Search

Your search keyword '"Depardieu, Florence"' showing total 131 results
Start Over Author "Depardieu, Florence"
Sorry, I don't understand your search. ×
131 results on '"Depardieu, Florence"'

1. A virally encoded tRNA neutralizes the PARIS antiviral defence system

Author

Burman, Nathaniel, Belukhina, Svetlana, Depardieu, Florence, Wilkinson, Royce A., Skutel, Mikhail, Santiago-Frangos, Andrew, Graham, Ava B., Livenskyi, Alexei, Chechenina, Anna, Morozova, Natalia, Zahl, Trevor, Henriques, William S., Buyukyoruk, Murat, Rouillon, Christophe, Saudemont, Baptiste, Shyrokova, Lena, Kurata, Tatsuaki, Hauryliuk, Vasili, Severinov, Konstantin, Groseille, Justine, Thierry, Agnès, Koszul, Romain, Tesson, Florian, Bernheim, Aude, Bikard, David, Wiedenheft, Blake, and Isaev, Artem

Published
2024
Full Text
View/download PDF

3. Delivery of functional Cas:DNA nucleoprotein complexes into recipient bacteria through a type IV secretion system.

Author

Guzmán-Herrador, Dolores L., Fernández-Gómez, Andrea, Depardieu, Florence, Bikard, David, and Llosa, Matxalen

Subjects
BACTERIAL conjugation, EUKARYOTIC genomes, PROKARYOTIC genomes, BACTERIAL proteins, CHIMERIC proteins
Abstract

CRISPR-associated (Cas) endonucleases and their derivatives are widespread tools for the targeted genetic modification of both prokaryotic and eukaryotic genomes. A critical step of all CRISPR-Cas technologies is the delivery of the Cas endonuclease to the target cell. Here, we investigate the possibility of using bacterial conjugation to translocate Cas proteins into recipient bacteria. Conjugative relaxases are translocated through a type IV secretion system into the recipient cell, covalently attached to the transferred DNA strand. We fused relaxase R388-TrwC with the endonuclease Cas12a and confirmed that it can be transported through a T4SS. The fusion protein maintained its activity upon translocation by conjugation into the recipient cell, as evidenced by the induction of the SOS signal resulting from DNA breaks produced by the endonuclease in the recipient cell, and the detection of mutations at the target position. We further show how a template DNA provided on the transferred DNA can be used to introduce specific mutations. The guide RNA can also be encoded by the transferred DNA, enabling its production in the recipient cells where it can form a complex with the Cas nuclease transferred as a protein. This self-contained setup enables to target wild-type bacterial cells. Finally, we extended this strategy to the delivery of relaxases fused to base editors. Using TrwC and MobA relaxases as drivers, we achieved precise editing of transconjugants. Thus, conjugation provides a delivery system for Cas-derived editing tools, bypassing the need to deliver and express a cas gene in the target cells. [ABSTRACT FROM AUTHOR]

Published
2024
Full Text
View/download PDF

5. Viral proteins activate PARIS-mediated tRNA degradation and viral tRNAs rescue infection

Author

Burman, Nathaniel, primary, Belukhina, Svetlana, additional, Depardieu, Florence, additional, Wilkinson, Royce A., additional, Skutel, Mikhail, additional, Santiago-Frangos, Andrew, additional, Graham, Ava B., additional, Livenskyi, Alexei, additional, Chechenina, Anna, additional, Morozova, Natalia, additional, Zahl, Trevor, additional, Henriques, William S., additional, Buyukyoruk, Murat, additional, Rouillon, Christophe, additional, Shyrokova, Lena, additional, Kurata, Tatsuaki, additional, Hauryliuk, Vasili, additional, Severinov, Konstantin, additional, Groseille, Justine, additional, Thierry, Agnès, additional, Koszul, Romain, additional, Tesson, Florian, additional, Bernheim, Aude, additional, Bikard, David, additional, Wiedenheft, Blake, additional, and Isaev, Artem, additional

