Oleg N. Reva
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View article: Application of long-read sequencing for genotyping, epigenetic profiling and surveillance of Yersinia pestis isolates from natural foci and disease outbreaks in Central Asia
Application of long-read sequencing for genotyping, epigenetic profiling and surveillance of Yersinia pestis isolates from natural foci and disease outbreaks in Central Asia Open
This study explores the application of long-read sequencing technologies for genotyping, epigenetic profiling, and epidemiological monitoring of Yersinia pestis isolates obtained from natural foci in Central Asia and previous zoonotic outb…
View article: METHODS OF METAGENOMIC ANALYSIS
METHODS OF METAGENOMIC ANALYSIS Open
Metagenomic analysis is a powerful tool for studying the genetic diversity of microorganisms that inhabit different ecological niches. Modern methods of sequencing and bioinformatics analysis allow us to study the taxonomic composition, fu…
View article: THE PROBLEM OF MICROBIAL ANTIBIOTIC RESISTANCE IN POULTRY PRODUCTION
THE PROBLEM OF MICROBIAL ANTIBIOTIC RESISTANCE IN POULTRY PRODUCTION Open
The routine use of antibiotics as an integral part of poultry production has led to the emergence of pathogenic bacteria with multidrug resistance. In this industry, antibiotics are applied at sub-therapeutic doses to enhance meat producti…
View article: Whole genome sequencing of Yersinia pestis isolates from Central Asian natural plague foci revealed the role of adaptation to different hosts and environmental conditions in shaping specific genotypes
Whole genome sequencing of Yersinia pestis isolates from Central Asian natural plague foci revealed the role of adaptation to different hosts and environmental conditions in shaping specific genotypes Open
The genetic diversity and biovar classification of Yersinia isolates from Central Asia were investigated using whole-genome sequencing. In total, 98 isolates from natural plague foci were sequenced using the MiSeq platform. Computational p…
View article: The Effect of Semiorganic Iodine-Containing Compounds on the Antibiotic Susceptibility of Pathogenic Microorganisms
The Effect of Semiorganic Iodine-Containing Compounds on the Antibiotic Susceptibility of Pathogenic Microorganisms Open
Objectives: The global rise in multidrug resistance underscores the urgent need for the development of novel and effective antimicrobial agents. Semi-organic iodine-containing complexes, owing to their unique properties, low likelihood of …
View article: Structure, Mechanical and Corrosion Properties of Coatings Based on ZrN Solid Solution
Structure, Mechanical and Corrosion Properties of Coatings Based on ZrN Solid Solution Open
The structure, elemental composition, mechanical and corrosion properties of (Zr, Nb)N, (Zr, Hf)N and (Zr, Nb, Hf)N vacuum-arc coatings deposited on the titanium alloy Ti-6Al-4V were studied. The X-ray diffraction analysis, scanning electr…
View article: SeqWord Motif Mapper: A Tool for Rapid Statistical Analysis and Visualization of Epigenetic Modifications in Bacterial Genomes
SeqWord Motif Mapper: A Tool for Rapid Statistical Analysis and Visualization of Epigenetic Modifications in Bacterial Genomes Open
Genomic methylation in bacteria plays a crucial role in gene regulation, chromosome replication, pathogenicity, and defense against phages. While single-molecule real-time (SMRT) sequencing technologies have advanced the detection of epige…
View article: Integrated Analysis of Gene Expression, Protein Synthesis, and Epigenetic Modifications in <scp> <i>Alcanivorax borkumensis</i> SK2 </scp> Under Iron Limitation
Integrated Analysis of Gene Expression, Protein Synthesis, and Epigenetic Modifications in <span> <i>Alcanivorax borkumensis</i> SK2 </span> Under Iron Limitation Open
This study aimed to understand the genetic and molecular mechanisms enabling Alcanivorax borkumensis SK2, a hydrocarbonoclastic marine bacterium, to thrive under iron‐limited conditions. Using SMRT PacBio whole‐genome sequencing, Illumina …
View article: Epigenetic background of lineage-specific gene expression landscapes of four Staphylococcus aureus hospital isolates
Epigenetic background of lineage-specific gene expression landscapes of four Staphylococcus aureus hospital isolates Open
Bacteria with similar genomes can exhibit different phenotypes due to alternative gene expression patterns. In this study, we analysed four antibiotic-resistant Staphylococcus aureus hospital isolates using transcriptomics, PacBio genome s…
View article: DPANN symbiont of Haloferax volcanii accelerates xylan degradation by the non-host haloarchaeon Halorhabdus sp.
