Characterization of the CRISPR/Cas subtype I-A system of the hyperthermophilic crenarchaeon Thermoproteus tenax.

PubWeight™: 1.35‹?› | Rank: Top 10%

🔗 View Article (PMC 3347209)

Published in J Bacteriol on March 09, 2012

Authors

André Plagens1, Britta Tjaden, Anna Hagemann, Lennart Randau, Reinhard Hensel

Author Affiliations

1: Institute of Biology, Microbiology I, University of Duisburg-Essen, Essen, Germany. andre.plagens@mpi-marburg.mpg.de

Articles citing this

Unravelling the structural and mechanistic basis of CRISPR-Cas systems. Nat Rev Microbiol (2014) 3.48

Cas1-Cas2 complex formation mediates spacer acquisition during CRISPR-Cas adaptive immunity. Nat Struct Mol Biol (2014) 2.21

CRISPR interference: a structural perspective. Biochem J (2013) 1.48

Characterization of CRISPR RNA processing in Clostridium thermocellum and Methanococcus maripaludis. Nucleic Acids Res (2012) 1.41

Detection and characterization of spacer integration intermediates in type I-E CRISPR-Cas system. Nucleic Acids Res (2014) 1.40

Adapting to new threats: the generation of memory by CRISPR-Cas immune systems. Mol Microbiol (2014) 1.29

Function and regulation of clustered regularly interspaced short palindromic repeats (CRISPR) / CRISPR associated (Cas) systems. Viruses (2012) 1.27

The CRISPR associated protein Cas4 Is a 5' to 3' DNA exonuclease with an iron-sulfur cluster. PLoS One (2012) 1.22

An archaeal CRISPR type III-B system exhibiting distinctive RNA targeting features and mediating dual RNA and DNA interference. Nucleic Acids Res (2014) 1.19

The CRISPR-associated gene cas2 of Legionella pneumophila is required for intracellular infection of amoebae. MBio (2013) 1.18

Pervasive generation of oppositely oriented spacers during CRISPR adaptation. Nucleic Acids Res (2014) 1.14

In vivo protein interactions and complex formation in the Pectobacterium atrosepticum subtype I-F CRISPR/Cas System. PLoS One (2012) 1.07

Fitting CRISPR-associated Cas3 into the helicase family tree. Curr Opin Struct Biol (2014) 1.04

Sequences spanning the leader-repeat junction mediate CRISPR adaptation to phage in Streptococcus thermophilus. Nucleic Acids Res (2015) 1.03

Small RNAs for defence and regulation in archaea. Extremophiles (2012) 0.99

In vitro assembly and activity of an archaeal CRISPR-Cas type I-A Cascade interference complex. Nucleic Acids Res (2014) 0.98

Genetic determinants of PAM-dependent DNA targeting and pre-crRNA processing in Sulfolobus islandicus. RNA Biol (2013) 0.96

Programmable plasmid interference by the CRISPR-Cas system in Thermococcus kodakarensis. RNA Biol (2013) 0.96

Staphylococcus epidermidis Csm1 is a 3'-5' exonuclease. Nucleic Acids Res (2013) 0.96

Toroidal structure and DNA cleavage by the CRISPR-associated [4Fe-4S] cluster containing Cas4 nuclease SSO0001 from Sulfolobus solfataricus. J Am Chem Soc (2013) 0.95

Double-strand DNA end-binding and sliding of the toroidal CRISPR-associated protein Csn2. Nucleic Acids Res (2013) 0.95

Modulating the Cascade architecture of a minimal Type I-F CRISPR-Cas system. Nucleic Acids Res (2016) 0.94

Two CRISPR-Cas systems in Methanosarcina mazei strain Gö1 display common processing features despite belonging to different types I and III. RNA Biol (2013) 0.90

Structure of the archaeal Cascade subunit Csa5: relating the small subunits of CRISPR effector complexes. RNA Biol (2013) 0.90

Snapshot of haloarchaeal tailed virus genomes. RNA Biol (2013) 0.87

CRISPR-mediated defense mechanisms in the hyperthermophilic archaeal genus Sulfolobus. RNA Biol (2013) 0.87

Exploiting CRISPR/Cas: interference mechanisms and applications. Int J Mol Sci (2013) 0.86

Three CRISPR-Cas immune effector complexes coexist in Pyrococcus furiosus. RNA (2015) 0.86

