New insights into bacterial adaptation through in vivo and in silico experimental evolution

The Molecular Diversity of Adaptive Convergence

(2012) O. Tenaillon et al.   SCIENCE

Repeatability and Contingency in the Evolution of a Key Innovation in Phage Lambda

(2012) J. R. Meyer et al.   SCIENCE

Eco-evolutionary dynamics, coding structure and the information threshold

(2011) Folkert K de Boer et al.   BMC EVOLUTIONARY BIOLOGY

Proportionality between variances in gene expression induced by noise and mutation: consequence of evolutionary robustness

(2011) Kunihiko Kaneko   BMC EVOLUTIONARY BIOLOGY

The constancy of global regulation across a species: the concentrations of ppGpp and RpoS are strain-specific in Escherichia coli

(2011) Thomas Ferenci et al.   BMC MICROBIOLOGY

Insertion Sequence-Driven Evolution of Escherichia coli in Chemostats

(2011) Joël Gaffé et al.   JOURNAL OF MOLECULAR EVOLUTION

Microbial laboratory evolution in the era of genome-scale science

(2011) T. M. Conrad et al.   Molecular Systems Biology

Parallel bacterial evolution within multiple patients identifies candidate pathogenicity genes

(2011) Tami D Lieberman et al.   NATURE GENETICS

Evolutionary paths to antibiotic resistance under dynamically sustained drug selection

(2011) Erdal Toprak et al.   NATURE GENETICS

Stress-induced evolution of Escherichia coli points to original concepts in respiratory cofactor selectivity

(2011) C. Auriol et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Experimental evolution of selfish policing in social bacteria

(2011) P. Manhes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolutionary dynamics of bacteria in a human host environment

(2011) L. Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Negative Epistasis Between Beneficial Mutations in an Evolving Bacterial Population

(2011) A. I. Khan et al.   SCIENCE

Second-Order Selection for Evolvability in a Large Escherichia coli Population

(2011) R. J. Woods et al.   SCIENCE

Acceleration of Emergence of Bacterial Antibiotic Resistance in Connected Microenvironments

(2011) Q. Zhang et al.   SCIENCE

Mutation Rate Inferred From Synonymous Substitutions in a Long-Term Evolution Experiment With Escherichia coli

(2011) Sébastien Wielgoss et al.   G3-Genes Genomes Genetics

A Quantitative Test of Hamilton's Rule for the Evolution of Altruism

(2011) Markus Waibel et al.   PLOS BIOLOGY

Adaptive Evolution of Escherichia coli K-12 MG1655 during Growth on a Nonnative Carbon Source, L-1,2-Propanediol

(2010) D.-H. Lee et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Scaling laws in bacterial genomes: A side-effect of selection of mutational robustness?

(2010) G. Beslon et al.   BIOSYSTEMS

Experimental evolution with E. coli in diverse resource environments. I. Fluctuating environments promote divergence of replicate populations

(2010) Tim F Cooper et al.   BMC EVOLUTIONARY BIOLOGY

Divergence Involving Global Regulatory Gene Mutations in an Escherichia coli Population Evolving under Phosphate Limitation

(2010) Lei Wang et al.   Genome Biology and Evolution

Parallel Genetic and Phenotypic Evolution of DNA Superhelicity in Experimental Populations of Escherichia coli

(2010) E. Crozat et al.   MOLECULAR BIOLOGY AND EVOLUTION

Next-generation sequencing as a tool to study microbial evolution

(2010) MICHAEL A. BROCKHURST et al.   MOLECULAR ECOLOGY

Genome-wide analysis of a long-term evolution experiment with Drosophila

(2010) Molly K. Burke et al.   NATURE

How antibiotics kill bacteria: from targets to networks

(2010) Michael A. Kohanski et al.   NATURE REVIEWS MICROBIOLOGY

RNA polymerase mutants found through adaptive evolution reprogram Escherichia coli for optimal growth in minimal media

(2010) T. M. Conrad et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Selective pressures for accurate altruism targeting: evidence from digital evolution for difficult-to-test aspects of inclusive fitness theory

(2010) J. Clune et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Adaptive Evolution of an sRNA That Controls Myxococcus Development

(2010) Y. T. N. Yu et al.   SCIENCE

Experimental Evolution of a Plant Pathogen into a Legume Symbiont

(2010) Marta Marchetti et al.   PLOS BIOLOGY

Specialization Can Drive the Evolution of Modularity

(2010) Carlos Espinosa-Soto et al.   PLoS Computational Biology

Genetic Basis of Growth Adaptation of Escherichia coli after Deletion of pgi, a Major Metabolic Gene

(2010) Pep Charusanti et al.   PLoS Genetics

Molecular and Evolutionary Bases of Within-Patient Genotypic and Phenotypic Diversity in Escherichia coli Extraintestinal Infections

(2010) Maxime Levert et al.   PLoS Pathogens

Replaying the Evolutionary Tape: Biomimetic Reverse Engineering of Gene Networks

(2009) Daniel Marbach et al.   Annals of the New York Academy of Sciences

Sociobiology of the Myxobacteria

(2009) Gregory J. Velicer et al.   Annual Review of Microbiology

Rates and Mechanisms of Resistance Development in Mycobacterium tuberculosis to a Novel Diarylquinoline ATP Synthase Inhibitor

(2009) E. Huitric et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

The role of genome and gene regulatory network canalization in the evolution of multi-trait polymorphisms and sympatric speciation

(2009) Kirsten HWJ ten Tusscher et al.   BMC EVOLUTIONARY BIOLOGY

Evolution of resource cycling in ecosystems and individuals

(2009) Anton Crombach et al.   BMC EVOLUTIONARY BIOLOGY

EXTINCTIONS IN HETEROGENEOUS ENVIRONMENTS AND THE EVOLUTION OF MODULARITY

(2009) Nadav Kashtan et al.   EVOLUTION

THE EFFECT OF ELEVATED MUTATION RATES ON THE EVOLUTION OF COOPERATION AND VIRULENCE OFPSEUDOMONAS AERUGINOSA

(2009) Daniel Racey et al.   EVOLUTION

Adaptive Divergence in Experimental Populations of Pseudomonas fluorescens. IV. Genetic Constraints Guide Evolutionary Trajectories in a Parallel Adaptive Radiation

(2009) M. J. McDonald et al.   GENETICS

The Fitness Cost of Streptomycin Resistance Depends on rpsL Mutation, Carbon Source and RpoS ( S)

(2009) W. Paulander et al.   GENETICS

Mutational paths towards increased fluoroquinolone resistance in Legionella pneumophila

(2009) I. Almahmoud et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Directed Evolution of Ionizing Radiation Resistance in Escherichia coli

(2009) D. R. Harris et al.   JOURNAL OF BACTERIOLOGY

The Beagle in a bottle

(2009) Angus Buckling et al.   NATURE

Experimental evolution of bet hedging

(2009) Hubertus J. E. Beaumont et al.   NATURE

Genome evolution and adaptation in a long-term experiment with Escherichia coli

(2009) Jeffrey E. Barrick et al.   NATURE

Compensatory Evolution of Gene Regulation in Response to Stress by Escherichia coli Lacking RpoS

(2009) Daniel M. Stoebel et al.   PLoS Genetics

Interplay in the Selection of Fluoroquinolone Resistance and Bacterial Fitness

(2009) Linda L. Marcusson et al.   PLoS Pathogens

Bistability, Epigenetics, and Bet-Hedging in Bacteria

(2008) Jan-Willem Veening et al.   Annual Review of Microbiology

The effect of genetic robustness on evolvability in digital organisms

(2008) Santiago F Elena et al.   BMC EVOLUTIONARY BIOLOGY

Robustness promotes evolvability of thermotolerance in an RNA virus

(2008) Robert C McBride et al.   BMC EVOLUTIONARY BIOLOGY

Death and cannibalism in a seasonal environment facilitate bacterial coexistence

(2008) Daniel E. Rozen et al.   ECOLOGY LETTERS

Metabolic Changes Associated With Adaptive Diversification in Escherichia coli

(2008) M. Le Gac et al.   GENETICS

Predicting evolution from genomics: experimental evolution of bacteriophage T7

(2008) J J Bull et al.   HEREDITY

Experimental evolution of plant RNA viruses

(2008) S F Elena et al.   HEREDITY

Impact of Individual Mutations on Increased Fitness in Adaptively Evolved Strains of Escherichia coli

(2008) M. K. Applebee et al.   JOURNAL OF BACTERIOLOGY

Evolution of Penicillin-Binding Protein 2 Concentration and Cell Shape during a Long-Term Experiment withEscherichia coli

(2008) Nadège Philippe et al.   JOURNAL OF BACTERIOLOGY

Novel Transcriptome Patterns Accompany Evolutionary Restoration of Defective Social Development in the Bacterium Myxococcus xanthus

(2008) Supriya V. Kadam et al.   MOLECULAR BIOLOGY AND EVOLUTION

Neutralism and selectionism: a network-based reconciliation

(2008) Andreas Wagner   NATURE REVIEWS GENETICS

Expression Profiles Reveal Parallel Evolution of Epistatic Interactions Involving the CRP Regulon in Escherichia coli

(2008) Tim F. Cooper et al.   PLoS Genetics

Whole-genome mutational biases in bacteria

(2008) P. A. Lind et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli

(2008) Z. D. Blount et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Natural Selection Fails to Optimize Mutation Rates for Long-Term Adaptation on Rugged Fitness Landscapes

(2008) Jeff Clune et al.   PLoS Computational Biology

Evolution of Evolvability in Gene Regulatory Networks

(2008) Anton Crombach et al.   PLoS Computational Biology

The Repertoire and Dynamics of Evolutionary Adaptations to Controlled Nutrient-Limited Environments in Yeast

(2008) David Gresham et al.   PLoS Genetics

Is evolvability evolvable?

(2007) Massimo Pigliucci   NATURE REVIEWS GENETICS