Jeffrey E. Barrick Department of Molecular Biosciences The University of Texas at Austin Biography Publications Institution JoVE Articles Jeffrey E. Barrick has not added a biography. If you are Jeffrey E. Barrick and would like to personalize this page please email our Author Liaison for assistance. Publications The Pathfinder Plasmid Toolkit for Genetically Engineering Newly Isolated Bacteria Enables the Study of Drosophila-colonizing Orbaceae ISME Communications. May, 2023 | Pubmed ID: 37225918 Identifying Widespread and Recurrent Variants of Genetic Parts to Improve Annotation of Engineered DNA Sequences BioRxiv : the Preprint Server for Biology. Apr, 2023 | Pubmed ID: 37090600 The Pathfinder Plasmid Toolkit for Genetically Engineering Newly Isolated Bacteria Enables the Study of -colonizing BioRxiv : the Preprint Server for Biology. Feb, 2023 | Pubmed ID: 36824770 Electron Tomography and Machine Learning for Understanding the Highly Ordered Structure of Leafhopper Brochosomes Biomacromolecules. Jan, 2023 | Pubmed ID: 36516996 Honey Bee Functional Genomics Using Symbiont-mediated RNAi Nature Protocols. Mar, 2023 | Pubmed ID: 36460809 Gut Microbe Lactiplantibacillus Plantarum Undergoes Different Evolutionary Trajectories Between Insects and Mammals BMC Biology. Dec, 2022 | Pubmed ID: 36575413 The Genomic Basis of Evolutionary Novelties in a Leafhopper Molecular Biology and Evolution. Sep, 2022 | Pubmed ID: 36026509 Engineering Insects from the Endosymbiont Out Trends in Microbiology. Jan, 2022 | Pubmed ID: 34103228 OSTIR: Open Source Translation Initiation Rate Prediction Journal of Open Source Software. 2021 | Pubmed ID: 36177308 High-throughput Characterization of Mutations in Genes That Drive Clonal Evolution Using Multiplex Adaptome Capture Sequencing Cell Systems. Dec, 2021 | Pubmed ID: 34536379 Coevolutionary Phage Training Leads to Greater Bacterial Suppression and Delays the Evolution of Phage Resistance Proceedings of the National Academy of Sciences of the United States of America. Jun, 2021 | Pubmed ID: 34083444 PLannotate: Engineered Plasmid Annotation Nucleic Acids Research. Jul, 2021 | Pubmed ID: 34019636 Rates of Gene Conversions Between Escherichia Coli Ribosomal Operons G3 (Bethesda, Md.). Feb, 2021 | Pubmed ID: 33585862 Insertion-sequence-mediated Mutations Both Promote and Constrain Evolvability During a Long-term Experiment with Bacteria Nature Communications. Feb, 2021 | Pubmed ID: 33579917 Global Transcriptional Response of to Formaldehyde Stress Expands the Role of EfgA and Is Distinct from Antibiotic Translational Inhibition Microorganisms. Feb, 2021 | Pubmed ID: 33578755 Genomic Evolution of Antibiotic Resistance is Contingent on Genetic Background Following a Long-term Experiment with Proceedings of the National Academy of Sciences of the United States of America. Feb, 2021 | Pubmed ID: 33441451 Engineering a Culturable Strain for Aphid Paratransgenesis Applied and Environmental Microbiology. Mar, 2021 | Pubmed ID: 33277267 Experimental Evolution of Leads to Loss of Motility, N (σ54) Deletion and Genome Reduction Frontiers in Microbiology. 2020 | Pubmed ID: 33240235 Rapid and Assured Genetic Engineering Methods Applied to Acinetobacter Baylyi ADP1 Genome Streamlining Nucleic Acids Research. May, 2020 | Pubmed ID: 32232367 Engineered Symbionts Activate Honey Bee Immunity and Limit Pathogens Science (New York, N.Y.). Jan, 2020 | Pubmed ID: 32001655 Evolution of Satellite Plasmids Can Prolong the Maintenance of Newly Acquired Accessory Genes in Bacteria Nature Communications. Dec, 2019 | Pubmed ID: 31863068 Bioassay for Determining the Concentrations of Caffeine and Individual Methylxanthines in Complex Samples Applied and Environmental Microbiology. Dec, 2019 | Pubmed ID: 31540989 Synthetic Genome Defenses Against Selfish DNA Elements Stabilize Engineered Bacteria Against Evolutionary Failure ACS Synthetic Biology. Mar, 2019 | Pubmed ID: 30703321 Directed Evolution of Escherichia Coli with Lower-than-natural Plasmid Mutation Rates Nucleic Acids Research. Sep, 2018 | Pubmed ID: 30137492 Bacterial Production of Gellan Gum As a Do-It-Yourself Alternative to Agar Journal of Microbiology & Biology Education. 