Role of the Streptococcus mutans CRISPR-Cas systems in immunity and cell physiology. J Bacteriol (2014) 0.85

Comparative analysis ofCas6b processing and CRISPR RNA stability. RNA Biol (2013) 0.83

The CRISPR-associated Cas4 protein Pcal_0546 from Pyrobaculum calidifontis contains a [2Fe-2S] cluster: crystal structure and nuclease activity. Nucleic Acids Res (2014) 0.82

DNA targeting by the type I-G and type I-A CRISPR-Cas systems of Pyrococcus furiosus. Nucleic Acids Res (2015) 0.82

Target DNA recognition and cleavage by a reconstituted Type I-G CRISPR-Cas immune effector complex. Extremophiles (2016) 0.81

Structure Principles of CRISPR-Cas Surveillance and Effector Complexes. Annu Rev Biophys (2015) 0.80

I can see CRISPR now, even when phage are gone: a view on alternative CRISPR-Cas functions from the prokaryotic envelope. Curr Opin Infect Dis (2015) 0.80

Casposon integration shows strong target site preference and recapitulates protospacer integration by CRISPR-Cas systems. Nucleic Acids Res (2016) 0.76

Global transcription of CRISPR loci in the human oral cavity. BMC Genomics (2015) 0.76

Effects of Argonaute on Gene Expression in Thermus thermophilus. PLoS One (2015) 0.76

DNA binding properties of the small cascade subunit Csa5. PLoS One (2014) 0.75

Polymorphism of CRISPR shows separated natural groupings of Shigella subtypes and evidence of horizontal transfer of CRISPR. RNA Biol (2015) 0.75

Survival and Evolution of CRISPR-Cas System in Prokaryotes and Its Applications. Front Immunol (2016) 0.75

Articles cited by this

Basic local alignment search tool. J Mol Biol (1990) 659.07

Clustal W and Clustal X version 2.0. Bioinformatics (2007) 126.47

The Pfam protein families database. Nucleic Acids Res (2007) 30.53

CRISPR provides acquired resistance against viruses in prokaryotes. Science (2007) 29.74

CRISPR/Cas, the immune system of bacteria and archaea. Science (2010) 18.72

Small CRISPR RNAs guide antiviral defense in prokaryotes. Science (2008) 17.79

Evolution and classification of the CRISPR-Cas systems. Nat Rev Microbiol (2011) 17.11

CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats. Nucleic Acids Res (2007) 15.56

Identification of genes that are associated with DNA repeats in prokaryotes. Mol Microbiol (2002) 14.67

Phage response to CRISPR-encoded resistance in Streptococcus thermophilus. J Bacteriol (2007) 13.67

The TIGRFAMs database of protein families. Nucleic Acids Res (2003) 13.59

The Jpred 3 secondary structure prediction server. Nucleic Acids Res (2008) 13.32

CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA. Science (2008) 11.82

A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes. PLoS Comput Biol (2005) 11.82

A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action. Biol Direct (2006) 11.31

RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex. Cell (2009) 11.12

Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements. J Mol Evol (2005) 11.05

CDD: specific functional annotation with the Conserved Domain Database. Nucleic Acids Res (2008) 10.73

Short motif sequences determine the targets of the prokaryotic CRISPR defence system. Microbiology (2009) 10.67

Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin. Microbiology (2005) 10.20

CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies. Microbiology (2005) 9.83

The Vienna RNA websuite. Nucleic Acids Res (2008) 9.02

CRISPR-based adaptive immune systems. Curr Opin Microbiol (2011) 8.07

CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea. Nat Rev Genet (2010) 7.47

The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats. BMC Bioinformatics (2007) 7.34

Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes. Genes Dev (2008) 7.09

Identification of 86 candidates for small non-messenger RNAs from the archaeon Archaeoglobus fulgidus. Proc Natl Acad Sci U S A (2002) 7.04

Diversity, activity, and evolution of CRISPR loci in Streptococcus thermophilus. J Bacteriol (2007) 7.00

Interference by clustered regularly interspaced short palindromic repeat (CRISPR) RNA is governed by a seed sequence. Proc Natl Acad Sci U S A (2011) 6.89

Structural basis for CRISPR RNA-guided DNA recognition by Cascade. Nat Struct Mol Biol (2011) 6.02

Self versus non-self discrimination during CRISPR RNA-directed immunity. Nature (2010) 5.89

