Frédéric Grenier
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View article: Global emergence of Acinetobacter baumannii International Clone 12 predominantly found in the Middle East
Global emergence of Acinetobacter baumannii International Clone 12 predominantly found in the Middle East Open
Infections caused by carbapenem-resistant Acinetobacter baumannii (CRAB) are of great concern, as mortality is high, and treatment options are very limited. Despite having among the highest rates reported worldwide, scarce genomic data are…
View article: Conserved protein sequence-structure signatures identify emerging antibiotic resistance genes from the human microbiome
Conserved protein sequence-structure signatures identify emerging antibiotic resistance genes from the human microbiome Open
Bacteria exhibiting antimicrobial resistance (AMR) is a problem that has grown to become a significant global public health challenge. Antibiotic resistance genes (ARGs), determinants of AMR, mostly emerge from non-clinical settings. Ident…
View article: Isolation of a <i>bla</i> <sub>NDM-1</sub> -positive strain in Israel predating the earliest observations from India
Isolation of a <i>bla</i> <sub>NDM-1</sub> -positive strain in Israel predating the earliest observations from India Open
bla NDM , the most prevalent carbapenemase among carbapenem-resistant Enterobacteriaceae, is thought to have emerged in India, as its initial detection in 2008 was linked to this country, and subsequent retrospective surveys had so far est…
View article: Diagnosis and mitigation of the systemic impact of genome reduction in <i>Escherichia coli</i> DGF-298
Diagnosis and mitigation of the systemic impact of genome reduction in <i>Escherichia coli</i> DGF-298 Open
Microorganisms with simplified genomes represent interesting cell chassis for systems and synthetic biology. However, genome reduction can lead to undesired traits, such as decreased growth rate and metabolic imbalances. To investigate the…
View article: Earliest observation of the tetracycline destructase <i>tet(X3</i> )
Earliest observation of the tetracycline destructase <i>tet(X3</i> ) Open
Tigecycline is an antibiotic of last resort for infections with carbapenem-resistant Acinetobacter baumannii . Plasmids harboring variants of the tetracycline destructase gene tetX promote rising tigecycline resistance rates. We report the…
View article: Molecular Characteristics of Colistin Resistance in Acinetobacter baumannii and the Activity of Antimicrobial Combination Therapy in a Tertiary Care Medical Center in Lebanon
Molecular Characteristics of Colistin Resistance in Acinetobacter baumannii and the Activity of Antimicrobial Combination Therapy in a Tertiary Care Medical Center in Lebanon Open
(1) Background: Infections with pan-drug-resistant (PDR) bacteria, such as A. baumannii, are becoming increasingly common, especially in healthcare facilities. In this study, we selected 15 colistin-resistant clinical A. baumannii isolates…
View article: Adaptive laboratory evolution reveals regulators involved in repressing biofilm development as key players in <i>Bacillus subtilis</i> root colonization
Adaptive laboratory evolution reveals regulators involved in repressing biofilm development as key players in <i>Bacillus subtilis</i> root colonization Open
In this study, we aimed to enhance the abilities of the plant-beneficial bacterium Bacillus subtilis to colonize plant roots in the presence of competing Pseudomonas bacteria. To achieve this, we conducted adaptive laboratory experiments, …
View article: 2187. Earliest Description of Mobile Genetic Elements (MGEs) Involved in Establishing <i>bla</i>NDM Persistence Following its Spread From <i>Acinetobacter</i> spp. to Enterobacterales
2187. Earliest Description of Mobile Genetic Elements (MGEs) Involved in Establishing <i>bla</i>NDM Persistence Following its Spread From <i>Acinetobacter</i> spp. to Enterobacterales Open
Background bla NDM is the most prevalent carbapenemase worldwide. It originated in Acinetobacter spp. and spread to Enterobacterales on MGEs despite bottlenecks in MGE transfers between, and persistence within, these phylogenetically disti…
View article: Complete sequence of the genome-reduced <i>Escherichia coli</i> DGF-298
Complete sequence of the genome-reduced <i>Escherichia coli</i> DGF-298 Open
We report the complete genome sequence and annotation of Escherichia coli DGF-298, a genome-reduced E. coli strain with interesting properties for systems and synthetic biology. DGF-298 has a single circular chromosome of 2,991,126 bp and …
View article: Emergence of<i>Acinetobacter baumannii</i>International Clone 10 predominantly found in the Middle East
Emergence of<i>Acinetobacter baumannii</i>International Clone 10 predominantly found in the Middle East Open
Acinetobacter baumannii is a globally distributed human pathogen. Infections caused by carbapenem-resistant isolates of A. baumannii (CRAB) are of great concern, as treatment options are very limited. Despite having among the highest rates…
View article: Earliest observation of the tetracycline destructase<i>tet(X3)</i>
Earliest observation of the tetracycline destructase<i>tet(X3)</i> Open
Tigecycline is an antibiotic of last resort for infections with carbapenem-resistant Acinetobacter baumannii . Plasmids harboring variants of the tetracycline destructase tet(X) promote rising tigecycline resistance rates. We report the ea…
View article: Adaptative Laboratory Evolution reveals biofilm regulating genes as key players in<i>B. subtilis</i>root colonization
Adaptative Laboratory Evolution reveals biofilm regulating genes as key players in<i>B. subtilis</i>root colonization Open
