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153 results for “Bacteriophages”
Data from: Ecological speciation of bacteriophage lambda in allopatry and sympatry
Understanding the conditions that allow speciation to occur is difficult because most research has focused on either long-lived organisms or asexual microorganisms. We propagated bacteriophage λ, a virus with rapid generations and frequent recombination, on two Escherichia coli host genotypes that expressed either the LamB or OmpF receptor. When supplied with either single host (allopatry), λ improved its binding to the available receptor while losing its ability to use the alternative. When evolving on both hosts together (sympatry), the viruses split into two lineages with divergent receptor preferences. Although the level of divergence varied among replicates, some lineages evolved reproductive isolation via genetic incompatibilities. This outcome indicates that, under suitable conditions, allopatric and sympatric speciation can occur with similar ease.
Resistance of Dickeya solani strain IPO 2222 to lytic bacteriophage ΦD5 results in fitness tradeoffs for the bacterium during infection – protein mass fingerprints dataset
<p>Protein mass fingerprints (D. solani Tn5 mutants) dataset supporting the manuscript entitled: <strong>Resistance of </strong><em><strong>Dickeya solani</strong></em><strong> strain IPO 2222 to lytic bacteriophage </strong><strong>Φ</strong><strong>D5 results in fitness tradeoffs for the bacterium during infection.</strong></p>
Lytic bacteriophages of the Roseobacter group - Supplementary information
<p>These are supplementary files belonging to my dissertation with the title "Lytic bacteriophages of the Roseobacter group", which will be published via the BIS Library and Information System of the Carl-von-Ossietzky Universität Oldenburg.</p>
Atomic-Resolution Structure of the Protein Encoded by Gene V of fd Bacteriophage in Complex with Viral ssDNA Determined by Magic-Angle Spinning Solid-State NMR
<p>F-specific filamentous phages, elongated particles with circular single-stranded DNA encased in a symmetric protein capsid, undergo an intermediate step, where thousands of homodimers of a non-structural protein, gVp, bind to newly synthesized strands of DNA, preventing further DNA replication and preparing the circular genome in an elongated conformation for assembly of a new virion structure at the membrane. While the structure of the free homodimer is known, the ssDNA-bound conformation has yet to be determined. We report an atomic-resolution structure of the gVp monomer bound to ssDNA of fd phage in the nucleoprotein complex elucidated via Magic-Angle Spinning solid-state NMR. The model presents significant conformational changes with respect to the free form. These modifications facilitate the binding mechanism and possibly promote cooperative binding in the assembly of the gVp-ssDNA complex.</p> <p>The raw NMR data used for structure determination are uploaded as original Bruker directories from topspin version 3.5. Processing details are given in the supporting Information of the manuscript. PDB ID is 8ACZ. BMRB accession number is 51391.</p>
Bacteriophage Therapy for Difficult-to-treat Infections: the Implementation of a Multidisciplinary Phage Task Force
ClinicalTrials.gov study NCT06368388. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Prephage - Faecal Bacteriophage Transfer for Enhanced Gastrointestinal Tract Maturation in Preterm Infants - Donor Study
ClinicalTrials.gov study NCT05272566. IPD Sharing: UNDECIDED. Countries: 1. Publications: 1.
A Phase 1b/2 Trial of the Safety and Microbiological Activity of Bacteriophage Therapy in Cystic Fibrosis Subjects Colonized With Pseudomonas Aeruginosa
ClinicalTrials.gov study NCT05453578. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Bacteriophage Therapy in Spinal Cord Injury Patients With Bacteriuria
ClinicalTrials.gov study NCT06559618. IPD Sharing: NO. Countries: 1. Publications: 4.
Bacteriophages for Adults With Cystic Fibrosis and Chronic Achromobacter Lung Infection
ClinicalTrials.gov study NCT07275905. IPD Sharing: NO. Countries: 1. Publications: 8.
Bacteriophages for Treating Urinary Tract Infections in Patients Undergoing Transurethral Resection of the Prostate
ClinicalTrials.gov study NCT03140085. IPD Sharing: Not stated. Countries: 1. Publications: 2.
Bacteriophage Therapy TP-102 in Diabetic Foot Ulcers
ClinicalTrials.gov study NCT04803708. IPD Sharing: NO. Countries: 1. Publications: 1.
Bacteriophage Therapy for Mycobacterium Abscessus Pulmonary Infection
ClinicalTrials.gov study NCT07228702. IPD Sharing: UNDECIDED. Countries: 1. Publications: 3.
PrePhage - Faecal Bacteriophage Transfer for Enhanced Gastrointestinal Tract Maturation in Preterm Infants
ClinicalTrials.gov study NCT05272579. IPD Sharing: YES. Countries: 1. Publications: 1.
Sublethal effects of photoactive engineered nanomaterials on filamentous bacteriophage infection and <em>E. coli</em> gene expression in freshwater
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Data from: Ecological speciation of bacteriophage lambda in allopatry and sympatry
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Data from: Hypothesis: a plastically-produced phenotype predicts host specialization and can precede subsequent mutations in bacteriophage
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Data from: The impact of bacteriophages on phyllosphere bacterial abundance and composition
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Interaction of the maturation protein of the bacteriophage MS2 and the F pilus of Escherichia coli
<p>Five 20 ns independent trajectories of a model of the F pilus comprising a trimer of subunits binding to the maturation protein.</p>
Dataset for: "BACPHLIP: Predicting bacteriophage lifestyle from conserved protein domains"
<p>This is the dataset used in the manuscript titled "BACPHLIP: Predicting bacteriophage lifestyle from conserved protein domains". The dataset is necessary to run the code that can be found at <a href="https://github.com/adamhockenberry/dca-weighting">https://github.com/adamhockenberry/bacphlip-model-dev</a> and outside of the context of the code this data will likely not be super well-annotated or helpful. The code within that repository, however, should provide sufficient information about the structure and usage of this dataset. </p>
Data from: A mathematical model of marine bacteriophage evolution
To explore how particularities of a cell-virus system affects viral evolution, we formulate a mathematical model of marine bacteriophage evolution. The intrinsic simplicity of real-life phage-bacteria systems allows to have a reasonably simple model. The model constructed in this paper is based upon Beretta-Kuang model of bacteria-phage interaction. Compared to the Beretta-Kuang model, the model assumes the existence of a multitude of viral variants which correspond to continuously distributed phenotypes. It is noteworthy that this model does not include any explicit law or mechanism of evolution; instead it is assumed, in agreement to the principles of Darwinian evolution, that evolution in this system can occur as a result of random mutations and natural selection. Simulations with a leaner fitness landscape (which is chosen for the convenience of demonstration only) show that a pulse-type traveling wave moving towards increasing Darwinian fitness appears in the phenotype space. This implies that the overall fitness of a viral quasispecies steadily increasing in time. That is, the simulations demonstrate that for an uneven fitness landscape random mutations combined with a mechanism of natural selection lead to the Darwinian evolution. It is noteworthy that in this system the speed of propagation of this wave (and hence the rate of evolution) is not constant but varies, depending on the current viral fitness and the abundance of susceptible bacteria.
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International Brain Laboratory public data
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OpenNeuro
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