Published
2024
Full Text
View/download PDF

8. A widespread family of phage-inducible chromosomal islands only steals bacteriophage tails to spread in nature

Author

Rousset, François, Depardieu, Florence, Miele, Solange, Dowding, Julien, Laval, Anne-Laure, Lieberman, Erica, Garry, Daniel, Rocha, Eduardo P.C., Bernheim, Aude, Bikard, David, Génomique évolutive des Microbes / Microbial Evolutionary Genomics, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), This work was supported by grants MR/M003876/1, MR/V000772/1, and MR/S00940X/1 from the Medical Research Council (UK), BB/N002873/1, BB/V002376/1, BB/V009583/1, and BB/S003835/1 from the Biotechnology and Biological Sciences Research Council (BBSRC, UK), ERC-ADG-2014 Proposal no. 670932 Dut-signal (from EU), and Wellcome Trust 201531/Z/16/Z to J.R.P., and grants INCEPTION project (PIA/ANR-16-CONV-0005), Equipe FRM (Fondation pour la Recherche Médicale): EQU201903007835, Laboratoire d’Excellence IBEID Integrative Biology of Emerging Infectious Diseases (ANR-10-LABX-62-IBEID), and SALMOPROPHAGE ANR-16-CE16-0029 to E.P.C.R. L.M.-R. was the recipient of a Spanish postdoctoral fellowship from the Fundación Ramón Areces (2018–2020). A.F.-S. is the recipient of a fellowship from Imperial College., ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016), ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), ANR-16-CE12-0029,Salmo_prophages,Co-évolution des génomes bactériens et de leurs prophages: cooptation des prophages et conversion lysogenique chez Salmonella(2016), European Project: 670932,H2020,ERC-2014-ADG,DUT-signal(2015), University of Glasgow, King Saud Bin Abdulaziz University for Health Sciences [Riyadh] (KSAU-HS), Imperial College London, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), National University of Singapore (NUS), This work was supported by grants MR/M003876/1, MR/V000772/1 and MR/S00940X/1 from the Medical Research Council (UK), BB/N002873/1, BB/V002376/1 and BB/S003835/1 from the Biotechnology and Biological Sciences Research Council (BBSRC, UK), ERC-ADG-2014 Proposal n° 670932 Dut-signal (from EU), and Wellcome Trust 201531/Z/16/Z to JRP, and grants INCEPTION project (PIA/ANR-16-CONV-0005), Equipe FRM (Fondation pour la Recherche Médicale): EQU201903007835, Laboratoire d’Excellence IBEID Integrative Biology of Emerging Infectious Diseases [ANR-10-LABX-62-IBEID], and SALMOPROPHAGE ANR-16-CE16-0029 to EPCR., and ANR-05-GANI-0001,GenOvul,Exploitation de la variabilité génétique intra et inter-espèces pour l'étude du déterminisme génétique du taux d'ovulation(2005)

Subjects
small capsid formation, [SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE], [SDV]Life Sciences [q-bio], packaging, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, Microbiology, tail, bacteriophage, Virology, Parasitology, convergent evolution, pathogenicity islands, gene transfer, PICI
Abstract

Phage satellites interfere with helper phage packaging through the production of small-capsids, where only satellites can be packaged. So far, in all the analysed systems, the satellite-sized capsids are composed of phage proteins. Here we report the first demonstration that a family of phage-inducible chromosomal island (PICIs), a type of satellites, encodes all the proteins required for both the production of the small-sized capsids and the exclusive packaging of the PICIs into these capsids. Therefore, this new family, that we have named cf-PICIs (capsid forming PICIs), only requires phage tails to generate infective PICI particles. Remarkably, the representative cf-PICI reproduces without cost for their helper phages, suggesting that the relationship between these elements is not parasitic but commensalistic. Finally, our phylogenomic studies indicate that cf-PICIs are present both in Gram-positive and Gram-negative bacteria and have evolved at least three times independently to spread widely into the satellite universe.

