CRISPR Regulation of Intraspecies Diversification by Limiting IS Transposition and Intercellular Recombination

Comparisons of clustered regularly interspaced short palindromic repeats and viromes in human saliva reveal bacterial adaptations to salivary viruses

(2012) David T. Pride et al.   ENVIRONMENTAL MICROBIOLOGY

Porphyromonas gingivalis: an invasive and evasive opportunistic oral pathogen

(2012) Nagihan Bostanci et al.   FEMS MICROBIOLOGY LETTERS

CRISPR Typing and Subtyping for Improved Laboratory Surveillance of Salmonella Infections

(2012) Laëtitia Fabre et al.   PLoS One

Erwinia amylovora CRISPR Elements Provide New Tools for Evaluating Strain Diversity and for Microbial Source Tracking

(2012) Gayle C. McGhee et al.   PLoS One

Molecular tracing of the emergence, adaptation, and transmission of hospital-associated methicillin-resistant Staphylococcus aureus

(2012) P. R. McAdam 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

Natural Competence Is a Major Mechanism for Horizontal DNA Transfer in the Oral Pathogen Porphyromonas gingivalis

(2012) G. D. Tribble et al.   mBio

CRISPR-Cas Systems in Bacteria and Archaea: Versatile Small RNAs for Adaptive Defense and Regulation

(2011) Devaki Bhaya et al.   Annual Review of Genetics

CRISPR loci reveal networks of gene exchange in archaea

(2011) Avital Brodt et al.   Biology Direct

Distinct and complex bacterial profiles in human periodontitis and health revealed by 16S pyrosequencing

(2011) Ann L Griffen et al.   ISME Journal

Evidence of a robust resident bacteriophage population revealed through analysis of the human salivary virome

(2011) David T Pride et al.   ISME Journal

Non-Identity-Mediated CRISPR-Bacteriophage Interaction Mediated via the Csy and Cas3 Proteins

(2011) K. C. Cady et al.   JOURNAL OF BACTERIOLOGY

Complete Genome Sequence of the Bacterium Porphyromonas gingivalis TDC60, Which Causes Periodontal Disease

(2011) T. Watanabe et al.   JOURNAL OF BACTERIOLOGY

Characterization of the Porphyromonas gingivalis conjugative transposon CTnPg1: determination of the integration site and the genes essential for conjugal transfer

(2011) M. Naito et al.   MICROBIOLOGY-SGM

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Enterotypes of the human gut microbiome

(2011) Manimozhiyan Arumugam et al.   NATURE

Evolution and classification of the CRISPR–Cas systems

(2011) Kira S. Makarova et al.   NATURE REVIEWS MICROBIOLOGY

Genomic Characterization of Haemophilus parasuis SH0165, a Highly Virulent Strain of Serovar 5 Prevalent in China

(2011) Zhuofei Xu et al.   PLoS One

CRISPR Inhibition of Prophage Acquisition in Streptococcus pyogenes

(2011) Takashi Nozawa et al.   PLoS One

The Human Microbiome Project: lessons from human genomics

(2011) Cecil M. Lewis et al.   TRENDS IN MICROBIOLOGY

Insertion sequence-excision enhancer removes transposable elements from bacterial genomes and induces various genomic deletions

(2011) Masahiro Kusumoto et al.   Nature Communications

Complete genome sequence of Methanothermus fervidus type strain (V24ST)

(2011) Iain Anderson et al.   Standards in Genomic Sciences

Interference with histidyl-tRNA synthetase by a CRISPR spacer sequence as a factor in the evolution of Pelobacter carbinolicus

(2010) Muktak Aklujkar et al.   BMC EVOLUTIONARY BIOLOGY

CRISPR Associated Diversity within a Population of Sulfolobus islandicus

(2010) Nicole L. Held et al.   PLoS One

Self-targeting by CRISPR: gene regulation or autoimmunity?

(2010) Adi Stern et al.   TRENDS IN GENETICS

The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information

(2010) T. Chen et al.   Database-The Journal of Biological Databases and Curation

CRISPI: a CRISPR interactive database

(2009) C. Rousseau et al.   BIOINFORMATICS

Inference of the impact of insertion sequence (IS) elements on bacterial genome diversification through analysis of small-size structural polymorphisms in Escherichia coli O157 genomes

(2009) T. Ooka et al.   GENOME RESEARCH

ACLAME: A CLAssification of Mobile genetic Elements, update 2010

(2009) Raphaël Leplae et al.   NUCLEIC ACIDS RESEARCH

fimAgenotypes and PFGE profile patterns inPorphyromonas gingivalisisolates from subjects with periodontitis

(2009) P. J. Perez-Chaparro et al.   Oral microbiology and immunology

GenomeMatcher: A graphical user interface for DNA sequence comparison

(2008) Yoshiyuki Ohtsubo et al.   BMC BIOINFORMATICS

Determination of the Genome Sequence of Porphyromonas gingivalis Strain ATCC 33277 and Genomic Comparison with Strain W83 Revealed Extensive Genome Rearrangements in P. gingivalis

(2008) M. Naito et al.   DNA RESEARCH

CRISPR Interference Limits Horizontal Gene Transfer in Staphylococci by Targeting DNA

(2008) Luciano A. Marraffini et al.   SCIENCE

Virus Population Dynamics and Acquired Virus Resistance in Natural Microbial Communities

(2008) A. F. Andersson et al.   SCIENCE

Dynamics of Genome Rearrangement in Bacterial Populations

(2008) Aaron E. Darling et al.   PLoS Genetics

The Population Genetics of dN/dS

(2008) Sergey Kryazhimskiy et al.   PLoS Genetics

CRISPR — a widespread system that provides acquired resistance against phages in bacteria and archaea

(2007) Rotem Sorek et al.   NATURE REVIEWS MICROBIOLOGY