studies based on spontaneous in vitro mutagenesis can provide insights into the possible modes of action and resistance mechanisms such new compounds. We evaluated primary response M. aroylhydrazones nitrofuroylamides. Methods: The reference strain H37Rv was cultured solid media at increased concentrations relative MIC....
The present study reports on the frequency and spectrum of genetic variants causative monogenic diabetes in Russian children with non‑type 1 mellitus. included 60 unrelated mellitus diagnosed before age 18 years. Genetic were screened using whole‑exome sequencing (WES) a panel 35 genes maturity onset young (MODY) transient or permanent neonatal diabetes. Verification WES results was performed PCR‑direct sequencing. A total 38 identified 33 out patients (55%). majority (27/33, 81.8%) had...
Abstract Population allele frequency is crucially important for accurate interpretation of known and novel variants in medical genetics. Recently, several large databases, such as Genome Aggregation Database (gnomAD), have been created to serve a global reference studies. However, frequencies many rare alleles vary dramatically between populations, population-specific often more informative than the one. Many countries regions, including Russia, remain poorly studied from genetic...
The ascomycete Geotrichum candidum is a versatile and efficient decay fungus that involved, for example, in biodeterioration of compact discs; notably, the 3C strain was previously shown to degrade filter paper cotton more efficiently than several industrial enzyme preparations. Glycoside hydrolase (GH) family 7 cellobiohydrolases (CBHs) are primary constituents cellulase cocktails employed biomass conversion, feature tunnel-enclosed active sites enable processive hydrolytic cleavage...
Abstract Background Allele frequency data from large exome and genome aggregation projects such as the Genome Aggregation Database (gnomAD) are of ultimate importance to interpretation medical resequencing data. However, allele frequencies might significantly differ in poorly studied populations that underrepresented large‐scale projects, Russian population. Methods In this work, we leveraged our access a dataset 694 samples analyze genetic variation Northwest Russia. We compared spectrum...
PurposeWe comprehensively assessed the influence of reference minor alleles (RMAs), one inherent problems human genome sequence.MethodsThe variant call format (VCF) files provided by 1000 Genomes and Exome Aggregation Consortium (ExAC) consortia were used to identify RMA sites. All coding sites checked for concordance with UniProt presence same codon variants. RMA-corrected predictions functional effect obtained SIFT, PolyPhen-2, PROVEAN standalone tools compared dbNSFP v2.9...
Type 2 diabetes (T2D) and obesity are common chronic disorders with multifactorial etiology. In our study, we performed an exome sequencing analysis of 110 patients Russian ethnicity together a multi-perspective approach based on biologically meaningful filtering criteria to detect novel candidate variants loci for T2D obesity. We have identified several known single nucleotide polymorphisms (SNPs) as markers (rs11960429), (rs9379084, rs1126930), body mass index (BMI) (rs11553746, rs1956549...
Human gene LOC100505644 uncharacterized [Homo sapiens] (Entrez Gene ID 100505644) is abundantly expressed in tumors but weakly few normal tissues. Till now the function of this remains unknown. Here we identified chromosomal borders transcribed region and major splice form LOC100505644-specific transcript. We characterised regulatory motifs its sites. Analysis secondary structure transcript variant revealed a hairpin-like characteristic for precursor microRNAs. Comparative genomic analysis...
The Peterhof genetic collection of Saccharomyces cerevisiae strains (PGC) is a large laboratory stock that has accumulated several thousands for over than half century. It originated independently other common stocks from distillery lineage (race XII). Several PGC have been extensively used in certain fields yeast research but their genomes not thoroughly explored yet. Here we employed whole genome sequencing to characterize five selected including one the closest progenitor, 15V-P4, and...
Abstract Thousands of yeast genomes have been sequenced with both traditional and long-read technologies, multiple observations about modes genome evolution for wild laboratory strains drawn from these sequences. In our study, we applied Oxford Nanopore Illumina technologies to assemble complete two widely used members a distinct lineage, the Peterhof Genetic Collection (PGC), investigate structural features including transposable element content, copy number alterations, rearrangements. We...
Although high altitude training has been increasingly popular among endurance athletes, the molecular and cellular bases of this adaptation remain poorly understood. We aimed to define underlying physiological changes screen for potential biomarkers using transcriptional profiling whole blood. Seven elite female speed skaters were profiled on 18th day high-altitude adaptation. Whole blood RNA-seq before after an intense 1 h skating bout was used measure gene expression associated with...
The COVID-19 pandemic has drawn the attention of many researchers to interaction between pathogen and host genomes. Over last two years, numerous studies have been conducted identify genetic risk factors that predict severity outcome. However, such an analysis might be complicated in cohorts limited size and/or case breadth genome coverage. In this work, we tried circumvent these challenges by searching for candidate genes variants associated with a variety quantitative binary traits cohort...
Laminopathies are a family of monogenic multi-system diseases resulting from mutations in the LMNA gene which include wide range neuromuscular disorders. Although lamins expressed most types differentiated cells, selectively affect only specific tissues by mechanisms that remain largely unknown. We have employed combination functional vitro experiments and transcriptome analysis order to determine how two associated with different phenotypes skeletal muscle development metabolism. used...
Recently, Klebsiella pneumoniae strains have become widespread both in community-acquired infectious processes and nosocomial infections. There are two pathotypes of K. pneumoniae: classical (cKp) hypervirulent (hvKp). Representatives any pathotype prone to acquire further transmit genetic factors antibiotic resistance virulence. This combination accounts for severity the process. Therefore, information about whether strain belongs either can help prescribing proper therapy. Since there is...
The orthopedia homeobox (OTP) gene encodes a homeodomain-containing transcription factor involved in brain development. OTP is mapped to human chromosome 5q14.1. Earlier we described the second intron of this wide variety tumors, but among normal tissues only testis. In GeneBank these transcripts are represented by several 300–400 nucleotide long AI267901-like ESTs. We assumed that ESTs belonged longer transcript(s). used Rapid Amplification cDNA Ends (RACE) approach and other methods find...
In our previous studies, we used global computational differential display of ESTs that belong to UNIGENE clusters and identified human sequences differentially expressed in tumors, as well a considerable amount transcripts represented only tumor-derived cDNA libraries. Most the tumor-specific EST are derived from plurality tumor types originated tissues both ectodermal mesodermal origin. We found many such do not contain long open reading frames cannot be classified protein-encoding genes....