Suboptimal resource allocation in changing environments constrains response and growth in bacteria

A universal trade-off between growth and lag in fluctuating environments

(2020) Markus Basan et al.   NATURE

Wide lag time distributions break a trade-off between reproduction and survival in bacteria

(2020) Stefany Moreno-Gámez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nutrient levels and trade-offs control diversity in a serial dilution ecosystem

(2020) Amir Erez et al.   eLife

Lag phase – a dynamic, organized, adaptive, and evolvable period that prepares bacteria for cell division

(2019) Robert L. Bertrand   JOURNAL OF BACTERIOLOGY

Growth strategy of microbes on mixed carbon sources

(2019) Xin Wang et al.   Nature Communications

A Bacterial Growth Law out of Steady State

(2018) Yael Korem Kohanim et al.   Cell Reports

Contributions of SpoT Hydrolase, SpoT Synthetase, and RelA Synthetase to Carbon Source Diauxic Growth Transitions in Escherichia coli

(2018) Llorenç Fernández-Coll et al.   Frontiers in Microbiology

Bacterial growth: a statistical physicist’s guide

(2018) Rosalind J Allen et al.   REPORTS ON PROGRESS IN PHYSICS

Growth of Cyanobacteria Is Constrained by the Abundance of Light and Carbon Assimilation Proteins

(2018) Michael Jahn et al.   Cell Reports

The dynamics of molecular evolution over 60,000 generations

(2017) Benjamin H. Good et al.   NATURE

A global resource allocation strategy governs growth transition kinetics of Escherichia coli

(2017) David W. Erickson et al.   NATURE

Effect of water flow and chemical environment on microbiota growth and composition in the human colon

(2017) Jonas Cremer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Optimality and sub-optimality in a bacterial growth law

(2017) Benjamin D. Towbin et al.   Nature Communications

Effect of flow and peristaltic mixing on bacterial growth in a gut-like channel

(2016) Jonas Cremer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The lag-phase during diauxic growth is a trade-off between fast adaptation and high growth rate

(2016) Dominique Chu et al.   Scientific Reports

Quantification and Classification of E. coli Proteome Utilization and Unused Protein Costs across Environments

(2016) Edward J. O’Brien et al.   PLoS Computational Biology

Microbial bet-hedging: the power of being different

(2015) Ard Jan Grimbergen et al.   CURRENT OPINION IN MICROBIOLOGY

How fast-growing bacteria robustly tune their ribosome concentration to approximate growth-rate maximization

(2015) Evert Bosdriesz et al.   FEBS Journal

Acetate Exposure Determines the Diauxic Behavior of Escherichia coli during the Glucose-Acetate Transition

(2015) Brice Enjalbert et al.   JOURNAL OF BACTERIOLOGY

A growth-rate composition formula for the growth of E. coli on co-utilized carbon substrates

(2015) R. Hermsen et al.   Molecular Systems Biology

Quantitative proteomic analysis reveals a simple strategy of global resource allocation in bacteria

(2015) S. Hui et al.   Molecular Systems Biology

Genome-wide study of mRNA degradation and transcript elongation in Escherichia coli

(2015) H. Chen et al.   Molecular Systems Biology

The quantitative and condition-dependent Escherichia coli proteome

(2015) Alexander Schmidt et al.   NATURE BIOTECHNOLOGY

Population Diversification in a Yeast Metabolic Program Promotes Anticipation of Environmental Shifts

(2015) Ophelia S. Venturelli et al.   PLOS BIOLOGY

Shifting Sugars and Shifting Paradigms

(2015) Mark L. Siegal   PLOS BIOLOGY

Natural Variation in Preparation for Nutrient Depletion Reveals a Cost–Benefit Tradeoff

(2015) Jue Wang et al.   PLOS BIOLOGY

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

(2014) S. Anders et al.   BIOINFORMATICS

Phenotypic bistability in Escherichia coli's central carbon metabolism

(2014) O. Kotte et al.   Molecular Systems Biology

Emergence of robust growth laws from optimal regulation of ribosome synthesis

(2014) M. Scott et al.   Molecular Systems Biology

Bet-hedging during bacterial diauxic shift

(2014) A. Solopova et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metabolic Erosion Primarily Through Mutation Accumulation, and Not Tradeoffs, Drives Limited Evolution of Substrate Specificity in Escherichia coli

(2014) Nicholas Leiby et al.   PLOS BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Protein expression dynamics during Escherichia Coli glucose-lactose diauxie

(2011) Ekaterina Mostovenko et al.   BMC MICROBIOLOGY

Engineering multiple genomic deletions in Gram-negative bacteria: analysis of the multi-resistant antibiotic profile of Pseudomonas putida KT2440

(2011) Esteban Martínez-García et al.   ENVIRONMENTAL MICROBIOLOGY

Interdependence of Cell Growth and Gene Expression: Origins and Consequences

(2010) M. Scott et al.   SCIENCE

Shifts in growth strategies reflect tradeoffs in cellular economics

(2009) Douwe Molenaar et al.   Molecular Systems Biology