DPANN symbiont of Haloferax volcanii accelerates xylan degradation by the non-host haloarchaeon Halorhabdus sp. Open
View article: Seqword Motif Mapper: A Tool for Rapid Statistical Analysis and Visualisation of Epigenetic Modifications in Bacterial Genomes
Seqword Motif Mapper: A Tool for Rapid Statistical Analysis and Visualisation of Epigenetic Modifications in Bacterial Genomes Open
View article: POULTRY MICROBIOME: COMPOSITION, FUNCTIONS AND METHODS OF ANALYSIS
POULTRY MICROBIOME: COMPOSITION, FUNCTIONS AND METHODS OF ANALYSIS Open
The avian gastrointestinal (GI) microbiome is a dynamic ecosystem with a complex and diverse composition. It is formed from the moment of embryo formation and continues to develop and modernize throughout life. The bulk of the intestinal m…
View article: Universal Lineage-Independent Markers of Multidrug Resistance in Mycobacterium tuberculosis
Universal Lineage-Independent Markers of Multidrug Resistance in Mycobacterium tuberculosis Open
(1) Background: This study was aimed to identify universal genetic markers of multidrug resistance (MDR) in Mycobacterium tuberculosis (Mtb) and establish statistical associations among identified mutations to enhance understanding of MDR …
View article: Staphylococcus aureus associated with surgical site infections in Western Kenya reveals genomic hotspots for pathogen evolution
Staphylococcus aureus associated with surgical site infections in Western Kenya reveals genomic hotspots for pathogen evolution Open
Objectives. Staphylococcus aureus is one of the most common pathogens attributed to hospital infections. Although S. aureus infections have been well studied in developed countries, far less is known about the biology of the pathogen in su…
View article: <xhtml:span xmlns:xhtml="http://www.w3.org/1999/xhtml" xml:lang="en">Staphylococcus aureus&#160; associated with post-operative wound infections in Western Kenya reveals genomic hotspots for pathogen evolution</xhtml:span>
Staphylococcus aureus  associated with post-operative wound infections in Western Kenya reveals genomic hotspots for pathogen evolution Open
Objectives. Staphylococcus aureus is one of the most common pathogens attributed to hospital infections. Although S. aureus infections have been well studied in developed countries, far less is known about the biology of the pathogen in su…
View article: Reviewer response for version 1
Reviewer response for version 1 Open
Soil samples from a remote Japanese island (Kozushima) were processed and investigated for organisms exhibiting antimicrobial activity against pathogenic strains. A Pseudomonas strain demonstrating antimicrobial activity against Staphyloco…
View article: <xhtml:span xmlns:xhtml="http://www.w3.org/1999/xhtml" xml:lang="en">Staphylococcus aureus&#160; associated with post-operative wound infections in Western Kenya reveals genomic hotspots for pathogen evolution</xhtml:span>
Staphylococcus aureus  associated with post-operative wound infections in Western Kenya reveals genomic hotspots for pathogen evolution Open
Objectives. Staphylococcus aureus is one of the most common pathogens attributed to hospital infections. Although S. aureus infections have been well studied in developed countries, far less is known about the biology of the pathogen in su…
View article: Interplay of intracellular and trans‐cellular DNA methylation in natural archaeal consortia
Interplay of intracellular and trans‐cellular DNA methylation in natural archaeal consortia Open
DNA methylation serves a variety of functions across all life domains. In this study, we investigated archaeal methylomics within a tripartite xylanolytic halophilic consortium. This consortium includes Haloferax lucertense SVX82, Halorhab…
View article: Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya
Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya Open
Objectives. Klebsiella pneumoniae are a frequent cause of nosocomial infections worldwide. Sequence type 147 (ST147) has been reported as a major circulating high-risk lineage in many countries, and appears to be a formidable platform for …
View article: Epigenetic Background of Lineage-Specific Genome Expression Landscapes of Four Staphylococcus Aureus Hospital Isolates
Epigenetic Background of Lineage-Specific Genome Expression Landscapes of Four Staphylococcus Aureus Hospital Isolates Open
