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Deciphering polymorphism in 61,157 Escherichia coli genomes via epistatic sequence landscapes.
- Published in:
- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-31643-3
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- Article
Local and Global Protein Interactions Contribute to Residue Entrenchment in Beta-Lactamase TEM-1.
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- Antibiotics (2079-6382), 2022, v. 11, n. 5, p. 652, doi. 10.3390/antibiotics11050652
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- Article
The interplay between anticancer challenges and the microbial communities from the gut.
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- European Journal of Clinical Microbiology & Infectious Diseases, 2022, v. 41, n. 5, p. 691, doi. 10.1007/s10096-022-04435-2
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- Article
Selection for Chaperone-Like Mediated Genetic Robustness at Low Mutation Rate: Impact of Drift, Epistasis and Complexity.
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- Genetics, 2009, v. 182, n. 2, p. 555, doi. 10.1534/genetics.108.099366
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- Article
The Evolution of Epistasis and Its Links With Genetic Robustness, Complexity and Drift in a Phenotypic Model of Adaptation.
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- Genetics, 2009, v. 182, n. 1, p. 277, doi. 10.1534/genetics.108.099127
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- Article
Intermediate Mutation Frequencies Favor Evolution of Multidrug Resistance in Escherichia coli.
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- Genetics, 2005, v. 171, n. 2, p. 825, doi. 10.1534/genetics.105.045526
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- Article
Mutators, population size, adaptive landscape and the adaptation of asexual populations of bacteria.
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- Genetics, 1999, v. 152, n. 2, p. 485, doi. 10.1093/genetics/152.2.485
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- Article
Primary and promiscuous functions coexist during evolutionary innovation through whole protein domain acquisitions.
- Published in:
- eLife, 2021, p. 1, doi. 10.7554/eLife.58061
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- Article
A Microbiota-Dependent Response to Anticancer Treatment in an In Vitro Human Microbiota Model: A Pilot Study With Hydroxycarbamide and Daunorubicin.
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- Frontiers in Cellular & Infection Microbiology, 2022, v. 12, p. 1, doi. 10.3389/fcimb.2022.886447
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- Article
How Fitch-Margoliash Algorithm can Benefit from Multi Dimensional Scaling.
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- Evolutionary Bioinformatics, 2011, n. 7, p. 61, doi. 10.4137/EBO.S7048
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- Article
L'impact des mutations neutres sur l'évolvabilité et l'évolution des génomes.
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- Médecine Sciences, 2022, v. 38, n. 10, p. 777, doi. 10.1051/medsci/2022122
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- Article
Properties of selected mutations and genotypic landscapes under Fisher's geometric model.
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- Evolution, 2014, v. 68, n. 12, p. 3537, doi. 10.1111/evo.12545
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- Article
FROM METABOLISM TO POLYMORPHISM IN BACTERIAL POPULATIONS: A THEORETICAL STUDY.
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- Evolution, 2001, v. 55, n. 11, p. 2181, doi. 10.1554/0014-3820(2001)055[2181:FMTPIB]2.0.CO;2
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- Article
Long‐term evolution of the natural isolate of Escherichia coli 536 in the mouse gut colonized after maternal transmission reveals convergence in the constitutive expression of the lactose operon.
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- Molecular Ecology, 2019, v. 28, n. 19, p. 4470, doi. 10.1111/mec.15232
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- Article
Using long-term experimental evolution to uncover the patterns and determinants of molecular evolution of an Escherichia coli natural isolate in the streptomycin-treated mouse gut.
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- Molecular Ecology, 2017, v. 26, n. 7, p. 1802, doi. 10.1111/mec.13851
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- Article
Deep mutational scanning reveals the molecular determinants of RNA polymerase-mediated adaptation and tradeoffs.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-41882-7
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- Article
The Conserved nhaAR Operon Is Drastically Divergent between B2 and Non-B2 Escherichia coli and Is Involved in Extra-Intestinal Virulence.
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- PLoS ONE, 2014, v. 9, n. 9, p. 1, doi. 10.1371/journal.pone.0108738
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- Article
Elucidating the molecular architecture of adaptation via evolve and resequence experiments.
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- 2015
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- Publication type:
- journal article
The rule of declining adaptability in microbial evolution experiments.
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- Frontiers in Genetics, 2015, v. 6, p. 1, doi. 10.3389/fgene.2015.00099
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- Article
Mutation bias and GC content shape antimutator invasions.
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- Nature Communications, 2019, v. 10, n. 1, p. N.PAG, doi. 10.1038/s41467-019-11217-6
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- Article
Links between Transcription, Environmental Adaptation and Gene Variability in Escherichia coli: Correlations between Gene Expression and Gene Variability Reflect Growth Efficiencies.
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- Molecular Biology & Evolution, 2016, v. 33, n. 10, p. 2515, doi. 10.1093/molbev/msw105
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- Article
Emergence of Antimicrobial-Resistant Escherichia coli of Animal Origin Spreading in Humans.