CRISPR-based adaptive and heritable immunity in prokaryotes. Trends Biochem Sci (2009) 5.54

Structures of the RNA-guided surveillance complex from a bacterial immune system. Nature (2011) 4.92

The CRISPR system: small RNA-guided defense in bacteria and archaea. Mol Cell (2010) 4.60

Identification of novel non-coding RNAs as potential antisense regulators in the archaeon Sulfolobus solfataricus. Mol Microbiol (2005) 4.52

Prokaryotic silencing (psi)RNAs in Pyrococcus furiosus. RNA (2008) 4.46

A DNA repair system specific for thermophilic Archaea and bacteria predicted by genomic context analysis. Nucleic Acids Res (2002) 4.39

Essential features and rational design of CRISPR RNAs that function with the Cas RAMP module complex to cleave RNAs. Mol Cell (2012) 3.96

Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems. Biol Direct (2011) 3.92

Long stretches of short tandem repeats are present in the largest replicons of the Archaea Haloferax mediterranei and Haloferax volcanii and could be involved in replicon partitioning. Mol Microbiol (1995) 3.92

Cas3 is a single-stranded DNA nuclease and ATP-dependent helicase in the CRISPR/Cas immune system. EMBO J (2011) 3.81

Interaction of the Cas6 riboendonuclease with CRISPR RNAs: recognition and cleavage. Structure (2011) 3.58

Structural basis for DNase activity of a conserved protein implicated in CRISPR-mediated genome defense. Structure (2009) 3.47

CRISPR families of the crenarchaeal genus Sulfolobus: bidirectional transcription and dynamic properties. Mol Microbiol (2009) 3.37

Interaction between bacteriophage DMS3 and host CRISPR region inhibits group behaviors of Pseudomonas aeruginosa. J Bacteriol (2008) 3.32

A novel family of sequence-specific endoribonucleases associated with the clustered regularly interspaced short palindromic repeats. J Biol Chem (2008) 3.00

Structural and functional characterization of an archaeal clustered regularly interspaced short palindromic repeat (CRISPR)-associated complex for antiviral defense (CASCADE). J Biol Chem (2011) 2.86

A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair. Mol Microbiol (2010) 2.70

Binding and cleavage of CRISPR RNA by Cas6. RNA (2010) 2.67

Self-targeting by CRISPR: gene regulation or autoimmunity? Trends Genet (2010) 2.62

Genetic architecture of thermal adaptation in Escherichia coli. Proc Natl Acad Sci U S A (2001) 2.61

H-NS-mediated repression of CRISPR-based immunity in Escherichia coli K12 can be relieved by the transcription activator LeuO. Mol Microbiol (2010) 2.55

In vitro folding of inclusion body proteins. FASEB J (1996) 2.40

Chemolithoautotrophic metabolism of anaerobic extremely thermophilic archaebacteria. Nature (1983) 2.38

A multicopy plasmid of the extremely thermophilic archaeon Sulfolobus effects its transfer to recipients by mating. J Bacteriol (1995) 2.17

Characterization of the endonuclease SSO2001 from Sulfolobus solfataricus P2. FEBS Lett (2009) 2.16

Non-identity-mediated CRISPR-bacteriophage interaction mediated via the Csy and Cas3 proteins. J Bacteriol (2011) 2.02

Computational approaches to identify leucine zippers. Nucleic Acids Res (1998) 1.99

Structural and biochemical analysis of nuclease domain of clustered regularly interspaced short palindromic repeat (CRISPR)-associated protein 3 (Cas3). J Biol Chem (2011) 1.94

CRISPRcompar: a website to compare clustered regularly interspaced short palindromic repeats. Nucleic Acids Res (2008) 1.89

Insight into microevolution of Yersinia pestis by clustered regularly interspaced short palindromic repeats. PLoS One (2008) 1.86

SSO1450--a CAS1 protein from Sulfolobus solfataricus P2 with high affinity for RNA and DNA. FEBS Lett (2009) 1.80

Advances in refolding of proteins produced in E. coli. Curr Opin Biotechnol (1998) 1.75

The HD domain of the Escherichia coli tRNA nucleotidyltransferase has 2',3'-cyclic phosphodiesterase, 2'-nucleotidase, and phosphatase activities. J Biol Chem (2004) 1.66

CRISPI: a CRISPR interactive database. Bioinformatics (2009) 1.63

Chromosome evolution in the Thermotogales: large-scale inversions and strain diversification of CRISPR sequences. J Bacteriol (2006) 1.57