View article: Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya
Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya Open
Klebsiella pneumoniae are a frequent cause of nosocomial infections worldwide. Sequence type 147 (ST147) has been reported as a major circulating high-risk lineage in many countries, and appears to be a formidable platform for the dissemin…
View article: Development of Multicomponent Nanostructured Nitride Coatings to Protect against Corrosion Products from Titanium Alloy
Development of Multicomponent Nanostructured Nitride Coatings to Protect against Corrosion Products from Titanium Alloy Open
Phase-structural characteristics and the corrosion resistance of coatings ZrN, (Zr,Ti)N, (Zr,Hf)N, (Zr,Nb)N, (Ti,Zr,Hf)N and (Ti,Zr,Nb)N, which were deposited on a Ti6Al-4V titanium alloy substrate, were investigated. It was found that the…
View article: Reviewer response for version 2
Reviewer response for version 2 Open
Klebsiella pneumoniae are a frequent cause of nosocomial infections worldwide. Sequence type 147 (ST147) has been reported as a major circulating high-risk lineage in many countries, and appears to be a formidable platform for the dissemin…
View article: Staphylococcus aureus associated with post-operative wound infections in Western Kenya reveals genomic hotspots for pathogen evolution
Staphylococcus aureus associated with post-operative wound infections in Western Kenya reveals genomic hotspots for pathogen evolution Open
Staphylococcus aureus is one of the most common pathogens associated with hospital infections. Although S. aureusinfections have been well studied in developed countries, far less is known about the biology of the pathogen in sub-Saharan A…
View article: Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya
Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya Open
Klebsiella pneumoniae are a frequent cause of nosocomial infections worldwide. Sequence type 147 (ST147) has been reported as a major circulating high-risk lineage in many countries, and appears to be a formidable platform for the dissemin…
View article: Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya
Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya Open
Objectives Klebsiella pneumoniae are frequent causes of nosocomial infections worldwide. Sequence type 147 (ST147) has been reported as a major circulating high-risk lineage in many countries, and appears to be a formidable platform for th…
View article: The Effect of Three Complexes of Iodine with Amino Acids on Gene Expression of Model Antibiotic Resistant Microorganisms Escherichia coli ATCC BAA-196 and Staphylococcus aureus ATCC BAA-39
The Effect of Three Complexes of Iodine with Amino Acids on Gene Expression of Model Antibiotic Resistant Microorganisms Escherichia coli ATCC BAA-196 and Staphylococcus aureus ATCC BAA-39 Open
1. Background: Iodine is a broad-spectrum antimicrobial disinfectant for topical application. Recent studies have shown promising results on the applicability of an iodine-containing complex, FS-1, against antibiotic-resistant pathogens. I…
View article: Nanohaloarchaea as beneficiaries of xylan degradation by haloarchaea
Nanohaloarchaea as beneficiaries of xylan degradation by haloarchaea Open
Climate change, desertification, salinisation of soils and the changing hydrology of the Earth are creating or modifying microbial habitats at all scales including the oceans, saline groundwaters and brine lakes. In environments that are s…
View article: Functional diversity of nanohaloarchaea within xylan-degrading consortia
Functional diversity of nanohaloarchaea within xylan-degrading consortia Open
Extremely halophilic representatives of the phylum Candidatus Nanohaloarchaeota (members of the DPANN superphyla) are obligately associated with extremely halophilic archaea of the phylum Halobacteriota (according to the GTDB taxonomy). Us…
View article: Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya
Whole genome sequencing and genotyping Klebsiella pneumoniae multi-drug resistant hospital isolates from Western Kenya Open
Supplementary Figure S1. Alignment of nucleotide sequences of the plasmids found in the K. pneumoniae isolates. This alignment was constructed using the program Mauve v.20150226. Supplemen…