A5068804235- Chromosomal and Genetic Variations
- Bacteriophages and microbial interactions
- Plant Disease Resistance and Genetics
- Genomics and Phylogenetic Studies
- Plant Pathogens and Fungal Diseases
- Plant Virus Research Studies
- Antibiotic Resistance in Bacteria
- Plant Pathogens and Resistance
- CRISPR and Genetic Engineering
- Bacterial Genetics and Biotechnology
- Legume Nitrogen Fixing Symbiosis
- Advanced biosensing and bioanalysis techniques
- Mycorrhizal Fungi and Plant Interactions
- Escherichia coli research studies
- Biofuel production and bioconversion
- Phytoplasmas and Hemiptera pathogens
- RNA and protein synthesis mechanisms
- Insect Resistance and Genetics
- Antibiotics Pharmacokinetics and Efficacy
- Pharmaceutical and Antibiotic Environmental Impacts
- RNA Interference and Gene Delivery
- Advanced Proteomics Techniques and Applications
European Molecular Biology Laboratory
2014-2022
University of Geneva
2021-2022
European Bioinformatics Institute
2018-2021
Institute of Cytology and Genetics
2012-2015
Novosibirsk State University
2008-2015
Abstract Prokaryotic Mobile Genetic Elements (MGEs) such as transposons, integrons, phages and plasmids, play important roles in prokaryotic evolution the dispersal of cargo functions like antibiotic resistance. However, each these MGE types is usually annotated analysed individually, hampering a global understanding phylogenetic environmental patterns dispersal. We thus developed computational framework that captures diverse types, their cargos MGE-mediated horizontal transfer events, using...
Mobile genetic elements (MGEs) sequester and mobilize antibiotic resistance genes across bacterial genomes. Efficient reliable identification of such is necessary to follow spreading. However, automated tools for MGE are missing. Tyrosine recombinase (YR) proteins drive mobilization could provide markers detection, but they constitute a diverse family also involved in housekeeping functions. Here, we conducted comprehensive survey YRs from bacterial, archaeal, phage genomes developed...
The thermophilic fungus Chaetomium thermophilum holds great promise for structural biology. To increase the efficiency of its biochemical and characterization to explore properties beyond those individual proteins, we obtained transcriptomics proteomics data, integrated them with computational annotation methods a multitude experiments conducted by biology community. We considerably improved genome characterized transcripts expression thousands genes. furthermore show that composition...
Conjugative transposition drives the emergence of multidrug resistance in diverse bacterial pathogens, yet mechanisms are poorly characterized. The Tn1549 conjugative transposon propagates to antibiotic vancomycin used for severe drug-resistant infections. Here, we present four high-resolution structures conserved Y-transposase complexed with circular DNA intermediates. reveal individual steps and explain how specific distortion cleavage enable strand exchange an absolute minimum homology...
Horizontal transfer (HT) is a complex phenomenon usually used as an explanation of phylogenetic inconsistence, which cannot be interpreted in terms vertical evolution. Most examples HT eukaryotic genes involve transposable elements. An intriguing feature that its frequency differs among elements classes. Although well known for DNA transposons and long terminal repeat (LTR) retrotransposons, non-LTR retrotransposons rarely undergo HT, their phylogenies are largely congruent to those hosts....
Significance Transposons are jumping genes that constitute a sizeable fraction of eukaryotic genomes. They drive genome evolution and can cause genetic diseases cancer. Although transposons were first discovered in plants much our knowledge about them stems from plants, the most abundant human transposon, L1, has barely been investigated plants. In this study, we identify plant L1 retrotransposons variety genomes show that, similar to viruses, they evolved modular fashion by gaining losing...
Chromodomain-containing Gypsy LTR retrotransposons or chromoviruses are widely distributed among eukaryotes and have been found in plants, fungi vertebrates. The previous comprehensive survey of from mosses (Bryophyta) suggested that genomes non-seed plants contain the clade which is closely related to fungi. origin, distribution evolutionary history this remained unclear mainly due absence information concerning diversity other groups as well fungal genomes. In present study we preformed...
Ty3/Gypsy long terminals repeat (LTR) retrotransposons are structurally and phylogenetically close to retroviruses. Two notable structural differences between these groups of genetic elements 1) the presence in retroviruses an additional envelope gene, env, which mediates infection, 2) a specific dual ribonuclease H (RNH) domain encoded by retroviral pol gene. However, similar retroviruses, many LTR harbor env-like genes, promoting concepts infective mode retrotransposons. Here, we provide...
Chromodomain-containing LTR retrotransposons are one of the most successful groups mobile elements in plant genomes. Previously, we demonstrated that two types chromodomains (CHDs) carried by retrotransposons. Chromodomains from group I (CHD_I) were detected only Tcn1-like nonseed plants such as mosses (including model moss species Physcomitrella) and lycophytes (the Selaginella species). retrotransposon II (CHD_II) have been described a wide range higher plants. In present study, performed...
Retrotransposons comprise a ubiquitous and abundant class of eukaryotic transposable elements. All members this rely on reverse transcriptase activity to produce DNA copy the element from RNA template. However, other activities retrotransposon-encoded polyprotein may differ between diverse retrotransposons. The domains corresponding each these have their own evolutionary history independent that transcriptase, thus underlying modular view evolution Furthermore, some elements can...
Summary Retrotransposons are the major component of plant genomes. Chromodomain‐containing Gypsy long terminal repeat (LTR) retrotransposons widely distributed in eukaryotes. Four distinct clades chromodomain‐containing retroelements known from vascular plants: Reina, CRM, Galadriel and Tekay. At same time, almost nothing is about repertoire LTR bryophyte We have combined a search Physcomitrella genomic sequences an experimental investigation diverse moss species. The computer‐based mining...
ABSTRACT Background Tyrosine recombinases perform site-specific genetic recombination in bacteria and archaea. They safeguard genome integrity by resolving chromosome multimers, as well mobilize transposons, phages integrons, driving dissemination of traits antibiotic resistance. Despite their abundance impact, tyrosine recombinase diversity evolution has not been thoroughly characterized, which greatly hampers functional classification. Results Here, we conducted a comprehensive search...
Transposons are mobile genetic elements that drive evolution and adaptation throughout the tree of life. In bacteria, they often transfer antibiotic resistance genes contribute to emergence multidrug-resistant pathogens. this talk, I will present our recent discoveries on a group transposons efficiently propagate across diverse microbial communities. Using dedicated computational pipeline, we mapped most wide-spread in bacterial genomes characterized their diversity, cargo, dynamics....