Root-associated microorganisms play an important role in plant health, such as plant growth-promoting rhizobacteria from the Bacillus and Pseudomonas genera. Although bacterial consortia including these two genera would represent a promisi…
View article: Enabling low-cost and robust essentiality studies with high-throughput transposon mutagenesis (HTTM)
Enabling low-cost and robust essentiality studies with high-throughput transposon mutagenesis (HTTM) Open
Transposon-insertion sequencing (TIS) methods couple high density transposon mutagenesis with next-generation sequencing and are commonly used to identify essential or important genes in bacteria. However, this approach can be work-intensi…
View article: 131. Carbapenemase-producing <i>Acinetobacter</i> spp. from Israel, 2001-2006: earliest report of <i>bla</i>NDM predating the oldest known <i>bla</i>NDM-positive strains
131. Carbapenemase-producing <i>Acinetobacter</i> spp. from Israel, 2001-2006: earliest report of <i>bla</i>NDM predating the oldest known <i>bla</i>NDM-positive strains Open
Background Carbapenem-resistant Acinetobacter baumannii (CRAb) is a WHO priority 1 critical pathogen. Despite Israel being affected early by high CRAb rates, limited molecular data are available. We investigated the presence of carbapenema…
View article: Molecular epidemiology of carbapenemase-producing <i>Acinetobacter</i> spp. from Israel, 2001-2006: earliest report of <i>bla</i><sub>NDM</sub> predating the oldest known <i>bla</i><sub>NDM</sub>-positive strains
Molecular epidemiology of carbapenemase-producing <i>Acinetobacter</i> spp. from Israel, 2001-2006: earliest report of <i>bla</i><sub>NDM</sub> predating the oldest known <i>bla</i><sub>NDM</sub>-positive strains Open
Background Carbapenem-resistant Acinetobacter baumannii (CRAb) is a WHO priority 1 critical pathogen. Despite early emergence of elevated CRAb rates in Israel, limited molecular data from this location are available. We searched for carbap…
View article: The Type IV Pilus of Plasmid TP114 Displays Adhesins Conferring Conjugation Specificity and Is Important for DNA Transfer in the Mouse Gut Microbiota
The Type IV Pilus of Plasmid TP114 Displays Adhesins Conferring Conjugation Specificity and Is Important for DNA Transfer in the Mouse Gut Microbiota Open
Conjugative plasmids are involved in horizontal gene transfer in the gut microbiota, which constitutes an important antibiotic resistance gene reservoir. However, the molecular mechanisms used by conjugative plasmids to select recipient ba…
View article: PixR, a Novel Activator of Conjugative Transfer of IncX4 Resistance Plasmids, Mitigates the Fitness Cost of <i>mcr-1</i> Carriage in Escherichia coli
PixR, a Novel Activator of Conjugative Transfer of IncX4 Resistance Plasmids, Mitigates the Fitness Cost of <i>mcr-1</i> Carriage in Escherichia coli Open
The spread of clinically relevant antibiotic resistance genes is often linked to the dissemination of epidemic plasmids. However, the underlying molecular mechanisms contributing to the successful spread of epidemic plasmids remain unclear.
View article: PixR, a novel activator of conjugative transfer of IncX4 resistance plasmids, mitigates the fitness cost of <i>mcr-1</i> carriage in <i>Escherichia coli</i>
PixR, a novel activator of conjugative transfer of IncX4 resistance plasmids, mitigates the fitness cost of <i>mcr-1</i> carriage in <i>Escherichia coli</i> Open
The emergence of the plasmid-borne colistin resistance gene mcr-1 threats public health. IncX4-type plasmids are one of the most epidemiologically successful vehicles for spreading mcr-1 worldwide. Since MCR-1 is known for imposing a fitne…
View article: OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes
OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes Open
OpenProt (www.openprot.org) is the first proteogenomic resource supporting a polycistronic annotation model for eukaryotic genomes. It provides a deeper annotation of open reading frames (ORFs) while mining experimental data for supporting…
View article: Highly efficient gene transfer in the mouse gut microbiota is enabled by the Incl2 conjugative plasmid TP114
Highly efficient gene transfer in the mouse gut microbiota is enabled by the Incl2 conjugative plasmid TP114 Open
The gut microbiota is a suspected hotspot for bacterial conjugation due to its high density and diversity of microorganisms. However, the contribution of different conjugative plasmid families to horizontal gene transfer in this environmen…
View article: IncC conjugative plasmids and SXT/R391 elements repair double-strand breaks caused by CRISPR–Cas during conjugation
IncC conjugative plasmids and SXT/R391 elements repair double-strand breaks caused by CRISPR–Cas during conjugation Open
Bacteria have evolved defence mechanisms against bacteriophages. Restriction-modification systems provide innate immunity by degrading invading DNAs that lack proper methylation. CRISPR–Cas systems provide adaptive immunity by sampling the…
View article: Sen1 is required for RNA Polymerase III transcription termination in an R-loop independent manner
Sen1 is required for RNA Polymerase III transcription termination in an R-loop independent manner Open
R-loop disassembly by the human helicase Senataxin contributes to genome stability and to proper transcription termination at a subset of RNA polymerase II genes. Whether Senataxin-mediated R-loop disassembly also contributes to transcript…
View article: OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes
OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes Open
Advances in proteomics and sequencing have highlighted many non-annotated open reading frames (ORFs) in eukaryotic genomes. Genome annotations, cornerstones of today's research, mostly rely on protein prior knowledge and on ab initio predi…