Experimental evolution and the dynamics of adaptation and genome evolution in microbial populations

Experimental Evolution of Escherichia coli Harboring an Ancient Translation Protein

(2017) Betül Kacar et al.   JOURNAL OF MOLECULAR EVOLUTION

Metabolic modelling in a dynamic evolutionary framework predicts adaptive diversification of bacteria in a long-term evolution experiment

(2016) Tobias Großkopf et al.   BMC EVOLUTIONARY BIOLOGY

Evolution of Mutation Rates in Rapidly Adapting Asexual Populations

(2016) B. H. Good et al.   GENETICS

Challenges in microbial ecology: building predictive understanding of community function and dynamics

(2016) Stefanie Widder et al.   ISME Journal

Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations

(2016) Matthew L Bendall et al.   ISME Journal

Tempo and mode of genome evolution in a 50,000-generation experiment

(2016) Olivier Tenaillon et al.   NATURE

Spatiotemporal microbial evolution on antibiotic landscapes

(2016) M. Baym et al.   SCIENCE

Ecological speciation of bacteriophage lambda in allopatry and sympatry

(2016) J. R. Meyer et al.   SCIENCE

Long-term dynamics of adaptive evolution in a globally important phytoplankton species to ocean acidification

(2016) L. Schlu ter et al.   Science Advances

Adaptation, Clonal Interference, and Frequency-Dependent Interactions in a Long-Term Evolution Experiment with Escherichia coli

(2015) Rohan Maddamsetti et al.   GENETICS

Experimental evolution gone wild

(2015) M. Scheinin et al.   Journal of the Royal Society Interface

Quantitative evolutionary dynamics using high-resolution lineage tracking

(2015) Sasha F. Levy et al.   NATURE

Replaying Evolution to Test the Cause of Extinction of One Ecotype in an Experimentally Evolved Population

(2015) Caroline B. Turner et al.   PLoS One

Recombinant transfer in the basic genome ofEscherichia coli

(2015) Purushottam D. Dixit et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Irreversibly increased nitrogen fixation in Trichodesmium experimentally adapted to elevated carbon dioxide

(2015) David A. Hutchins et al.   Nature Communications

From Here to Eternity—The Theory and Practice of a Really Long Experiment

(2015) Jeremy W. Fox et al.   PLOS BIOLOGY

Fine-tuning citrate synthase flux potentiates and refines metabolic innovation in the Lenski evolution experiment

(2015) Erik M Quandt et al.   eLife

Adaptation, Clonal Interference, and Frequency-Dependent Interactions in a Long-Term Evolution Experiment with Escherichia coli

(2015) Rohan Maddamsetti et al.   GENETICS

Global epistasis makes adaptation predictable despite sequence-level stochasticity

(2014) S. Kryazhimskiy et al.   SCIENCE

Large Chromosomal Rearrangements during a Long-Term Evolution Experiment with Escherichia coli

(2014) C. Raeside et al.   mBio

Real-time microbial adaptive diversification in soil

(2013) Pedro Gómez et al.   ECOLOGY LETTERS

Evolutionary rescue from extinction is contingent on a lower rate of environmental change

(2013) Haley A. Lindsey et al.   NATURE

Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations

(2013) Gregory I. Lang et al.   NATURE

Genome dynamics during experimental evolution

(2013) Jeffrey E. Barrick et al.   NATURE REVIEWS GENETICS

Recursive genomewide recombination and sequencing reveals a key refinement step in the evolution of a metabolic innovation inEscherichia coli

(2013) Erik M. Quandt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Availability of public goods shapes the evolution of competing metabolic strategies

(2013) H. Bachmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Long-Term Dynamics of Adaptation in Asexual Populations

(2013) M. J. Wiser et al.   SCIENCE

Experimental coevolution of species interactions

(2013) Michael A. Brockhurst et al.   TRENDS IN ECOLOGY & EVOLUTION

Convergent Evolution of Hyperswarming Leads to Impaired Biofilm Formation in Pathogenic Bacteria

(2013) Dave van Ditmarsch et al.   Cell Reports

Evolutionary rescue of a green alga kept in the dark

(2012) G. Bell   Biology Letters

Genomic analysis of a key innovation in an experimental Escherichia coli population

(2012) Zachary D. Blount et al.   NATURE

Ecological and evolutionary dynamics of coexisting lineages during a long-term experiment with Escherichia coli

(2012) M. Le Gac et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Experimental evolution of multicellularity

(2012) W. C. Ratcliff et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mutation rate dynamics in a bacterial population reflect tension between adaptation and genetic load

(2012) S. Wielgoss et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tangled bank of experimentally evolved Burkholderia biofilms reflects selection during chronic infections

(2012) C. C. Traverse et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

Population Genomics of Early Events in the Ecological Differentiation of Bacteria

(2012) B. J. Shapiro et al.   SCIENCE

Experimental evolution

(2012) Tadeusz J. Kawecki et al.   TRENDS IN ECOLOGY & EVOLUTION

Experimental Evolution of Legionella pneumophila in Mouse Macrophages Leads to Strains with Altered Determinants of Environmental Survival

(2012) Alexander W. Ensminger et al.   PLoS Pathogens

EVOLUTIONARY PERSPECTIVES IN A MUTUALISM OF SEPIOLID SQUID AND BIOLUMINESCENT BACTERIA: COMBINED USAGE OF MICROBIAL EXPERIMENTAL EVOLUTION AND TEMPORAL POPULATION GENETICS

(2011) W. Soto et al.   EVOLUTION

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

Negative Epistasis Between Beneficial Mutations in an Evolving Bacterial Population

(2011) A. I. Khan et al.   SCIENCE

High Relatedness Is Necessary and Sufficient to Maintain Multicellularity in Dictyostelium

(2011) J. J. Kuzdzal-Fick et al.   SCIENCE

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

(2011) R. J. Woods et al.   SCIENCE

Bacteria-Phage Antagonistic Coevolution in Soil

(2011) P. Gomez et al.   SCIENCE

Shifts in the host range of a promiscuous plasmid through parallel evolution of its replication initiation protein

(2010) Masahiro Sota et al.   ISME Journal

AMD biofilms: using model communities to study microbial evolution and ecological complexity in nature

(2010) Vincent J Denef et al.   ISME Journal

Ecological succession in long-term experimentally evolved biofilms produces synergistic communities

(2010) Steffen R Poltak et al.   ISME Journal

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

(2010) Molly K. Burke et al.   NATURE

Antagonistic coevolution accelerates molecular evolution

(2010) Steve Paterson et al.   NATURE

Rapid evolution of stability and productivity at the origin of a microbial mutualism

(2010) K. L. Hillesland et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Beagle in a bottle

(2009) Angus Buckling et al.   NATURE

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

(2009) Jeffrey E. Barrick et al.   NATURE

Molecular characterization of clonal interference during adaptive evolution in asexual populations of Saccharomyces cerevisiae

(2008) Katy C Kao et al.   NATURE GENETICS

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

Predictive Behavior Within Microbial Genetic Networks

(2008) I. Tagkopoulos et al.   SCIENCE