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20 results for “plasmid conjugation”
Datasets of protein models from plasmids containing conjugative Type 4 Secretion Systems
<p>In the connected article, we have created a database of all modelled protein structures encoded on plasmids that contain conjugative type 4 secretion systems. In this deposition, you will find zip files of all structures modelled by AlphaFold, as well as the ones that were modelled using EMS fold. Further, there the csv file containing the DeepFRI output, as well as a fasta file containing the sequences of the plasmids.</p> <p>The AlphaFold and ESM databases contain the structural models of the curated/triaged proteins, as described in the paper.</p> <p> </p>
A streamlined approach for fluorescence labelling of low copy-number plasmids for determination of conjugation frequency by flow cytometry
<p><span>Bacterial conjugation plays a major role in the dissemination of antibiotic resistance and virulence traits through horizontal transfer of plasmids. </span>Robust <span>measurement</span> of<span> the conjugation frequency of plasmids between bacterial strains and species </span>is therefore important <span>to understand the transfer dynamics </span>and epidemiology <span>of conjugative plasmids. In this study, we present a streamlined experimental approach for fluorescence labelling of low copy-number conjugative plasmids that allows plasmid transfer frequency during filter mating to be measured by flow cytometry. A blue fluorescence gene is inserted into a conjugative plasmid of interest using a simple homologous recombineering procedure. </span><span>A small non-conjugative plasmid, which carries a red fluorescence gene with a toxin-antitoxin system that functions as a plasmid stability module, is used to label the recipient bacterial strain. This offers the dual advantage of circumventing chromosomal modifications of recipient strains and ensuring that the red fluorescence gene-bearing plasmid can be stably maintained in recipient cells in an antibiotic-free environment during conjugation. A strong constitutive promoter allows the two fluorescence genes to be strongly and constitutively expressed from the plasmids, thus allowing flow cytometers to clearly distinguish between donor, recipient and transconjugant populations in a conjugation mix for monitoring conjugation frequencies more precisely over time. </span></p>
A streamlined approach for fluorescence labelling of low copy-number plasmids for determination of conjugation frequency by flow cytometry
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Sequence and functional analyses of native plasmids from plant pathogenic Gammaproteobacteria: comparative genomics, conjugative mobilization and fitness effects
<p>These data tables are part of the Supplementary Material for Chapter I of the thesis titled <em>"Sequence and Functional Analyses of Native Plasmids from Plant-Pathogenic Gammaproteobacteria: Comparative Genomics, Conjugative Mobilization, and Fitness Effects."</em></p>
Data from: Conjugative plasmid transfer is limited by prophages but can be overcome by high conjugation rates
<p><span><span><span><span>Antibiotic resistance spread via plasmids is a serious threat to successfully fight infections and makes understanding plasmid transfer in nature crucial to prevent the rise of antibiotic resistance. Studies addressing the dynamics of plasmid conjugation have yet neglected one omnipresent factor: prophages (viruses integrated into bacterial genomes), whose activation can kill host and surrounding bacterial cells. To investigate the impact of prophages on conjugation, we combined experiments and mathematical modelling. Using <em>E. coli</em>, prophage lambda and the multidrug-resistant plasmid RP4 we find that prophages can substantially limit the spread of conjugative plasmids. This inhibitory effect was strongly dependent on environmental conditions and bacterial genetic background. Our empirically parameterized model reproduced experimental dynamics of cells acquiring either the prophage or the plasmid well but failed to predict the number of cells acquiring both elements. This suggests more complex interactions between conjugative plasmids and prophages in sequential infections. Varying phage and plasmid infection parameters over empirically realistic ranges revealed that plasmids can overcome the negative impact of prophages through high conjugation rates. Overall, the presence of prophages introduces an additional death rate for plasmid carriers, the magnitude of which is determined in non-trivial ways by the environment, the phage and the plasmid.</span></span></span></span></p>
Data from: Conjugative plasmid transfer is limited by prophages but can be overcome by high conjugation rates
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Data from: Black Queen evolution and trophic interactions determine plasmid survival after the disruption of conjugation network
Mobile genetic elements such as conjugative plasmids are responsible for antibiotic resistant phenotypes in many bacterial pathogens. The ability to conjugate, the presence of antibiotics and ecological interactions all have a notable role in the persistence of plasmids in bacterial populations. Here, we set out to investigate the contribution of these factors when the conjugation network was disturbed by a plasmid-dependent bacteriophage. Phage alone effectively caused the population to lose plasmids, thus rendering them susceptible to antibiotics. Leakiness of the antibiotic resistance mechanism allowing Black Queen evolution (i.e. race to the bottom) was a more significant factor over antibiotic concentration (lethal vs sub-lethal) in determining plasmid prevalence. Interestingly, plasmid loss was also prevented by protozoan predation. These results show that the outcome of attempts to re-sensitize bacterial communities by disrupting the conjugation network are highly dependent on ecological factors and resistance mechanisms.