2018 | Pubmed ID: 29983852 Innovation in an E. Coli Evolution Experiment is Contingent on Maintaining Adaptive Potential Until Competition Subsides PLoS Genetics. Apr, 2018 | Pubmed ID: 29649242 Genetic Engineering of Bee Gut Microbiome Bacteria with a Toolkit for Modular Assembly of Broad-Host-Range Plasmids ACS Synthetic Biology. May, 2018 | Pubmed ID: 29608282 Arresting Evolution Trends in Genetics : TIG. Dec, 2017 | Pubmed ID: 29029851 Reduced Mutation Rate and Increased Transformability of Transposon-Free Acinetobacter Baylyi ADP1-ISx Applied and Environmental Microbiology. Sep, 2017 | Pubmed ID: 28667117 The E. Coli Molecular Phenotype Under Different Growth Conditions Scientific Reports. Apr, 2017 | Pubmed ID: 28417974 Large-scale Analysis of Post-translational Modifications in E. Coli Under Glucose-limiting Conditions BMC Genomics. Apr, 2017 | Pubmed ID: 28412930 Specificity of Genome Evolution in Experimental Populations of Evolved at Different Temperatures Proceedings of the National Academy of Sciences of the United States of America. Mar, 2017 | Pubmed ID: 28202733 Rapid and Inexpensive Evaluation of Nonstandard Amino Acid Incorporation in Escherichia Coli ACS Synthetic Biology. Jan, 2017 | Pubmed ID: 27648665 Emergence of a Competence-Reducing Filamentous Phage from the Genome of Acinetobacter Baylyi ADP1 Journal of Bacteriology. Dec, 2016 | Pubmed ID: 27645387 Tempo and Mode of Genome Evolution in a 50,000-generation Experiment Nature. Aug, 2016 | Pubmed ID: 27479321 Expanded Genetic Codes Create New Mutational Routes to Rifampicin Resistance in Escherichia Coli Molecular Biology and Evolution. Aug, 2016 | Pubmed ID: 27189550 Fine-tuning Citrate Synthase Flux Potentiates and Refines Metabolic Innovation in the Lenski Evolution Experiment ELife. Oct, 2015 | Pubmed ID: 26465114 Controlled Measurement and Comparative Analysis of Cellular Components in E. Coli Reveals Broad Regulatory Changes in Response to Glucose Starvation PLoS Computational Biology. Aug, 2015 | Pubmed ID: 26275208 Synonymous Genetic Variation in Natural Isolates of Escherichia Coli Does Not Predict Where Synonymous Substitutions Occur in a Long-Term Experiment Molecular Biology and Evolution. Nov, 2015 | Pubmed ID: 26199375 The Molecular and Genetic Basis of Repeatable Coevolution Between Escherichia Coli and Bacteriophage T3 in a Laboratory Microcosm PloS One. 2015 | Pubmed ID: 26114300 Predicting the Genetic Stability of Engineered DNA Sequences with the EFM Calculator ACS Synthetic Biology. Aug, 2015 | Pubmed ID: 26096262 Draft Genome Sequence of the Bacterium Pseudomonas Putida CBB5, Which Can Utilize Caffeine As a Sole Carbon and Nitrogen Source Genome Announcements. Jun, 2015 | Pubmed ID: 26067973 Adaptation, Clonal Interference, and Frequency-Dependent Interactions in a Long-Term Evolution Experiment with Escherichia Coli Genetics. Jun, 2015 | Pubmed ID: 25911659 Rapid Evolution of Silver Nanoparticle Resistance in Escherichia Coli Frontiers in Genetics. 2015 | Pubmed ID: 25741363 Genome Instability Mediates the Loss of Key Traits by Acinetobacter Baylyi ADP1 During Laboratory Evolution Journal of Bacteriology. Mar, 2015 | Pubmed ID: 25512307 Detecting Rare Structural Variation in Evolving Microbial Populations from New Sequence Junctions Using Breseq Frontiers in Genetics. 2014 | Pubmed ID: 25653667 The Case for Decoupling Assembly and Submission Standards to Maintain a More Flexible Registry of Biological Parts Journal of Biological Engineering. 2014 | Pubmed ID: 25525459 Predicting Growth Conditions from Internal Metabolic Fluxes in an In-silico Model of E. Coli PloS One. 2014 | Pubmed ID: 25502413 Identifying Structural Variation in Haploid Microbial Genomes from Short-read Resequencing Data Using Breseq BMC Genomics. Nov, 2014 | Pubmed ID: 25432719 Large Chromosomal Rearrangements During a Long-term Evolution Experiment with Escherichia Coli MBio. Sep, 2014 | Pubmed ID: 25205090 Identification of Mutations in Laboratory-evolved Microbes from Next-generation Sequencing Data Using Breseq Methods in Molecular Biology (Clifton, N.J.). 