Restriction-modification mediated barriers to exogenous DNA uptake and incorporation employed by Prevotella intermedia

Characterizing leader sequences of CRISPR loci

(2016) Omer S. Alkhnbashi et al.   BIOINFORMATICS

Comparative genomic analysis identifies structural features of CRISPR-Cas systems in Riemerella anatipestifer

(2016) De-Kang Zhu et al.   BMC GENOMICS

CRISPRDetect: A flexible algorithm to define CRISPR arrays

(2016) Ambarish Biswas et al.   BMC GENOMICS

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

CRISPR-Cas and Restriction-Modification Act Additively against Conjugative Antibiotic Resistance Plasmid Transfer in Enterococcus faecalis

(2016) Valerie J. Price et al.   mSphere

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

(2015) Devashish Rath et al.   BIOCHIMIE

R–M systems go on the offensive

(2015) John Lees et al.   NATURE REVIEWS MICROBIOLOGY

Sequences spanning the leader-repeat junction mediate CRISPR adaptation to phage in Streptococcus thermophilus

(2015) Yunzhou Wei et al.   NUCLEIC ACIDS RESEARCH

Complete Genome Sequence of ER2796, a DNA Methyltransferase-Deficient Strain of Escherichia coli K-12

(2015) Brian P. Anton et al.   PLoS One

Single molecule-level detection and long read-based phasing of epigenetic variations in bacterial methylomes

(2015) John Beaulaurier et al.   Nature Communications

Regulation of DNA phosphorothioate modification in Salmonella enterica by DndB

(2015) Wei He et al.   Scientific Reports

BREX is a novel phage resistance system widespread in microbial genomes

(2014) T. Goldfarb et al.   EMBO JOURNAL

Pathogenic Bacterial Species Associated with Endodontic Infection Evade Innate Immune Control by Disabling Neutrophils

(2014) Aritsune Matsui et al.   INFECTION AND IMMUNITY

Cas1–Cas2 complex formation mediates spacer acquisition during CRISPR–Cas adaptive immunity

(2014) James K Nuñez et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

REBASE—a database for DNA restriction and modification: enzymes, genes and genomes

(2014) Richard J. Roberts et al.   NUCLEIC ACIDS RESEARCH

Type II restriction endonucleases—a historical perspective and more

(2014) Alfred Pingoud et al.   NUCLEIC ACIDS RESEARCH

Classification and evolution of type II CRISPR-Cas systems

(2014) Krzysztof Chylinski et al.   NUCLEIC ACIDS RESEARCH

Diversification of bacterial genome content through distinct mechanisms over different timescales

(2014) Nicholas J. Croucher et al.   Nature Communications

Bacteriophage Orphan DNA Methyltransferases: Insights from Their Bacterial Origin, Function, and Occurrence

(2013) James Murphy et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Enhanced 5-methylcytosine detection in single-molecule, real-time sequencing via Tet1 oxidation

(2013) Tyson A Clark et al.   BMC BIOLOGY

Entering the era of bacterial epigenomics with single molecule real time DNA sequencing

(2013) Brigid M Davis et al.   CURRENT OPINION IN MICROBIOLOGY

Prevotella intermedia Induces Severe Bacteremic Pneumococcal Pneumonia in Mice with Upregulated Platelet-Activating Factor Receptor Expression

(2013) Kentaro Nagaoka et al.   INFECTION AND IMMUNITY

Diverse Functions of Restriction-Modification Systems in Addition to Cellular Defense

(2013) K. Vasu et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

The other face of restriction: modification-dependent enzymes

(2013) Wil A. M. Loenen et al.   NUCLEIC ACIDS RESEARCH

Lessons learned and unlearned in periodontal microbiology

(2013) Ricardo Teles et al.   PERIODONTOLOGY 2000

CRISPRTarget

(2013) Ambarish Biswas et al.   RNA Biology

The tracrRNA and Cas9 families of type II CRISPR-Cas immunity systems

(2013) Krzysztof Chylinski et al.   RNA Biology

crRNA and tracrRNA guide Cas9-mediated DNA interference inStreptococcus thermophilus

(2013) Tautvydas Karvelis et al.   RNA Biology

CRISPR-Cas and restriction–modification systems are compatible and increase phage resistance

(2013) Marie-Ève Dupuis et al.   Nature Communications

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

(2013) Wenyan Jiang et al.   PLoS Genetics

The methylomes of six bacteria

(2012) Iain A. Murray et al.   NUCLEIC ACIDS RESEARCH

The recognition domain of the methyl-specific endonuclease McrBC flips out 5-methylcytosine

(2012) Rasa Sukackaite et al.   NUCLEIC ACIDS RESEARCH

Context-dependent conservation of DNA methyltransferases in bacteria

(2012) Aswin Sai Narain Seshasayee et al.   NUCLEIC ACIDS RESEARCH

Promiscuous restriction is a cellular defense strategy that confers fitness advantage to bacteria

(2012) K. Vasu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Evolutionary Link between Natural Transformation and CRISPR Adaptive Immunity

(2012) P. Jorth et al.   mBio

A Mimicking-of-DNA-Methylation-Patterns Pipeline for Overcoming the Restriction Barrier of Bacteria

(2012) Guoqiang Zhang et al.   PLoS Genetics

CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

(2011) Elitza Deltcheva et al.   NATURE

Characterization of DNA methyltransferase specificities using single-molecule, real-time DNA sequencing

(2011) Tyson A. Clark et al.   NUCLEIC ACIDS RESEARCH

The Streptococcus thermophilus CRISPR/Cas system provides immunity in Escherichia coli

(2011) Rimantas Sapranauskas et al.   NUCLEIC ACIDS RESEARCH

Interference by clustered regularly interspaced short palindromic repeat (CRISPR) RNA is governed by a seed sequence

(2011) E. Semenova et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

ARNold: A web tool for the prediction of Rho-independent transcription terminators

(2011) Magali Naville et al.   RNA Biology

AdpC Is a Prevotella intermedia 17 Leucine-Rich Repeat Internalin-Like Protein

(2010) D. Iyer et al.   INFECTION AND IMMUNITY

Direct detection of DNA methylation during single-molecule, real-time sequencing

(2010) Benjamin A Flusberg et al.   NATURE METHODS

A novel host-specific restriction system associated with DNA backbone S-modification in Salmonella

(2010) Tiegang Xu et al.   NUCLEIC ACIDS RESEARCH

Relative contribution of Prevotella intermedia and Pseudomonas aeruginosa to lung pathology in airways of patients with cystic fibrosis

(2010) M. Ulrich et al.   THORAX

Self-targeting by CRISPR: gene regulation or autoimmunity?

(2010) Adi Stern et al.   TRENDS IN GENETICS

Diversity of Endodontic Microbiota Revisited

(2009) J.F. Siqueira et al.   JOURNAL OF DENTAL RESEARCH

dndDB: A Database Focused on Phosphorothioation of the DNA Backbone

(2009) Hong-Yu Ou et al.   PLoS One

Errors in the bisulfite conversion of DNA: modulating inappropriate- and failed-conversion frequencies

(2008) D. P. Genereux et al.   NUCLEIC ACIDS RESEARCH

CRISPR Interference Limits Horizontal Gene Transfer in Staphylococci by Targeting DNA

(2008) Luciano A. Marraffini et al.   SCIENCE