Escherichia coli Has a Unique Transcriptional Program in Long-Term Stationary Phase Allowing Identification of Genes Important for Survival

Death Rate of E. coli during Starvation Is Set by Maintenance Cost and Biomass Recycling

(2019) Severin J. Schink et al.   Cell Systems

Insights into the Phylogeny and Evolution of Cold Shock Proteins: From Enteropathogenic Yersinia and Escherichia coli to Eubacteria

(2019) Tao Yu et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Transcriptomic analysis by RNA-seq of Escherichia coli O157:H7 response to prolonged cold stress

(2018) Yaru Li et al.   LWT-FOOD SCIENCE AND TECHNOLOGY

A Stress Response that Monitors and Regulates mRNA Structure Is Central to Cold Shock Adaptation

(2018) Yan Zhang et al.   MOLECULAR CELL

Adaptation of Escherichia coli to long-term batch culture in various rich media

(2018) Lacey L. Westphal et al.   RESEARCH IN MICROBIOLOGY

RNA target profiles direct the discovery of virulence functions for the cold-shock proteins CspC and CspE

(2017) Charlotte Michaux et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Density-Dependent Recycling Promotes the Long-Term Survival of Bacterial Populations during Periods of Starvation

(2017) Sotaro Takano et al.   mBio

Molecular Basis of Bacterial Longevity

(2017) Kieran B. Pechter et al.   mBio

Genomewide Mutational Diversity in Escherichia coli Population Evolving in Prolonged Stationary Phase

(2017) Savita Chib et al.   mSphere

Adaptation of Escherichia coli to Long-Term Serial Passage in Complex Medium: Evidence of Parallel Evolution

(2017) Karin E. Kram et al.   mSystems

Rich Medium Composition Affects Escherichia coli Survival, Glycation, and Mutation Frequency during Long-Term Batch Culture

(2015) Karin E. Kram et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Simple Phenotypic Sweeps Hide Complex Genetic Changes in Populations

(2015) Ram P. Maharjan et al.   Genome Biology and Evolution

First-Step Mutations during Adaptation Restore the Expression of Hundreds of Genes

(2015) Alejandra Rodríguez-Verdugo et al.   MOLECULAR BIOLOGY AND EVOLUTION

Determinants of spontaneous mutation in the bacteriumEscherichia colias revealed by whole-genome sequencing

(2015) Patricia L. Foster et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sustained fitness gains and variability in fitness trajectories in the long-term evolution experiment withEscherichia coli

(2015) Richard E. Lenski et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Expression of csp genes in E. coli K-12 in defined rich and defined minimal media during normal growth, and after cold-shock

(2014) Tiffaney R. Czapski et al.   GENE

Global Gene Expression Analysis of Long-Term Stationary Phase Effects in E. coli K12 MG1655

(2014) Kotakonda Arunasri et al.   PLoS One

Culture Volume and Vessel Affect Long-Term Survival, Mutation Frequency, and Oxidative Stress of Escherichia coli

(2013) Karin E. Kram et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

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

(2012) Thomas Hindré et al.   NATURE REVIEWS MICROBIOLOGY

Evolutionary paths to antibiotic resistance under dynamically sustained drug selection

(2011) Erdal Toprak et al.   NATURE GENETICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

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