2014 | Pubmed ID: 24838886 Engineering Reduced Evolutionary Potential for Synthetic Biology Molecular BioSystems. Jul, 2014 | Pubmed ID: 24556867 Bacteriophages Use an Expanded Genetic Code on Evolutionary Paths to Higher Fitness Nature Chemical Biology. Mar, 2014 | Pubmed ID: 24487692 Recursive Genomewide Recombination and Sequencing Reveals a Key Refinement Step in the Evolution of a Metabolic Innovation in Escherichia Coli Proceedings of the National Academy of Sciences of the United States of America. Feb, 2014 | Pubmed ID: 24379390 Computational Tests of a Thermal Cycling Strategy to Isolate More Complex Functional Nucleic Acid Motifs from Random Sequence Pools by in Vitro Selection Artificial Life 13 : Proceedings of the Thirteenth International Conference on the Simulation and Synthesis of Living Systems. International Conference on the Simulation and Synthesis of Living Systems (13th : 2012 : East Lansing, Mich.). 2013 | Pubmed ID: 36129423 Caffeine Junkie: an Unprecedented Glutathione S-transferase-dependent Oxygenase Required for Caffeine Degradation by Pseudomonas Putida CBB5 Journal of Bacteriology. Sep, 2013 | Pubmed ID: 23813729 Decaffeination and Measurement of Caffeine Content by Addicted Escherichia Coli with a Refactored N-demethylation Operon from Pseudomonas Putida CBB5 ACS Synthetic Biology. Jun, 2013 | Pubmed ID: 23654268 Physical Model of the Immune Response of Bacteria Against Bacteriophage Through the Adaptive CRISPR-Cas Immune System Physical Biology. Apr, 2013 | Pubmed ID: 23492852 Mutation Rate Dynamics in a Bacterial Population Reflect Tension Between Adaptation and Genetic Load Proceedings of the National Academy of Sciences of the United States of America. Jan, 2013 | Pubmed ID: 23248287 Draft Genome Sequences of Two Campylobacter Jejuni Clinical Isolates, NW and D2600 Journal of Bacteriology. Oct, 2012 | Pubmed ID: 23012285 Nanostructured Hybrid Transparent Conductive Films with Antibacterial Properties ACS Nano. Jun, 2012 | Pubmed ID: 22519712 Stock Culture Heterogeneity Rather Than New Mutational Variation Complicates Short-term Cell Physiology Studies of Escherichia Coli K-12 MG1655 in Continuous Culture Microbiology (Reading, England). Sep, 2011 | Pubmed ID: 21700661 Standing Genetic Variation in Contingency Loci Drives the Rapid Adaptation of Campylobacter Jejuni to a Novel Host PloS One. Jan, 2011 | Pubmed ID: 21283682 Transferts quotidiens, archivage des populations et mesure de la valeur adaptative dans l’expérience d’évolution à long terme avec Escherichia coli Jeffrey E. Barrick1,2, Zachary D. Blount2,3, Devin M. Lake2,4, Jack H. Dwenger1, Jesus E. Chavarria-Palma1, Minako Izutsu2,3, Michael J. Wiser2,5 1Department of Molecular Biosciences, The University of Texas at Austin, 2BEACON Center for the Study of Evolution in Action, Michigan State University, 3Department of Microbiology and Molecular Genetics, Michigan State University, 4Department of Integrative Biology, Michigan State University, 5Biological Sciences Program, Michigan State University JoVE 65342 Génétique
Transferts quotidiens, archivage des populations et mesure de la valeur adaptative dans l’expérience d’évolution à long terme avec Escherichia coli Jeffrey E. Barrick1,2, Zachary D. Blount2,3, Devin M. Lake2,4, Jack H. Dwenger1, Jesus E. Chavarria-Palma1, Minako Izutsu2,3, Michael J. Wiser2,5 1Department of Molecular Biosciences, The University of Texas at Austin, 2BEACON Center for the Study of Evolution in Action, Michigan State University, 3Department of Microbiology and Molecular Genetics, Michigan State University, 4Department of Integrative Biology, Michigan State University, 5Biological Sciences Program, Michigan State University JoVE 65342 Génétique