RNA in defense: CRISPRs protect prokaryotes against mobile genetic elements. Cold Spring Harb Perspect Biol (2012) 1.47

Identification of novel restriction endonuclease-like fold families among hypothetical proteins. Nucleic Acids Res (2005) 1.44

Responses of hyperthermophilic crenarchaea to UV irradiation. Genome Biol (2007) 1.41

Microarray analysis of the hyperthermophilic archaeon Pyrococcus furiosus exposed to gamma irradiation. Extremophiles (2006) 1.31

Helicase dissociation and annealing of RNA-DNA hybrids by Escherichia coli Cas3 protein. Biochem J (2011) 1.30

Morphology and genome organization of the virus PSV of the hyperthermophilic archaeal genera Pyrobaculum and Thermoproteus: a novel virus family, the Globuloviridae. Virology (2004) 1.23

Interference with histidyl-tRNA synthetase by a CRISPR spacer sequence as a factor in the evolution of Pelobacter carbinolicus. BMC Evol Biol (2010) 1.23

Analysis of the three Yersinia pestis CRISPR loci provides new tools for phylogenetic studies and possibly for the investigation of ancient DNA. Adv Exp Med Biol (2007) 1.22

Oxidative stress protection and the repair response to hydrogen peroxide in the hyperthermophilic archaeon Pyrococcus furiosus and in related species. Arch Microbiol (2010) 1.13

Structure of a CRISPR-associated protein Cas2 from Desulfovibrio vulgaris. Acta Crystallogr Sect F Struct Biol Cryst Commun (2010) 1.10

Using CRISPRs as a metagenomic tool to identify microbial hosts of a diffuse flow hydrothermal vent viral assemblage. FEMS Microbiol Ecol (2011) 1.03

Carbohydrate metabolism in Thermoproteus tenax: in vivo utilization of the non-phosphorylative Entner-Doudoroff pathway and characterization of its first enzyme, glucose dehydrogenase. Arch Microbiol (1997) 1.03

The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota. PLoS One (2011) 0.95

DNA microarray analysis of central carbohydrate metabolism: glycolytic/gluconeogenic carbon switch in the hyperthermophilic crenarchaeum Thermoproteus tenax. J Bacteriol (2008) 0.92

Metagenomic analyses of novel viruses and plasmids from a cultured environmental sample of hyperthermophilic neutrophiles. Environ Microbiol (2010) 0.89

Transcriptional responses of the deep-sea hyperthermophile Methanocaldococcus jannaschii under shifting extremes of temperature and pressure. Extremophiles (2007) 0.85

Remarkable sequence signatures in archaeal genomes. Archaea (2003) 0.80

Articles by these authors

A korarchaeal genome reveals insights into the evolution of the Archaea. Proc Natl Acad Sci U S A (2008) 2.16

Characterization of CRISPR RNA processing in Clostridium thermocellum and Methanococcus maripaludis. Nucleic Acids Res (2012) 1.41

The semi-phosphorylative Entner-Doudoroff pathway in hyperthermophilic archaea: a re-evaluation. Biochem J (2005) 1.30

Role of intestinal microbiota in transformation of bismuth and other metals and metalloids into volatile methyl and hydride derivatives in humans and mice. Appl Environ Microbiol (2008) 1.26

The appearance of pyrrolysine in tRNAHis guanylyltransferase by neutral evolution. Proc Natl Acad Sci U S A (2009) 1.20

Reconstruction of the central carbohydrate metabolism of Thermoproteus tenax by use of genomic and biochemical data. J Bacteriol (2004) 1.17

Mechanism of the Schiff base forming fructose-1,6-bisphosphate aldolase: structural analysis of reaction intermediates. Biochemistry (2005) 1.14

RNA processing in the minimal organism Nanoarchaeum equitans. Genome Biol (2012) 1.07

The hexokinase of the hyperthermophile Thermoproteus tenax. ATP-dependent hexokinases and ADP-dependent glucokinases, teo alternatives for glucose phosphorylation in Archaea. J Biol Chem (2003) 1.07

The central carbohydrate metabolism of the hyperthermophilic crenarchaeote Thermoproteus tenax: pathways and insights into their regulation. Arch Microbiol (2008) 1.07

Volatilisation of metals and metalloids by the microbial population of an alluvial soil. Syst Appl Microbiol (2006) 1.07

