Genetic and life-history traits associated with the distribution of prophages in bacteria

No evidence of inhibition of horizontal gene transfer by CRISPR–Cas on evolutionary timescales

(2015) Uri Gophna et al.   ISME Journal

Viral dark matter and virus–host interactions resolved from publicly available microbial genomes

(2015) Simon Roux et al.   eLife

Conditional tolerance of temperate phages via transcription-dependent CRISPR-Cas targeting

(2014) Gregory W. Goldberg et al.   NATURE

CRISPR–Cas systems: beyond adaptive immunity

(2014) Edze R. Westra et al.   NATURE REVIEWS MICROBIOLOGY

The interplay of restriction-modification systems with mobile genetic elements and their prokaryotic hosts

(2014) Pedro H. Oliveira et al.   NUCLEIC ACIDS RESEARCH

MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems

(2014) Sophie S. Abby et al.   PLoS One

The evolution of life history trade-offs in viruses

(2014) Daniel H Goldhill et al.   Current Opinion in Virology

Q&A: What is a pathogen? A question that begs the point

(2013) Liise-anne Pirofski et al.   BMC BIOLOGY

Linking the lytic and lysogenic bacteriophage cycles to environmental conditions, host physiology and their variability in coastal lagoons

(2013) C. F. Maurice et al.   ENVIRONMENTAL MICROBIOLOGY

Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome

(2013) Sheetal R. Modi et al.   NATURE

Temperate Bacterial Viruses as Double-Edged Swords in Bacterial Warfare

(2013) João Alves Gama et al.   PLoS One

Transcription termination controls prophage maintenance in Escherichia coli genomes

(2013) R. Menouni et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PHACTS, a computational approach to classifying the lifestyle of phages

(2012) Katelyn McNair et al.   BIOINFORMATICS

The Adaptation of Temperate Bacteriophages to Their Host Genomes

(2012) Louis-Marie Bobay et al.   MOLECULAR BIOLOGY AND EVOLUTION

CRISPR Distribution within the Escherichia coli Species Is Not Suggestive of Immunity-Associated Diversifying Selection

(2011) M. Touchon et al.   JOURNAL OF BACTERIOLOGY

Condition-Dependent Cell Volume and Concentration of Escherichia coli to Facilitate Data Conversion for Systems Biology Modeling

(2011) Benjamin Volkmer et al.   PLoS One

Investment in rapid growth shapes the evolutionary rates of essential proteins

(2011) S. Vieira-Silva et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Mycobacteriophages: Genes and Genomes

(2010) Graham F. Hatfull   Annual Review of Microbiology

Trade-Offs between Competition and Defense Specialists among Unicellular Planktonic Organisms: the "Killing the Winner" Hypothesis Revisited

(2010) C. Winter et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Mobility of Plasmids

(2010) C. Smillie et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Bacteriophage resistance mechanisms

(2010) Simon J. Labrie et al.   NATURE REVIEWS MICROBIOLOGY

The Small, Slow and Specialized CRISPR and Anti-CRISPR of Escherichia and Salmonella

(2010) Marie Touchon et al.   PLoS One

Cryptic prophages help bacteria cope with adverse environments

(2010) Xiaoxue Wang et al.   Nature Communications

The Systemic Imprint of Growth and Its Uses in Ecological (Meta)Genomics

(2010) Sara Vieira-Silva et al.   PLoS Genetics

Resources drive trade-off between viral lifestyles in the plankton: evidence from freshwater microbial microcosms

(2009) A. S. Pradeep Ram et al.   ENVIRONMENTAL MICROBIOLOGY

The impact of long-distance horizontal gene transfer on prokaryotic genome size

(2009) O. X. Cordero 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