Published
2022

9. Phages and their satellites encode hotspots of antiviral systems

Author

Rousset, François, primary, Depardieu, Florence, additional, Miele, Solange, additional, Dowding, Julien, additional, Laval, Anne-Laure, additional, Lieberman, Erica, additional, Garry, Daniel, additional, Rocha, Eduardo P.C., additional, Bernheim, Aude, additional, and Bikard, David, additional

Published
2022
Full Text
View/download PDF

18. The VanS sensor negatively controls VanR-mediated transcriptional activation of glycopeptide resistance genes of Tn1546 and related elements in the absence of induction

Author

Arthur, Michel, Depardieu, Florence, Gerbaud, Guy, Galimand, Marc, Leclercq, Roland, and Courvalin, Patrice

Subjects
Bacterial genetics -- Research, Drug resistance in microorganisms -- Genetic aspects, Genetic regulation -- Research, Transposons -- Genetic aspects, Protein kinases -- Genetic aspects, Genetic transcription -- Regulation, Biological sciences
Abstract

The regulation of the van gene cluster by natural plasmids was investigated by inserting a chloramphenicol acetyltransferase (cat) reporter gene into a histidine protein kinase (VanS) and a response regulator (VanR). Analysis of the regulation of glycopeptide resistance genes by the VanR-VanS two-component regulatory system of in Tn1546 indicated the role of VanS sensor as a negative regulator of VanR-mediated promoter activation. The negative control that was required for the inducible expression of vancomycin resistance genes also involved the dephosphorylation of VanR.

Published
1997

22. Characterization of Tn1546, a Tn3-related transposon conferring glycopeptide resistance by synthesis of depsipeptide peptidoglycan precursors in Enterococcus faecium BM4147

Author

Arthur, Michel, Molinas, Catherine, Depardieu, Florence, and Courvalin, Patrice

Subjects
Enterobacteriaceae -- Genetic aspects, Drug resistance in microorganisms -- Genetic aspects, Transposons -- Identification and classification, Biological sciences
Abstract

Vancomycin resistance in Enterococcus faecium is mediated by the van genes, of which one, vanA, is responsible for the synthesis of depsipeptides that can be incorporated into peptidoglycan precursors. The flanking regions of the van gene cluster in pIP816 were characterized. The results showed that the cluster is contained within a 10,851-bp transposon, designated Tn1546. Further characterization of this transposon showed that it belongs to the Tn3 family of transposons and is present in other enterococci, suggesting that transposition is a major mechanism of van gene cluster dissemination in enterococci.

Published
1993

27. PhageTerm: a tool for fast and accurate determination of phage termini and packaging mechanism using next-generation sequencing data

Author

Garneau, Julian R., Depardieu, Florence, Fortier, Louis-Charles, Bikard, David, Monot, Marc, Pathogénèse des Bactéries Anaérobies / Pathogenesis of Bacterial Anaerobes (PBA (U-Pasteur_6)), Institut Pasteur [Paris]-Université Paris Diderot - Paris 7 (UPD7), Université de Sherbrooke (UdeS), Biologie de Synthèse - Synthetic biology, Institut Pasteur [Paris], Université Paris Diderot - Paris 7 (UPD7), This work was supported by a discovery grant from the Natural Sciences and Engineering Research Council of Canada (NSERC #341450-2010) to LCF and the French Government’s program Investissement d’Avenir program, Laboratoire d’Excellence ‘Integrative Biology of Emerging Infectious Diseases’ [ANR-10-LABX-62-IBEID]., The authors would like to thank Laurence Van Melderen and Ariane Toussaint for providing strain RH8816, Erica Lieberman from Eligo Bioscience for providing the sequencing data for phage HK97 and Laurent Debarbieux for providing phage T4 as well as useful discussions. We also acknowledge the Genomics Platform and the center of informatics for Biology, especially Christiane Bouchier, Laurence Ma, Eric Deveau, Fabien Mareuil and Olivia Doppelt-Azeroual for their help and support with sequencing and Galaxy integration., ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), Institut Pasteur [Paris] (IP)-Université Paris Diderot - Paris 7 (UPD7), Institut Pasteur [Paris] (IP), Université de Sherbrooke [Sherbrooke], and ANR-10-LABX-62-IBEID,IBEID,Laboratoire d'Excellence 'Integrative Biology of Emerging Infectious Diseases'(2010)

Subjects
Clostridioides difficile, Virus Assembly, Science, [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, Genome, Viral, [SDV.MP.BAC]Life Sciences [q-bio]/Microbiology and Parasitology/Bacteriology, Article, DNA, Viral, Animals, Medicine, Bacteriophages, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], Software
Abstract

International audience; The worrying rise of antibiotic resistance in pathogenic bacteria is leading to a renewed interest in bacteriophages as a treatment option. Novel sequencing technologies enable description of an increasing number of phage genomes, a critical piece of information to understand their life cycle, phage-host interactions, and evolution. In this work, we demonstrate how it is possible to recover more information from sequencing data than just the phage genome. We developed a theoretical and statistical framework to determine DNA termini and phage packaging mechanisms using NGS data. Our method relies on the detection of biases in the number of reads, which are observable at natural DNA termini compared with the rest of the phage genome. We implemented our method with the creation of the software PhageTerm and validated it using a set of phages with well-established packaging mechanisms representative of the termini diversity, i.e. 5'cos (Lambda), 3'cos (HK97), pac (P1), headful without a pac site (T4), DTR (T7) and host fragment (Mu). In addition, we determined the termini of nine Clostridium difficile phages and six phages whose sequences were retrieved from the Sequence Read Archive. PhageTerm is freely available (https://sourceforge.net/projects/phageterm), as a Galaxy ToolShed and on a Galaxy-based server (https://galaxy.pasteur.fr).

Published
2017

36. Competition between VanUG Repressor and VanRG Activator Leads to Rheostatic Control of vanG Vancomycin Resistance Operon Expression.

Author

Depardieu, Florence, Mejean, Vincent, and Courvalin, Patrice

Subjects
*ENTEROCOCCUS faecalis, *GENETIC repressors, *VANCOMYCIN resistance, *DRUG resistance in bacteria, *PEPTIDOGLYCANS, *GENETIC transcription
Abstract

Enterococcus faecalis BM4518 is resistant to vancomycin by synthesis of peptidoglycan precursors ending in D-alanyl-D-serine. In the chromosomal vanG locus, transcription of the resistance genes from the PYG resistance promoter is inducible and, upstream from these genes, there is an unusual three-component regulatory system encoded by the vanURSG operon from the PUG regulatory promoter. In contrast to the other van operons in enterococci, the vanG operon possesses the additional vanUG gene which encodes a transcriptional regulator whose role remains unknown. We show by DNase I footprinting, RT-qPCR, and reporter proteins activities that VanUG, but not VanRG, binds to PUG and negatively autoregulates the vanURSG operon and that it also represses PYG where it overlaps with VanRG for binding. In clinical isolate BM4518, the transcription level of the resistance genes was dependent on vancomycin concentration whereas, in a ΔvanUG mutant, resistance was expressed at a maximum level even at low concentrations of the inducer. The binding competition between VanUG and VanRG on the PYG resistance promoter allowed rheostatic activation of the resistance operon depending likely on the level of VanRG phosphorylation by the VanSG sensor. In addition, there was cross-talk between VanSG and VanR'G, a VanRG homolog, encoded elsewhere in the chromosome indicating a sophisticated and subtle regulation of vancomycin resistance expression by a complex two-component system. [ABSTRACT FROM AUTHOR]

Published
2015
Full Text
View/download PDF

45. Regulated interactions between partner and non-partner sensors and response regulators that control glycopeptide resistance gene expression in enterococci

Author

Arthur, Michel, Depardieu, Florence, and Courvalin, Patrice

Subjects
Gene expression -- Research, Genetic regulation -- Research, Genetic transcription -- Regulation, Gene mutations -- Research, Biological sciences
Abstract

The introduction of histidine to glutamine substitutions at positions 164 of VanS and 233 of VanSB was done to prevent the autophosphorylation of the sensor kinases and the transfer of the phosphate groups to the VanR and VanRB response regulators. The results showed that VanSH164Q and VanSBH233Q were responsible for the non-activation of VanRB and VanR by the host kinases. VanSH164Q prevented the transcription of resistance genes under all conditions and VanSBH233Q was negatively modulated by vancomycin.

Published
1999

Catalog

Books, media, physical & digital resources
See catalog results