Experimental Evolution of Metabolic Dependency in Bacteria

Metabolic network architecture and carbon source determine metabolite production costs

(2016) Silvio Waschina et al.   FEBS Journal

Endosymbiont evolution: predictions from theory and surprises from genomes

(2015) Jennifer J. Wernegreen   Annals of the New York Academy of Sciences

Plasticity and epistasis strongly affect bacterial fitness after losing multiple metabolic genes

(2015) Glen D'Souza et al.   EVOLUTION

Gene Loss Dominates As a Source of Genetic Variation within Clonal Pathogenic Bacterial Species

(2015) Evgeni Bolotin et al.   Genome Biology and Evolution

Black Queen evolution: the role of leakiness in structuring microbial communities

(2015) J. Jeffrey Morris   TRENDS IN GENETICS

Metabolic cross-feeding via intercellular nanotubes among bacteria

(2015) Samay Pande et al.   Nature Communications

Nutritional stress induces exchange of cell material and energetic coupling between bacterial species

(2015) Saida Benomar et al.   Nature Communications

The no-SCAR (Scarless Cas9 Assisted Recombineering) system for genome editing in Escherichia coli

(2015) Chris R. Reisch et al.   Scientific Reports

Statistical comparison of the slopes of two regression lines: A tutorial

(2014) J.M. Andrade et al.   ANALYTICA CHIMICA ACTA

Genomes in turmoil: quantification of genome dynamics in prokaryote supergenomes

(2014) Pere Puigbò et al.   BMC BIOLOGY

LESS IS MORE: SELECTIVE ADVANTAGES CAN EXPLAIN THE PREVALENT LOSS OF BIOSYNTHETIC GENES IN BACTERIA

(2014) Glen D'Souza et al.   EVOLUTION

COEXISTENCE OF EVOLVING BACTERIA STABILIZED BY A SHARED BLACK QUEEN FUNCTION

(2014) J. Jeffrey Morris et al.   EVOLUTION

The spectrum of adaptive mutations in experimental evolution

(2014) Gregory I. Lang et al.   GENOMICS

Implications of streamlining theory for microbial ecology

(2014) Stephen J Giovannoni et al.   ISME Journal

Reductive genome evolution at both ends of the bacterial population size spectrum

(2014) Bérénice Batut et al.   NATURE REVIEWS MICROBIOLOGY

Syntrophic exchange in synthetic microbial communities

(2014) M. T. Mee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metabolic costs of amino acid and protein production inEscherichia coli

(2013) Christoph Kaleta et al.   Biotechnology Journal

Fitness and stability of obligate cross-feeding interactions that emerge upon gene loss in bacteria

(2013) Samay Pande et al.   ISME Journal

Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations

(2013) Gregory I. Lang et al.   NATURE

Genome-scale metabolic reconstructions of multiple Escherichia coli strains highlight strain-specific adaptations to nutritional environments

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

Bacterial Adaptation through Loss of Function

(2013) Alison K. Hottes et al.   PLoS Genetics

Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton

(2012) Sarahi L Garcia et al.   ISME Journal

Design and Characterization of Auxotrophy-Based Amino Acid Biosensors

(2012) Felix Bertels et al.   PLoS One

Predicting the Functional Effect of Amino Acid Substitutions and Indels

(2012) Yongwook Choi et al.   PLoS One

Buried organic horizons represent amino acid reservoirs in boreal forest soils

(2012) Nancy R. Werdin-Pfisterer et al.   SOIL BIOLOGY & BIOCHEMISTRY

Streamlining and Core Genome Conservation among Highly Divergent Members of the SAR11 Clade

(2012) J. Grote et al.   mBio

The Black Queen Hypothesis: Evolution of Dependencies through Adaptive Gene Loss

(2012) J. J. Morris et al.   mBio

Repeated, Selection-Driven Genome Reduction of Accessory Genes in Experimental Populations

(2012) Ming-Chun Lee et al.   PLoS Genetics

Selection-Driven Gene Loss in Bacteria

(2012) Sanna Koskiniemi et al.   PLoS Genetics

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

An Interdependent Metabolic Patchwork in the Nested Symbiosis of Mealybugs

(2011) John P. McCutcheon et al.   CURRENT BIOLOGY

EcoCyc: a comprehensive database of Escherichia coli biology

(2010) I. M. Keseler et al.   NUCLEIC ACIDS RESEARCH

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

Life cycle and population dynamics of a protective insect symbiont reveal severe bottlenecks during vertical transmission

(2009) Martin Kaltenpoth et al.   EVOLUTIONARY ECOLOGY

The consequences of genetic drift for bacterial genome complexity

(2009) C.-H. Kuo et al.   GENOME RESEARCH

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

(2009) Jeffrey E. Barrick et al.   NATURE

Genomics and Evolution of Heritable Bacterial Symbionts

(2008) Nancy A. Moran et al.   Annual Review of Genetics