Culture History and Population Heterogeneity as Determinants of Bacterial Adaptation: the Adaptomics of a Single Environmental Transition

Stress, Sublethal Injury, Resuscitation, and Virulence of Bacterial Foodborne Pathogens

(2016) ALISSA M. WESCHE et al.   JOURNAL OF FOOD PROTECTION

The multiplicity of divergence mechanisms in a single evolving population

(2012) Ram P Maharjan et al.   GENOME BIOLOGY

Phenotypic Diversity Caused by Differential RpoS Activity among Environmental Escherichia coli Isolates

(2011) Sarah M. Chiang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Bet hedging or not? A guide to proper classification of microbial survival strategies

(2011) Imke G. de Jong et al.   BIOESSAYS

Multi-parameter flow cytometry and cell sorting reveal extensive physiological heterogeneity in Bacillus cereus batch cultures

(2011) Andrew Want et al.   BIOTECHNOLOGY LETTERS

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

Intercellular Nanotubes Mediate Bacterial Communication

(2011) Gyanendra P. Dubey et al.   CELL

Lateral gene transfer

(2011) Olga Zhaxybayeva et al.   CURRENT BIOLOGY

Phase variation: how to create and coordinate population diversity

(2011) Marjan W van der Woude   CURRENT OPINION IN MICROBIOLOGY

Core and Panmetabolism in Escherichia coli

(2011) G. Vieira et al.   JOURNAL OF BACTERIOLOGY

Insertion Sequence-Driven Evolution of Escherichia coli in Chemostats

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

Close encounters: contact-dependent interactions in bacteria

(2011) Anna Konovalova et al.   MOLECULAR MICROBIOLOGY

Microbial laboratory evolution in the era of genome-scale science

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

A comprehensive genome-scale reconstruction of Escherichia coli metabolism--2011

(2011) J. D. Orth et al.   Molecular Systems Biology

Metabolic trade-offs and the maintenance of the fittest and the flattest

(2011) Robert E. Beardmore et al.   NATURE

Optical sensors for measuring dynamic changes of cytosolic metabolite levels in yeast

(2011) Clara Bermejo et al.   Nature Protocols

Systems-biology approaches for predicting genomic evolution

(2011) Balázs Papp et al.   NATURE REVIEWS GENETICS

Bacterial persistence by RNA endonucleases

(2011) Etienne Maisonneuve et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2011) R. J. Woods et al.   SCIENCE

Global Chromosomal Structural Instability in a Subpopulation of Starving Escherichia coli Cells

(2011) Dongxu Lin et al.   PLoS Genetics

Noise and Robustness in Prokaryotic Regulatory Networks

(2010) Rafael Silva-Rocha et al.   Annual Review of Microbiology

Persister Cells

(2010) Kim Lewis   Annual Review of Microbiology

The RpoS-Mediated General Stress Response inEscherichia coli

(2010) Aurelia Battesti et al.   Annual Review of Microbiology

Increased Mutation Frequency in Redox-Impaired Escherichia coli Due to RelA- and RpoS-Mediated Repression of DNA Repair

(2010) A. Singh et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Multiple genetic switches spontaneously modulating bacterial mutability

(2010) Fang Chen et al.   BMC EVOLUTIONARY BIOLOGY

Gene expression in Pseudomonas aeruginosa swarming motility

(2010) Julien Tremblay et al.   BMC GENOMICS

A new model for SOS-induced mutagenesis: how RecA protein activates DNA polymerase V

(2010) Meghna Patel et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

The Transcription Elongation Factor NusA Is Required for Stress-Induced Mutagenesis in Escherichia coli

(2010) Susan E. Cohen et al.   CURRENT BIOLOGY

Ecological drivers of the evolution of public-goods cooperation in bacteria

(2010) Michael A. Brockhurst et al.   ECOLOGY

An integrative approach to understanding microbial diversity: from intracellular mechanisms to community structure