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- Molecular Biology & Evolution, 2016, v. 33, n. 4, p. 898, doi. 10.1093/molbev/msv280
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- Article
First-Step Mutations during Adaptation Restore the Expression of Hundreds of Genes.
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- Molecular Biology & Evolution, 2016, v. 33, n. 1, p. 25, doi. 10.1093/molbev/msv228
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- Article
High Recombinant Frequency in Extraintestinal Pathogenic Escherichia coli Strains.
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- Molecular Biology & Evolution, 2015, v. 32, n. 7, p. 1708, doi. 10.1093/molbev/msv072
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- Article
Gut microbiota composition alterations are associated with the onset of diabetes in kidney transplant recipients.
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- PLoS ONE, 2020, v. 15, n. 1, p. 1, doi. 10.1371/journal.pone.0227373
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- Article
CRISPR/Cas9 recombineering‐mediated deep mutational scanning of essential genes in Escherichia coli.
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- Molecular Systems Biology, 2020, v. 16, n. 3, p. 1, doi. 10.15252/msb.20199265
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- Article
Evidence for a human-specific Escherichia coli clone.
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- Environmental Microbiology, 2008, v. 10, n. 4, p. 1000, doi. 10.1111/j.1462-2920.2007.01520.x
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- Article
Role of Intraspecies Recombination in the Spread of Pathogenicity Islands within the Escherichia coli Species.
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- PLoS Pathogens, 2009, v. 5, n. 1, p. 1, doi. 10.1371/journal.ppat.1000257
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- Article
Success of prophylactic antiviral therapy for SARS-CoV-2: Predicted critical efficacies and impact of different drug-specific mechanisms of action.
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- PLoS Computational Biology, 2021, v. 17, n. 3, p. 1, doi. 10.1371/journal.pcbi.1008752
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- Article
Extraintestinal Virulence Is a Coincidental By-Product of Commensalism in B2 Phylogenetic Group Escherichia coli Strains.
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- Molecular Biology & Evolution, 2007, v. 24, n. 11, p. 2373, doi. 10.1093/molbev/msm172
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- Article
Selection Versus Demography: A Multilocus Investigation of the Domestication Process in Maize.
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- Molecular Biology & Evolution, 2004, v. 21, n. 7, p. 1214, doi. 10.1093/molbev/msh102
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- Article
Modeling the bacterial dynamics in the gut microbiota following an antibiotic‐induced perturbation.
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- CPT: Pharmacometrics & Systems Pharmacology, 2022, v. 11, n. 7, p. 906, doi. 10.1002/psp4.12806
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- Article
The population genetics of commensal Escherichia coli.
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- Nature Reviews Microbiology, 2010, v. 8, n. 3, p. 207, doi. 10.1038/nrmicro2298
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- Article
Understanding the Evolutionary Fate of Finite Populations: The Dynamics of Mutational Effects.
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- PLoS Biology, 2007, v. 5, n. 4, p. 0922, doi. 10.1371/journal.pbio.0050094
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- Article
Evolution of Mutational Robustness in an RNA Virus.
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- PLoS Biology, 2005, v. 3, n. 11, p. 1939, doi. 10.1371/journal.pbio.0030381
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- Article
Accumulation of Deleterious Mutations During Bacterial Range Expansions.
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- Genetics, 2017, v. 207, n. 2, p. 669, doi. 10.1534/genetics.117.300144
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- Article
Recent insights into the genotype–phenotype relationship from massively parallel genetic assays.
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- Evolutionary Applications, 2019, v. 12, n. 9, p. 1721, doi. 10.1111/eva.12846
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- Article
Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths.
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- PLoS Genetics, 2009, v. 5, n. 1, p. 1, doi. 10.1371/journal.pgen.1000344
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- Article
Selection Acts on DNA Secondary Structures to Decrease Transcriptional Mutagenesis.
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- PLoS Genetics, 2006, v. 3, n. 5, p. 1697, doi. 10.1371/journal.pgen.0020176
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- Article
A case of adaptation through a mutation in a tandem duplication during experimental evolution in Escherichia coli.
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- BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-441
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- Article
Electrophoretic mobility confirms reassortment bias among geographic isolates of segmented RNA phages.
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- BMC Evolutionary Biology, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1471-2148-13-206
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- Article
Evolution of Escherichia coli rifampicin resistance in an antibiotic-free environment during thermal stress.
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- BMC Evolutionary Biology, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1471-2148-13-50
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- Article
Genomic characterization of 16S rRNA methyltransferase-producing Escherichia coli isolates from the Parisian area, France.
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- 2020
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- Publication type:
- journal article
Insertion-sequence-mediated mutations both promote and constrain evolvability during a long-term experiment with bacteria.
- Published in:
- Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-21210-7
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- Article