Evolution of adaptive immunity from transposable elements combined with innate immune systems

The basic building blocks and evolution of CRISPR–Cas systems

(2015) Kira S. Makarova et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Do all creatures possess an acquired immune system of some sort?

(2014) Jacob Rimer et al.   BIOESSAYS

Casposons: a new superfamily of self-synthesizing DNA transposons at the origin of prokaryotic CRISPR-Cas immunity

(2014) Mart Krupovic et al.   BMC BIOLOGY

Dark matter in archaeal genomes: a rich source of novel mobile elements, defense systems and secretory complexes

(2014) Kira S. Makarova et al.   EXTREMOPHILES

CRISPR-Cas Systems: Prokaryotes Upgrade to Adaptive Immunity

(2014) Rodolphe Barrangou et al.   MOLECULAR CELL

DNA-guided DNA interference by a prokaryotic Argonaute

(2014) Daan C. Swarts et al.   NATURE

DNA interrogation by the CRISPR RNA-guided endonuclease Cas9

(2014) Samuel H. Sternberg et al.   NATURE

A guide to genome engineering with programmable nucleases

(2014) Hyongbum Kim et al.   NATURE REVIEWS GENETICS

Unravelling the structural and mechanistic basis of CRISPR–Cas systems

(2014) John van der Oost et al.   NATURE REVIEWS MICROBIOLOGY

The evolutionary journey of Argonaute proteins

(2014) Daan C Swarts et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

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

Classification and evolution of type II CRISPR-Cas systems

(2014) Krzysztof Chylinski et al.   NUCLEIC ACIDS RESEARCH

Prokaryotic Argonautes defend genomes against invasive DNA

(2014) Junho K. Hur et al.   TRENDS IN BIOCHEMICAL SCIENCES

CRISPR-Mediated Adaptive Immune Systems in Bacteria and Archaea

(2013) Rotem Sorek et al.   Annual Review of Biochemistry

RNA-based mechanisms regulating host-virus interactions

(2013) Rui Zhou et al.   IMMUNOLOGICAL REVIEWS

Structure of the CRISPR Interference Complex CSM Reveals Key Similarities with Cascade

(2013) Christophe Rouillon et al.   MOLECULAR CELL

Bacterial Argonaute Samples the Transcriptome to Identify Foreign DNA

(2013) Ivan Olovnikov et al.   MOLECULAR CELL

A bacteriophage encodes its own CRISPR/Cas adaptive response to evade host innate immunity

(2013) Kimberley D. Seed et al.   NATURE

Breaking and joining single-stranded DNA: the HUH endonuclease superfamily

(2013) Michael Chandler et al.   NATURE REVIEWS MICROBIOLOGY

Comparative genomics of defense systems in archaea and bacteria

(2013) Kira S. Makarova et al.   NUCLEIC ACIDS RESEARCH

Insights into Dynamics of Mobile Genetic Elements in Hyperthermophilic Environments from Five New Thermococcus Plasmids

(2013) Mart Krupovic et al.   PLoS One

CRISPR-mediated defense mechanisms in the hyperthermophilic archaeal genusSulfolobus

(2013) Andrea Manica et al.   RNA Biology

CRISPR-Cas

(2013) Eugene V. Koonin et al.   RNA Biology

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

(2013) Krzysztof Chylinski et al.   RNA Biology

RNA-Guided Human Genome Engineering via Cas9

(2013) P. Mali et al.   SCIENCE

Networks of evolutionary interactions underlying the polyphyletic origin of ssDNA viruses

(2013) Mart Krupovic   Current Opinion in Virology

A virocentric perspective on the evolution of life

(2013) Eugene V Koonin et al.   Current Opinion in Virology

The major role of viruses in cellular evolution: facts and hypotheses

(2013) Patrick Forterre et al.   Current Opinion in Virology

Homologues of bacterial TnpB_IS605 are widespread in diverse eukaryotic transposable elements

(2013) Weidong Bao et al.   Mobile DNA

A proposed mechanism for IS607-family serine transposases

(2013) Martin R Boocock et al.   Mobile DNA

Live virus-free or die: coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes

(2012) Kira S Makarova et al.   Biology Direct

Evolution of Vertebrate Immunity

(2012) Thomas Boehm   CURRENT BIOLOGY

Contribution of phage-derived genomic islands to the virulence of facultative bacterial pathogens

(2012) Ben Busby et al.   ENVIRONMENTAL MICROBIOLOGY

RNA-guided genetic silencing systems in bacteria and archaea

(2012) Blake Wiedenheft et al.   NATURE

Endogenous viruses: insights into viral evolution and impact on host biology

(2012) Cédric Feschotte et al.   NATURE REVIEWS GENETICS

Structural and biochemical characterization of HP0315 from Helicobacter pylori as a VapD protein with an endoribonuclease activity

(2012) Ae-Ran Kwon et al.   NUCLEIC ACIDS RESEARCH

Proteins and DNA elements essential for the CRISPR adaptation process in Escherichia coli

(2012) Ido Yosef et al.   NUCLEIC ACIDS RESEARCH

Paleovirology and virally derived immunity

(2012) Amr Aswad et al.   TRENDS IN ECOLOGY & EVOLUTION

Molecular memory of prior infections activates the CRISPR/Cas adaptive bacterial immunity system

(2012) Kirill A. Datsenko et al.   Nature Communications

Persisting Viral Sequences Shape Microbial CRISPR-based Immunity

(2012) Ariel D. Weinberger et al.   PLoS Computational Biology

Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems

(2011) Kira S Makarova et al.   Biology Direct

Evolution and classification of the CRISPR–Cas systems

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

A widespread class of reverse transcriptase-related cellular genes

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

The role of pattern-recognition receptors in innate immunity: update on Toll-like receptors

(2010) Taro Kawai et al.   NATURE IMMUNOLOGY

Bacteriophage resistance mechanisms

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

Epigenetic Regulation of Mammalian Genomes by Transposable Elements

(2009) Ahsan Huda et al.   Annals of the New York Academy of Sciences

Prokaryotic homologs of Argonaute proteins are predicted to function as key components of a novel system of defense against mobile genetic elements

(2009) Kira S Makarova et al.   Biology Direct

Is evolution Darwinian or/and Lamarckian?

(2009) Eugene V Koonin et al.   Biology Direct

Origins and Mechanisms of miRNAs and siRNAs

(2009) Richard W. Carthew et al.   CELL

Characterization of the endonuclease SSO2001 fromSulfolobus solfataricusP2

(2009) Dong Han et al.   FEBS LETTERS

Approaching the Asymptote: 20 Years Later

(2009) Ruslan Medzhitov   IMMUNITY

The origins of the Rag genes—From transposition to V(D)J recombination

(2009) Sebastian D. Fugmann   SEMINARS IN IMMUNOLOGY

Structural Basis for DNase Activity of a Conserved Protein Implicated in CRISPR-Mediated Genome Defense

(2009) Blake Wiedenheft et al.   STRUCTURE

CRISPR-based adaptive and heritable immunity in prokaryotes

(2009) John van der Oost et al.   TRENDS IN BIOCHEMICAL SCIENCES

A hidden reservoir of integrative elements is the major source of recently acquired foreign genes and ORFans in archaeal and bacterial genomes

(2009) Diego Cortez et al.   GENOME BIOLOGY

Molluscan mobile elements similar to the vertebrate Recombination-Activating Genes

(2008) Yuri Panchin et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Retroviral promoters in the human genome

(2008) Andrew B. Conley et al.   BIOINFORMATICS

RNA recognition motifs: boring? Not quite

(2008) Antoine Cléry et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

A Novel Family of Sequence-specific Endoribonucleases Associated with the Clustered Regularly Interspaced Short Palindromic Repeats

(2008) Natalia Beloglazova et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A universal classification of eukaryotic transposable elements implemented in Repbase

(2008) Vladimir V. Kapitonov et al.   NATURE REVIEWS GENETICS

Transposition of a reconstructed Harbinger element in human cells and functional homology with two transposon-derived cellular genes

(2008) L. Sinzelle et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Small CRISPR RNAs Guide Antiviral Defense in Prokaryotes

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

Origins and evolution of eukaryotic RNA interference

(2008) S SHABALINA et al.   TRENDS IN ECOLOGY & EVOLUTION