(2010) Ivana Gudelj et al.   ECOLOGY LETTERS

mutL as a genetic switch of bacterial mutability: turned on or off through repeat copy number changes

(2010) Fang Chen et al.   FEMS MICROBIOLOGY LETTERS

Escherichia coli population heterogeneity: Subpopulation dynamics at super-optimal temperatures

(2010) E. Van Derlinden et al.   FOOD MICROBIOLOGY

Evolution of altruists and cheaters in near-isogenic populations of Escherichia coli

(2010) Denise et al.   Frontiers in Bioscience-Landmark

Duplication Frequency in a Population of Salmonella enterica Rapidly Approaches Steady State With or Without Recombination

(2010) A. B. Reams et al.   GENETICS

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

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

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

(2010) Steffen R Poltak et al.   ISME Journal

RpoS, the Stress Response Sigma Factor, Plays a Dual Role in the Regulation of Escherichia coli's Error-Prone DNA Polymerase IV

(2010) K. A. M. Storvik et al.   JOURNAL OF BACTERIOLOGY

Emergence of Pseudomonas aeruginosa Strains Producing High Levels of Persister Cells in Patients with Cystic Fibrosis

(2010) L. R. Mulcahy et al.   JOURNAL OF BACTERIOLOGY

Evolution of the RpoS Regulon: Origin of RpoS and the Conservation of RpoS-Dependent Regulation in Bacteria

(2010) Sarah M. Chiang et al.   JOURNAL OF MOLECULAR EVOLUTION

Comparison of 61 Sequenced Escherichia coli Genomes

(2010) Oksana Lukjancenko et al.   MICROBIAL ECOLOGY

Indole enhances acid resistance in Escherichia coli

(2010) Hidetada Hirakawa et al.   MICROBIAL PATHOGENESIS

Heterogeneity of Escherichia coli population by respiratory activity and membrane potential of cells during growth and long-term starvation

(2010) Saeid Rezaeinejad et al.   MICROBIOLOGICAL RESEARCH

The σE stress response is required for stress-induced mutation and amplification in Escherichia coli

(2010) Janet L. Gibson et al.   MOLECULAR MICROBIOLOGY

Phase variation controls expression of Salmonella lipopolysaccharide modification genes by a DNA methylation-dependent mechanism

(2010) S. E. Broadbent et al.   MOLECULAR MICROBIOLOGY

Pre-dispositions and epigenetic inheritance in the Escherichia coli lactose operon bistable switch

(2010) Lydia Robert et al.   Molecular Systems Biology

Bacterial charity work leads to population-wide resistance

(2010) Henry H. Lee et al.   NATURE

Mucoidy, Quorum Sensing, Mismatch Repair and Antibiotic Resistance in Pseudomonas aeruginosa from Cystic Fibrosis Chronic Airways Infections

(2010) Sofía Feliziani et al.   PLoS One

Heterogeneous Response to a Quorum-Sensing Signal in the Luminescence of Individual Vibrio fischeri

(2010) Pablo Delfino Pérez et al.   PLoS One

Regulation of phenotypic variability by a threshold-based mechanism underlies bacterial persistence

(2010) Eitan Rotem et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

E. coli, What a Noisy Bug

(2010) S. Tyagi   SCIENCE

Complexity and Diversity

(2010) M. Doebeli et al.   SCIENCE

Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells

(2010) Y. Taniguchi et al.   SCIENCE

Mutational Robustness of Ribosomal Protein Genes

(2010) P. A. Lind et al.   SCIENCE

Evolution of the mutation rate

(2010) Michael Lynch   TRENDS IN GENETICS

Biofilms

(2010) D. Lopez et al.   Cold Spring Harbor Perspectives in Biology

Ciprofloxacin Causes Persister Formation by Inducing the TisB toxin in Escherichia coli