Phosphoenolpyruvate synthetase and pyruvate, phosphate dikinase of Thermoproteus tenax: key pieces in the puzzle of archaeal carbohydrate metabolism. Mol Microbiol (2006) 1.06

3'-5' tRNAHis guanylyltransferase in bacteria. FEBS Lett (2010) 1.04

CC1, a novel crenarchaeal DNA binding protein. J Bacteriol (2006) 1.03

A complex of Cas proteins 5, 6, and 7 is required for the biogenesis and stability of clustered regularly interspaced short palindromic repeats (crispr)-derived rnas (crrnas) in Haloferax volcanii. J Biol Chem (2014) 1.02

Volatilisation of metals and metalloids: an inherent feature of methanoarchaea? Syst Appl Microbiol (2008) 1.01

Small RNAs for defence and regulation in archaea. Extremophiles (2012) 0.99

In vitro assembly and activity of an archaeal CRISPR-Cas type I-A Cascade interference complex. Nucleic Acids Res (2014) 0.98

Crystal structure of an archaeal class I aldolase and the evolution of (betaalpha)8 barrel proteins. J Biol Chem (2003) 0.96

The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota. PLoS One (2011) 0.95

Structural Basis of allosteric regulation and substrate specificity of the non-phosphorylating glyceraldehyde 3-Phosphate dehydrogenase from Thermoproteus tenax. J Mol Biol (2004) 0.94

DNA microarray analysis of central carbohydrate metabolism: glycolytic/gluconeogenic carbon switch in the hyperthermophilic crenarchaeum Thermoproteus tenax. J Bacteriol (2008) 0.92

Change of tRNA identity leads to a divergent orthogonal histidyl-tRNA synthetase/tRNAHis pair. Nucleic Acids Res (2010) 0.92

RNA-Seq analyses reveal the order of tRNA processing events and the maturation of C/D box and CRISPR RNAs in the hyperthermophile Methanopyrus kandleri. Nucleic Acids Res (2013) 0.90

Crystal structure and assembly of the functional Nanoarchaeum equitans tRNA splicing endonuclease. Nucleic Acids Res (2009) 0.89

Transfer RNA processing in archaea: unusual pathways and enzymes. FEBS Lett (2010) 0.89

Exploiting CRISPR/Cas: interference mechanisms and applications. Int J Mol Sci (2013) 0.86

Escherichia coli glutamyl-tRNA reductase. Trapping the thioester intermediate. J Biol Chem (2002) 0.86

Structure and function of a regulated archaeal triosephosphate isomerase adapted to high temperature. J Mol Biol (2004) 0.84

Aminoacyl-tRNA synthesis by pre-translational amino acid modification. RNA Biol (2004) 0.83

Comparative analysis ofCas6b processing and CRISPR RNA stability. RNA Biol (2013) 0.83

The crystal structure of the allosteric non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase from the hyperthermophilic archaeum Thermoproteus tenax. J Biol Chem (2002) 0.82

The first prokaryotic trehalose synthase complex identified in the hyperthermophilic crenarchaeon Thermoproteus tenax. PLoS One (2013) 0.81

Connection between multimetal(loid) methylation in methanoarchaea and central intermediates of methanogenesis. Appl Environ Microbiol (2011) 0.79

Production of toxic volatile trimethylbismuth by the intestinal microbiota of mice. J Toxicol (2011) 0.78

RNA-Seq analyses reveal CRISPR RNA processing and regulation patterns. Biochem Soc Trans (2013) 0.78

C/D box sRNA, CRISPR RNA and tRNA processing in an archaeon with a minimal fragmented genome. Biochem Soc Trans (2013) 0.77

Structure of the corrinoid:coenzyme M methyltransferase MtaA from Methanosarcina mazei. Acta Crystallogr D Biol Crystallogr (2012) 0.77

Toxicity of Methylated Bismuth Compounds Produced by Intestinal Microorganisms to Bacteroides thetaiotaomicron, a Member of the Physiological Intestinal Microbiota. J Toxicol (2011) 0.76

Substrate generation for endonucleases of CRISPR/cas systems. J Vis Exp (2012) 0.75

Effect of octamethylcyclotetrasiloxane on methylation of bismuth by Methanosarcina barkeri. Appl Environ Microbiol (2006) 0.75

In Vitro Co-reconstitution of Cas Protein Complexes. Methods Mol Biol (2015) 0.75