Data from: Deciphering conjugative plasmid permissiveness dynamics in wastewater microbiomes
Wastewater treatment plants (WWTPs) are designed to robustly treat polluted water. They are characterized by ceaseless flows of organic, chemical and microbial matter, followed by treatment steps before environmental release. WWTPs are hotspots of horizontal gene transfer (HGT) between bacteria via conjugative plasmids, leading to dissemination of potentially hazardous genetic material such as antimicrobial resistance genes (AMRGs). While current focus is on the threat of AMRGs spreading and environmental maintenance, conjugative plasmid transfer dynamics within and between bacterial communities still remains largely uncharted. Furthermore, current in vitro methods used to assess conjugation in complex microbiomes do not include in situ behaviors of recipient cells, resulting in partial representation of transfers. We investigated the in vitro conjugation capacities of WWTP microbiomes from inlet sewage and outlet treated water using the broad host-range IncP-1 conjugative plasmid, pKJK5. A thorough molecular approach coupling metagenomes to 16S rRNA DNA/cDNA amplicon sequencing was established to characterize microbiomes using the ecological concept of functional response groups. A broad diversity of recipient bacterial phyla for the plasmid in wastewater was observed, especially in WWTP outlets. We also identified permissive bacteria potentially able to cross WWTPs and engage in conjugation before and after water treatment. Bacterial activity and lifestyles seem to influence conjugation extent, as treated water copiotrophs were the most represented strategists amongst transconjugants. Correlation analysis highlighted possible plasmid transmission routes into communities between the sewage to the environment, with identification of keystone members (e.g. Arcobacter) potentially involved in cross-border exchanges between distant Gram-positive and negative phyla.
Data from: Conjugation is necessary for a bacterial plasmid to survive under protozoan predation
Horizontal gene transfer by conjugative plasmids plays a critical role in the evolution of antibiotic resistance. Interactions between bacteria and other organisms can affect the persistence and spread of conjugative plasmids. Here we show that protozoan predation increased the persistence and spread of the antibiotic resistance plasmid RP4 in populations of the opportunist bacterial pathogen Serratia marcescens. A conjugation-defective mutant plasmid was unable to survive under predation, suggesting that conjugative transfer is required for plasmid persistence under the realistic condition of predation. These results indicate that multi-trophic interactions can affect the maintenance of conjugative plasmids with implications for bacterial evolution and the spread of antibiotic resistance genes.
Data from: Black Queen evolution and trophic interactions determine plasmid survival after the disruption of conjugation network
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Data from: Deciphering conjugative plasmid permissiveness dynamics in wastewater microbiomes
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Data from: Conjugation is necessary for a bacterial plasmid to survive under protozoan predation
Open the record for dataset details and reuse information.
Transcriptome of Pseudomonas putida KT2440 harboring plasmid RP4 during conjugative transfer
GEO Series GSE146879. Pseudomonas putida KT2440. 16 samples. Type: Expression profiling by array.
Large conjugative plasmid mediates chromosomal Type VI secretion system cross transcriptional regulation and diverse bacterial pathogenicity [RNA-Seq]
GEO Series GSE277925. Acinetobacter baumannii. 9 samples. Type: Expression profiling by high throughput sequencing.
Convergent transcriptional responses to acquisition and amelioration of different conjugative plasmids
GEO Series GSE151570. Pseudomonas [fluorescens] SBW25. 30 samples. Type: Expression profiling by high throughput sequencing.
Selective elimination of donor bacteria enables global profiling of plasmid gene expression at early stages of conjugation
GEO Series GSE298248. Sinorhizobium meliloti; Escherichia coli. 20 samples. Type: Expression profiling by high throughput sequencing.
A Noncanonical Intrinsic Terminator in the HicAB Toxin‒Antitoxin Operon Promotes the Transmission of Conjugative Antibiotic Resistance Plasmids
GEO Series GSE284789. Escherichia coli. 3 samples. Type: Expression profiling by high throughput sequencing.
Autonomous plasmid-like replication of a conjugative transposon
GEO Series GSE18380. Bacillus subtilis subsp. subtilis str. 168; Bacillus subtilis. 26 samples. Type: Genome binding/occupancy profiling by array; Genome variation profiling by array.
Large conjugative plasmid mediates chromosomal Type VI secretion system cross transcriptional regulation and diverse bacterial pathogenicity [ChIP-Seq]
GEO Series GSE277926. Acinetobacter baumannii. 8 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Modulation of primary cell function of host Pseudomonas bacteria by conjugative plasmid pCAR1
GEO Series GSE39636. Pseudomonas aeruginosa; Pseudomonas putida KT2440; Pseudomonas fluorescens Pf0-1; Pseudomonas aeruginosa PAO1; Pseudomonas; Pseudomonas fluorescens; Pseudomonas putida. 36 samples. Type: Expression profiling by genome tiling array.
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