(2010) Tobias Dörr et al.   PLOS BIOLOGY

Frail Hypotheses in Evolutionary Biology

(2010) Jacques Ninio   PLoS Genetics

Optimal Strategy for Competence Differentiation in Bacteria

(2010) C. Scott Wylie 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

Universal platform for quantitative analysis of DNA transposition

(2010) Maria I Pajunen et al.   Mobile DNA

Gene Amplification and Adaptive Evolution in Bacteria

(2009) Dan I. Andersson et al.   Annual Review of Genetics

Interspecies Chemical Communication in Bacterial Development

(2009) Paul D. Straight et al.   Annual Review of Microbiology

Increased Antibiotic Resistance of Escherichia coli in Mature Biofilms

(2009) A. Ito et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Evolution of Diversity in Spatially Structured Escherichia coli Populations

(2009) J. M. Ponciano et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Growth Rate-Dependent Global Effects on Gene Expression in Bacteria

(2009) Stefan Klumpp et al.   CELL

Genetic code ambiguity: an unexpected source of proteome innovation and phenotypic diversity

(2009) Gabriela R Moura et al.   CURRENT OPINION IN MICROBIOLOGY

DinB Upregulation Is the Sole Role of the SOS Response in Stress-Induced Mutagenesis in Escherichia coli

(2009) R. S. Galhardo et al.   GENETICS

Abundant Indispensable Redundancies in Cellular Metabolic Networks

(2009) Zhi Wang et al.   Genome Biology and Evolution

A Novel Insertion Sequence Derepresses Efflux Pump Expression and Preadapts Pseudomonas putida S12 for Extreme Solvent Stress

(2009) X. Sun et al.   JOURNAL OF BACTERIOLOGY

A mechanism of transposon-mediated directed mutation

(2009) Zhongge Zhang et al.   MOLECULAR MICROBIOLOGY

Cannibalism enhances biofilm development inBacillus subtilis

(2009) Daniel López et al.   MOLECULAR MICROBIOLOGY

A chance at survival: gene expression noise and phenotypic diversification strategies

(2009) Dawn Fraser et al.   MOLECULAR MICROBIOLOGY

Experimental evolution of bet hedging

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

Chaperonin overexpression promotes genetic variation and enzyme evolution

(2009) Nobuhiko Tokuriki et al.   NATURE

Mechanisms of change in gene copy number

(2009) P. J. Hastings et al.   NATURE REVIEWS GENETICS

The evolutionary consequences of erroneous protein synthesis

(2009) D. Allan Drummond et al.   NATURE REVIEWS GENETICS

Fitness and its role in evolutionary genetics

(2009) H. Allen Orr   NATURE REVIEWS GENETICS

Bacterial gene amplification: implications for the evolution of antibiotic resistance

(2009) Linus Sandegren et al.   NATURE REVIEWS MICROBIOLOGY

Principles of c-di-GMP signalling in bacteria

(2009) Regine Hengge   NATURE REVIEWS MICROBIOLOGY

Is Genetic Evolution Predictable?

(2009) D. L. Stern et al.   SCIENCE

The Bacterial Species Challenge: Making Sense of Genetic and Ecological Diversity

(2009) C. Fraser et al.   SCIENCE

Fast Growth Increases the Selective Advantage of a Mutation Arising Recurrently during Evolution under Metal Limitation

(2009) Hsin-Hung Chou et al.   PLoS Genetics

E Unibus Plurum: Genomic Analysis of an Experimentally Evolved Polymorphism in Escherichia coli

(2009) Margie A. Kinnersley et al.   PLoS Genetics

Individuality in Bacteria

(2008) Carla J. Davidson et al.   Annual Review of Genetics

(p)ppGpp: Still Magical?

