CRISPR-Cas systems restrict horizontal gene transfer in Pseudomonas aeruginosa

Targeting of temperate phages drives loss of type I CRISPR–Cas systems

(2020) Clare Rollie et al.   NATURE

A megaplasmid family driving dissemination of multidrug resistance in Pseudomonas

(2020) Adrian Cazares et al.   Nature Communications

Large-scale network analysis captures biological features of bacterial plasmids

(2020) Mislav Acman et al.   Nature Communications

The Role of Integrative and Conjugative Elements in Antibiotic Resistance Evolution

(2020) João Botelho et al.   TRENDS IN MICROBIOLOGY

Occurrence of the potent mutagens 2- nitrobenzanthrone and 3-nitrobenzanthrone in fine airborne particles

(2019) Aldenor G. Santos et al.   Scientific Reports

The Type IV Secretion System of ICEAfe1: Formation of a Conjugative Pilus in Acidithiobacillus ferrooxidans

(2019) Rodrigo Flores-Ríos et al.   Frontiers in Microbiology

CRISPR-Cas immunity leads to a coevolutionary arms race between Streptococcus thermophilus and lytic phage

(2019) Jack Common et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The ecology and evolution of microbial CRISPR-Cas adaptive immune systems

(2019) Edze R. Westra et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genome-wide correlation analysis suggests different roles of CRISPR-Cas systems in the acquisition of antibiotic resistance genes in diverse species

(2019) Saadlee Shehreen et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Antibiotic resistance in Pseudomonas aeruginosa – mechanisms, epidemiology and evolution

(2019) João Botelho et al.   DRUG RESISTANCE UPDATES

A phylogenetic test of the role of CRISPR-Cas in limiting plasmid acquisition and prophage integration in bacteria

(2019) Derek O'Meara et al.   PLASMID

Accessory genome of the multi-drug resistant ocular isolate of Pseudomonas aeruginosa PA34

(2019) Dinesh Subedi et al.   PLoS One

Temperate Bacteriophages from Chronic Pseudomonas aeruginosa Lung Infections Show Disease-Specific Changes in Host Range and Modulate Antimicrobial Susceptibility

(2019) Mohammad A. Tariq et al.   mSystems

The Ecology and Evolution of Pangenomes

(2019) Michael A. Brockhurst et al.   CURRENT BIOLOGY

CRISPR-Cas influences the acquisition of antibiotic resistance in Klebsiella pneumoniae

(2019) Natalie A. Mackow et al.   PLoS One

CrpP Is a Novel Ciprofloxacin-Modifying Enzyme Encoded by the Pseudomonas aeruginosa pUM505 Plasmid

(2018) Víctor M. Chávez-Jacobo et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins

(2018) David Couvin et al.   NUCLEIC ACIDS RESEARCH

The Integrative Conjugative Element clc (ICEclc) of Pseudomonas aeruginosa JB2

(2018) Chioma C. Obi et al.   Frontiers in Microbiology

Integrative analysis of fitness and metabolic effects of plasmids in Pseudomonas aeruginosa PAO1

(2018) Alvaro San Millan et al.   ISME Journal

CRISPR–Cas: Complex Functional Networks and Multiple Roles beyond Adaptive Immunity

(2018) Guilhem Faure et al.   JOURNAL OF MOLECULAR BIOLOGY

Discovery of widespread Type I and Type V CRISPR-Cas inhibitors

(2018) Nicole D. Marino et al.   SCIENCE

VFDB 2019: a comparative pathogenomic platform with an interactive web interface

(2018) Bo Liu et al.   NUCLEIC ACIDS RESEARCH

ICEberg 2.0: an updated database of bacterial integrative and conjugative elements

(2018) Meng Liu et al.   NUCLEIC ACIDS RESEARCH

Metapopulation Structure of CRISPR-Cas Immunity in Pseudomonas aeruginosa and Its Viruses

(2018) Whitney E. England et al.   mSystems

Unravelling the genome of a Pseudomonas aeruginosa isolate belonging to the high-risk clone ST235 reveals an integrative conjugative element housing a blaGES-6 carbapenemase

(2017) João Botelho et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Anti-CRISPRdb: a comprehensive online resource for anti-CRISPR proteins

(2017) Chuan Dong et al.   NUCLEIC ACIDS RESEARCH

The CRISPR Spacer Space Is Dominated by Sequences from Species-Specific Mobilomes

(2017) Sergey A. Shmakov et al.   mBio

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

(2016) Marie Touchon et al.   ISME Journal

Temperate phages enhance pathogen fitness in chronic lung infection

(2016) Emily V Davies et al.   ISME Journal

Survival and Evolution of a Large Multidrug Resistance Plasmid in New Clinical Bacterial Hosts

(2016) Andreas Porse et al.   MOLECULAR BIOLOGY AND EVOLUTION

PHASTER: a better, faster version of the PHAST phage search tool

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

CRISPR-Cas: biology, mechanisms and relevance

(2016) Frank Hille et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Combined Analysis of Variation in Core, Accessory and Regulatory Genome Regions Provides a Super-Resolution View into the Evolution of Bacterial Populations

(2016) Alan McNally et al.   PLoS Genetics

Phages Fight Back: Inactivation of the CRISPR-Cas Bacterial Immune System by Anti-CRISPR Proteins

(2016) Karen L. Maxwell   PLoS Pathogens

Integrative and Conjugative Elements (ICEs): What They Do and How They Work

(2015) Christopher M. Johnson et al.   Annual Review of Genetics

The CRISPR-Cas immune system: Biology, mechanisms and applications

(2015) Devashish Rath et al.   BIOCHIMIE

Parasite Exposure Drives Selective Evolution of Constitutive versus Inducible Defense

(2015) Edze R. Westra et al.   CURRENT BIOLOGY

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

(2015) Uri Gophna et al.   ISME Journal

High-Resolution Analysis by Whole-Genome Sequencing of an International Lineage (Sequence Type 111) of Pseudomonas aeruginosa Associated with Metallo-Carbapenemases in the United Kingdom

(2015) Jane F. Turton et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Multiple mechanisms for CRISPR–Cas inhibition by anti-CRISPR proteins

(2015) Joseph Bondy-Denomy et al.   NATURE

Phylogenetic Distribution of CRISPR-Cas Systems in Antibiotic-Resistant Pseudomonas aeruginosa

(2015) Alex van Belkum et al.   mBio

Interactions between horizontally acquired genes create a fitness cost in Pseudomonas aeruginosa

(2015) Alvaro San Millan et al.   Nature Communications

The Resistome of Pseudomonas aeruginosa in Relationship to Phenotypic Susceptibility

(2014) Veronica N. Kos et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Mechanism and structure of the bacterial type IV secretion systems

(2014) Peter J. Christie et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

CRISPR-Cas Systems: Prokaryotes Upgrade to Adaptive Immunity

(2014) Rodolphe Barrangou et al.   MOLECULAR CELL

CRISPR–Cas systems: beyond adaptive immunity

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

Pervasive domestication of defective prophages by bacteria

(2014) L.-M. Bobay et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Complete Sequence of pOZ176, a 500-Kilobase IncP-2 Plasmid Encoding IMP-9-Mediated Carbapenem Resistance, from Outbreak Isolate Pseudomonas aeruginosa 96

(2013) Jianhui Xiong et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Complete sequence of broad-host-range plasmid pNOR-2000 harbouring the metallo-β-lactamase gene blaVIM-2 from Pseudomonas aeruginosa

(2013) Rémy A. Bonnin et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Type 6 Secretion System-Mediated Immunity to Type 4 Secretion System-Mediated Gene Transfer

(2013) B. T. Ho et al.   SCIENCE

Dealing with the Evolutionary Downside of CRISPR Immunity: Bacteria and Beneficial Plasmids

(2013) Wenyan Jiang et al.   PLoS Genetics

Integrating Conjugative Elements as Vectors of Antibiotic, Mercury, and Quaternary Ammonium Compound Resistance in Marine Aquaculture Environments

(2012) Arturo Rodríguez-Blanco et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

CRISPR Interference Can Prevent Natural Transformation and Virulence Acquisition during In Vivo Bacterial Infection

(2012) David Bikard et al.   Cell Host & Microbe

CRISPR targeting reveals a reservoir of common phages associated with the human gut microbiome

(2012) A. Stern et al.   GENOME RESEARCH

Identification of acquired antimicrobial resistance genes

(2012) E. Zankari et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

The CRISPR/Cas Adaptive Immune System of Pseudomonas aeruginosa Mediates Resistance to Naturally Occurring and Engineered Phages

(2012) K. C. Cady et al.   JOURNAL OF BACTERIOLOGY

Evolution of Conjugation and Type IV Secretion Systems

(2012) Julien Guglielmini et al.   MOLECULAR BIOLOGY AND EVOLUTION

Bacteriophage genes that inactivate the CRISPR/Cas bacterial immune system

(2012) Joe Bondy-Denomy et al.   NATURE

BIGSdb: Scalable analysis of bacterial genome variation at the population level

(2011) Keith A Jolley et al.   BMC BIOINFORMATICS

The Repertoire of ICE in Prokaryotes Underscores the Unity, Diversity, and Ubiquity of Conjugation

(2011) Julien Guglielmini et al.   PLoS Genetics

Pseudomonas aeruginosa Genomic Structure and Diversity

(2011) Jens Klockgether et al.   Frontiers in Microbiology

CRISPR/Cas, the Immune System of Bacteria and Archaea

(2010) P. Horvath et al.   SCIENCE

Network analyses structure genetic diversity in independent genetic worlds

(2009) S. Halary et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative ICE Genomics: Insights into the Evolution of the SXT/R391 Family of ICEs

(2009) Rachel A. F. Wozniak et al.   PLoS Genetics

Small CRISPR RNAs Guide Antiviral Defense in Prokaryotes

(2008) S. J. J. Brouns et al.   SCIENCE

CRISPR Interference Limits Horizontal Gene Transfer in Staphylococci by Targeting DNA

(2008) Luciano A. Marraffini et al.   SCIENCE