(2008) Katarzyna Potrykus et al.   Annual Review of Microbiology

Bistability, Epigenetics, and Bet-Hedging in Bacteria

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

The look-ahead effect of phenotypic mutations

(2008) Dion J Whitehead et al.   Biology Direct

Cell-to-cell signalling during pathogenesis

(2008) Christopher T. Parker et al.   CELLULAR MICROBIOLOGY

Stochastic switching to competence

(2008) Madeleine Leisner et al.   CURRENT OPINION IN MICROBIOLOGY

Death and cannibalism in a seasonal environment facilitate bacterial coexistence

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

Control of cell fate by the formation of an architecturally complex bacterial community

(2008) H. Vlamakis et al.   GENES & DEVELOPMENT

Evolution of new gene functions: simulation and analysis of the amplification model

(2008) Mats E. Pettersson et al.   GENETICA

Metabolic Changes Associated With Adaptive Diversification in Escherichia coli

(2008) M. Le Gac et al.   GENETICS

Protein Aggregates: an Aging Factor Involved in Cell Death

(2008) E. Maisonneuve et al.   JOURNAL OF BACTERIOLOGY

Transcriptional Modulator NusA Interacts with Translesion DNA Polymerases in Escherichia coli

(2008) S. E. Cohen et al.   JOURNAL OF BACTERIOLOGY

Cyclic AMP-Dependent Catabolite Repression Is the Dominant Control Mechanism of Metabolic Fluxes under Glucose Limitation in Escherichia coli

(2008) A. Nanchen et al.   JOURNAL OF BACTERIOLOGY

Functional organisation of Escherichia coli transcriptional regulatory network

(2008) Agustino Martínez-Antonio et al.   JOURNAL OF MOLECULAR BIOLOGY

The diffusive influx and carrier efflux have a strong effect on the bistability of the lac operon in Escherichia coli

(2008) Jason T. Noel et al.   JOURNAL OF THEORETICAL BIOLOGY

Strain variation in ppGpp concentration and RpoS levels in laboratory strains of Escherichia coli K-12

(2008) B. Spira et al.   MICROBIOLOGY-SGM

Host responses influence on the induction of lambda prophage

(2008) Assaf Rokney et al.   MOLECULAR MICROBIOLOGY

A predatory mechanism dramatically increases the efficiency of lateral gene transfer inStreptococcus pneumoniaeand related commensal species

(2008) Ola Johnsborg et al.   MOLECULAR MICROBIOLOGY

Physiological heterogeneity in biofilms

(2008) Philip S. Stewart et al.   NATURE REVIEWS MICROBIOLOGY

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

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

Quorum Sensing Influences Vibrio harveyi Growth Rates in a Manner Not Fully Accounted For by the Marker Effect of Bioluminescence

(2008) Zeena E. Nackerdien et al.   PLoS One

Bet-hedging and epigenetic inheritance in bacterial cell development

(2008) J.-W. Veening et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Quality control despite mistranslation caused by an ambiguous genetic code

(2008) B. Ruan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accumulation of mutants in "aging" bacterial colonies is due to growth under selection, not stress-induced mutagenesis

(2008) M. Wrande et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Asymmetric segregation of protein aggregates is associated with cellular aging and rejuvenation

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

Determination of cell fate selection during phage lambda infection

(2008) F. St-Pierre et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Deletion of the Escherichia coli uup gene encoding a protein of the ATP binding cassette superfamily affects bacterial competitiveness

(2008) Dorothée Murat et al.   RESEARCH IN MICROBIOLOGY

Direct Visualization of Horizontal Gene Transfer

(2008) A. Babic et al.   SCIENCE

Nongenetic Individuality in the Host–Phage Interaction

(2008) Sivan Pearl et al.   PLOS BIOLOGY

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

(2008) David Gresham et al.   PLoS Genetics

A Simple Screen to Identify Promoters Conferring High Levels of Phenotypic Noise

(2008) Nikki E. Freed et al.   PLoS Genetics

The evolution of contact-dependent inhibition in non-growing populations of Escherichia coli

(2007) M. Lemonnier et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Robustness and evolvability: a paradox resolved

(2007) A. Wagner   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES