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Volumn 7, Issue 11, 2012, Pages

Target Motifs Affecting Natural Immunity by a Constitutive CRISPR-Cas System in Escherichia coli

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; NUCLEOTIDE;

EID: 84869997748     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0050797     Document Type: Article
Times cited : (50)

References (47)
  • 1
    • 34250662138 scopus 로고    scopus 로고
    • The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats
    • Grissa I, Vergnaud G, Pourcel C, (2007) The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats. BMC Bioinformatics 8: 172.
    • (2007) BMC Bioinformatics , vol.8 , pp. 172
    • Grissa, I.1    Vergnaud, G.2    Pourcel, C.3
  • 2
    • 35748974534 scopus 로고    scopus 로고
    • Evolutionary conservation of sequence and secondary structures in CRISPR repeats
    • Kunin V, Sorek R, Hugenholtz P, (2007) Evolutionary conservation of sequence and secondary structures in CRISPR repeats. Genome Biology 8: R61.
    • (2007) Genome Biology , vol.8
    • Kunin, V.1    Sorek, R.2    Hugenholtz, P.3
  • 3
    • 0034034401 scopus 로고    scopus 로고
    • Biological significance of a family of regularly spaced repeats in the genomes of Archaea, Bacteria and mitochondria
    • Mojica FJ, Díez-Villaseñor C, Soria E, Juez G, (2000) Biological significance of a family of regularly spaced repeats in the genomes of Archaea, Bacteria and mitochondria. Mol Microbiol 36: 244-246.
    • (2000) Mol Microbiol , vol.36 , pp. 244-246
    • Mojica, F.J.1    Díez-Villaseñor, C.2    Soria, E.3    Juez, G.4
  • 4
    • 0036267740 scopus 로고    scopus 로고
    • Identification of genes that are associated with DNA repeats in prokaryotes
    • Jansen R, Embden JD, Gaastra W, Schouls LM, (2002) Identification of genes that are associated with DNA repeats in prokaryotes. Mol Microbiol 43: 1565-1575.
    • (2002) Mol Microbiol , vol.43 , pp. 1565-1575
    • Jansen, R.1    Embden, J.D.2    Gaastra, W.3    Schouls, L.M.4
  • 5
    • 34047118522 scopus 로고    scopus 로고
    • CRISPR provides acquired resistance against viruses in prokaryotes
    • Barrangou R, Fremaux C, Deveau H, Richards M, Boyaval P, et al. (2007) CRISPR provides acquired resistance against viruses in prokaryotes. Science 315: 1709-1712.
    • (2007) Science , vol.315 , pp. 1709-1712
    • Barrangou, R.1    Fremaux, C.2    Deveau, H.3    Richards, M.4    Boyaval, P.5
  • 6
    • 84864864464 scopus 로고    scopus 로고
    • Molecular memory of prior infections activates the CRISPR/Cas adaptive bacterial immunity system
    • Datsenko KA, Pougach K, Tikhonov A, Wanner BL, Severinov K, et al. (2012) Molecular memory of prior infections activates the CRISPR/Cas adaptive bacterial immunity system. Nat Commun 3: 945.
    • (2012) Nat Commun , vol.3 , pp. 945
    • Datsenko, K.A.1    Pougach, K.2    Tikhonov, A.3    Wanner, B.L.4    Severinov, K.5
  • 7
    • 84866023604 scopus 로고    scopus 로고
    • Selective and hyperactive uptake of foreign DNA by adaptive immune systems of an archaeon via two distinct mechanisms
    • Erdmann S, Garrett RA, (2012) Selective and hyperactive uptake of foreign DNA by adaptive immune systems of an archaeon via two distinct mechanisms. Mol Microbiol 85: 1044-1056.
    • (2012) Mol Microbiol , vol.85 , pp. 1044-1056
    • Erdmann, S.1    Garrett, R.A.2
  • 9
    • 84861639567 scopus 로고    scopus 로고
    • Proteins and DNA elements essential for the CRISPR adaptation process in Escherichia coli
    • Yosef I, Goren MG, Qimron U, (2012) Proteins and DNA elements essential for the CRISPR adaptation process in Escherichia coli. Nucleic Acids Res 40: 5569-5576.
    • (2012) Nucleic Acids Res , vol.40 , pp. 5569-5576
    • Yosef, I.1    Goren, M.G.2    Qimron, U.3
  • 10
    • 34248400310 scopus 로고    scopus 로고
    • A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes
    • Haft DH, Selengut J, Mongodin EF, Nelson KE, (2005) A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes. Plos Comput Biol 1: 474-483.
    • (2005) Plos Comput Biol , vol.1 , pp. 474-483
    • Haft, D.H.1    Selengut, J.2    Mongodin, E.F.3    Nelson, K.E.4
  • 11
    • 34248374277 scopus 로고    scopus 로고
    • 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
    • Makarova KS, Grishin NV, Shabalina SA, Wolf YI, Koonin EV, (2006) 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 1: 7.
    • (2006) Biol Direct , vol.1 , pp. 7
    • Makarova, K.S.1    Grishin, N.V.2    Shabalina, S.A.3    Wolf, Y.I.4    Koonin, E.V.5
  • 13
    • 84857041376 scopus 로고    scopus 로고
    • Innate and adaptive immunity in bacteria: mechanisms of programmed genetic variation to fight bacteriophages
    • Bikard D, Marraffini LA, (2012) Innate and adaptive immunity in bacteria: mechanisms of programmed genetic variation to fight bacteriophages. Curr Opin Immunol 24: 15-20.
    • (2012) Curr Opin Immunol , vol.24 , pp. 15-20
    • Bikard, D.1    Marraffini, L.A.2
  • 14
    • 84857097177 scopus 로고    scopus 로고
    • RNA-guided genetic silencing systems in bacteria and archaea
    • Wiedenheft B, Sternberg SH, Doudna JA, (2012) RNA-guided genetic silencing systems in bacteria and archaea. Nature 482: 331-338.
    • (2012) Nature , vol.482 , pp. 331-338
    • Wiedenheft, B.1    Sternberg, S.H.2    Doudna, J.A.3
  • 17
    • 77956628107 scopus 로고    scopus 로고
    • Transcription, processing and function of CRISPR cassettes in Escherichia coli
    • Pougach K, Semenova E, Bogdanova E, Datsenko KA, Djordjevic M, et al. (2010) Transcription, processing and function of CRISPR cassettes in Escherichia coli. Mol Microbiol 77: 1367-1379.
    • (2010) Mol Microbiol , vol.77 , pp. 1367-1379
    • Pougach, K.1    Semenova, E.2    Bogdanova, E.3    Datsenko, K.A.4    Djordjevic, M.5
  • 18
    • 77949398275 scopus 로고    scopus 로고
    • Identification and characterization of E. coli CRISPR-cas promoters and their silencing by H-NS
    • Pul U, Wurm R, Arslan Z, Geissen R, Hofmann N, et al. (2010) Identification and characterization of E. coli CRISPR-cas promoters and their silencing by H-NS. Mol Microbiol 75: 1495-1512.
    • (2010) Mol Microbiol , vol.75 , pp. 1495-1512
    • Pul, U.1    Wurm, R.2    Arslan, Z.3    Geissen, R.4    Hofmann, N.5
  • 19
    • 77956621546 scopus 로고    scopus 로고
    • H-NS-mediated repression of CRISPR-based immunity in Escherichia coli K12 can be relieved by the transcription activator LeuO
    • Westra ER, Pul U, Heidrich N, Jore MM, Lundgren M, et al. (2010) H-NS-mediated repression of CRISPR-based immunity in Escherichia coli K12 can be relieved by the transcription activator LeuO. Mol Microbiol 77: 1380-1393.
    • (2010) Mol Microbiol , vol.77 , pp. 1380-1393
    • Westra, E.R.1    Pul, U.2    Heidrich, N.3    Jore, M.M.4    Lundgren, M.5
  • 20
    • 74949137952 scopus 로고    scopus 로고
    • A single-base resolution map of an archaeal transcriptome
    • Wurtzel O, Sapra R, Chen F, Zhu Y, Simmons BA, et al. (2010) A single-base resolution map of an archaeal transcriptome. Genome Res 20: 133-141.
    • (2010) Genome Res , vol.20 , pp. 133-141
    • Wurtzel, O.1    Sapra, R.2    Chen, F.3    Zhu, Y.4    Simmons, B.A.5
  • 21
    • 23844505202 scopus 로고    scopus 로고
    • Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin
    • Bolotin A, Quinquis B, Sorokin A, Ehrlich SD, (2005) Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin. Microbiology 151: 2551-2561.
    • (2005) Microbiology , vol.151 , pp. 2551-2561
    • Bolotin, A.1    Quinquis, B.2    Sorokin, A.3    Ehrlich, S.D.4
  • 22
    • 38949123143 scopus 로고    scopus 로고
    • Phage response to CRISPR-encoded resistance in Streptococcus thermophilus
    • Deveau H, Barrangou R, Garneau JE, Labonte J, Fremaux C, et al. (2008) Phage response to CRISPR-encoded resistance in Streptococcus thermophilus. J Bacteriol 190: 1390-1400.
    • (2008) J Bacteriol , vol.190 , pp. 1390-1400
    • Deveau, H.1    Barrangou, R.2    Garneau, J.E.3    Labonte, J.4    Fremaux, C.5
  • 23
    • 38949214103 scopus 로고    scopus 로고
    • Diversity, activity, and evolution of CRISPR loci in Streptococcus thermophilus
    • Horvath P, Romero DA, Coute-Monvoisin AC, Richards M, Deveau H, et al. (2008) Diversity, activity, and evolution of CRISPR loci in Streptococcus thermophilus. J Bacteriol 190: 1401-1412.
    • (2008) J Bacteriol , vol.190 , pp. 1401-1412
    • Horvath, P.1    Romero, D.A.2    Coute-Monvoisin, A.C.3    Richards, M.4    Deveau, H.5
  • 24
    • 62949197925 scopus 로고    scopus 로고
    • CRISPR families of the crenarchaeal genus Sulfolobus: bidirectional transcription and dynamic properties
    • Lillestøl RK, Shah SA, Brügger K, Redder P, Phan H, et al. (2009) CRISPR families of the crenarchaeal genus Sulfolobus: bidirectional transcription and dynamic properties. Mol Microbiol 72: 259-272.
    • (2009) Mol Microbiol , vol.72 , pp. 259-272
    • Lillestøl, R.K.1    Shah, S.A.2    Brügger, K.3    Redder, P.4    Phan, H.5
  • 27
    • 78650244167 scopus 로고    scopus 로고
    • Dynamic properties of the Sulfolobus CRISPR/Cas and CRISPR/Cmr systems when challenged with vector-borne viral and plasmid genes and protospacers
    • Gudbergsdottir S, Deng L, Chen Z, Jensen JVK, Jensen LR, et al. (2011) Dynamic properties of the Sulfolobus CRISPR/Cas and CRISPR/Cmr systems when challenged with vector-borne viral and plasmid genes and protospacers. Mol Microbiol 79: 35-49.
    • (2011) Mol Microbiol , vol.79 , pp. 35-49
    • Gudbergsdottir, S.1    Deng, L.2    Chen, Z.3    Jensen, J.V.K.4    Jensen, L.R.5
  • 28
    • 78149261827 scopus 로고    scopus 로고
    • The CRISPR/cas bacterial immune system cleaves bacteriophage and plasmid DNA
    • Garneau JE, Dupuis ME, Villion M, Romero DA, Barrangou R, et al. (2010) The CRISPR/cas bacterial immune system cleaves bacteriophage and plasmid DNA. Nature 468: 67-71.
    • (2010) Nature , vol.468 , pp. 67-71
    • Garneau, J.E.1    Dupuis, M.E.2    Villion, M.3    Romero, D.A.4    Barrangou, R.5
  • 29
    • 79959963663 scopus 로고    scopus 로고
    • Interference by clustered regularly interspaced short palindromic repeat (CRISPR) RNA is governed by a seed sequence
    • Semenova E, Jore MM, Datsenko KA, Semenova A, Westra ER, et al. (2011) Interference by clustered regularly interspaced short palindromic repeat (CRISPR) RNA is governed by a seed sequence. Proc Natl Acad Sci U S A 108: 10098-10103.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 10098-10103
    • Semenova, E.1    Jore, M.M.2    Datsenko, K.A.3    Semenova, A.4    Westra, E.R.5
  • 31
    • 84861996069 scopus 로고    scopus 로고
    • CRISPR immunity relies on the consecutive binding and degradation of negatively supercoiled invader DNA by Cascade and Cas3
    • Westra ER, van Erp PB, Künne T, Wong SP, Staals RH, et al. (2012) CRISPR immunity relies on the consecutive binding and degradation of negatively supercoiled invader DNA by Cascade and Cas3. Mol Cell 46: 595-605.
    • (2012) Mol Cell , vol.46 , pp. 595-605
    • Westra, E.R.1    van Erp, P.B.2    Künne, T.3    Wong, S.P.4    Staals, R.H.5
  • 32
    • 58149479228 scopus 로고    scopus 로고
    • Interaction between bacteriophage DMS3 and host CRISPR region inhibits group behaviors of Pseudomonas aeruginosa
    • Zegans ME, Wagner JC, Cady KC, Murphy DM, Hammond JH, et al. (2009) Interaction between bacteriophage DMS3 and host CRISPR region inhibits group behaviors of Pseudomonas aeruginosa. J Bacteriol 191: 210-219.
    • (2009) J Bacteriol , vol.191 , pp. 210-219
    • Zegans, M.E.1    Wagner, J.C.2    Cady, K.C.3    Murphy, D.M.4    Hammond, J.H.5
  • 33
    • 77956498326 scopus 로고    scopus 로고
    • Sequence- and structure-specific RNA processing by a CRISPR endonuclease
    • Haurwitz RE, Jinek M, Wiedenheft B, Zhou K, Doudna JA, (2010) Sequence- and structure-specific RNA processing by a CRISPR endonuclease. Science 329: 1355-1358.
    • (2010) Science , vol.329 , pp. 1355-1358
    • Haurwitz, R.E.1    Jinek, M.2    Wiedenheft, B.3    Zhou, K.4    Doudna, J.A.5
  • 34
    • 79960393323 scopus 로고    scopus 로고
    • Non-identity-mediated CRISPR-bacteriophage interaction mediated via the Csy and Cas3 proteins
    • Cady KC, O'Toole GA, (2011) Non-identity-mediated CRISPR-bacteriophage interaction mediated via the Csy and Cas3 proteins. J Bacteriol 193: 3433-3445.
    • (2011) J Bacteriol , vol.193 , pp. 3433-3445
    • Cady, K.C.1    O'Toole, G.A.2
  • 35
    • 79960029056 scopus 로고    scopus 로고
    • RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions
    • Wiedenheft B, van Dujin E, Bultema JB, Waghmare SP, Zhou K, et al. (2011) RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions. Proc Natl Acad Sci U S A 108: 10092-10097.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 10092-10097
    • Wiedenheft, B.1    van Dujin, E.2    Bultema, J.B.3    Waghmare, S.P.4    Zhou, K.5
  • 36
    • 84868143545 scopus 로고    scopus 로고
    • The CRISPR/Cas adaptive immune system of Pseudomonas aeruginosa mediates resistance to naturally occurring and engineered phages
    • Cady KC, Bondy-Denomy J, Heussler GE, Davidson AR, O'Toole GA, (2012) The CRISPR/Cas adaptive immune system of Pseudomonas aeruginosa mediates resistance to naturally occurring and engineered phages. J Bacteriol 194: 5728-5738.
    • (2012) J Bacteriol , vol.194 , pp. 5728-5738
    • Cady, K.C.1    Bondy-Denomy, J.2    Heussler, G.E.3    Davidson, A.R.4    O'Toole, G.A.5
  • 37
    • 84862190458 scopus 로고    scopus 로고
    • Csy4 relies on an unusual catalytic dyad to position and cleave CRISPR RNA
    • Haurwitz RE, Sternberg SH, Doudna JA, (2012) Csy4 relies on an unusual catalytic dyad to position and cleave CRISPR RNA. EMBO J 31: 2824-2832.
    • (2012) EMBO J , vol.31 , pp. 2824-2832
    • Haurwitz, R.E.1    Sternberg, S.H.2    Doudna, J.A.3
  • 39
    • 84869232519 scopus 로고    scopus 로고
    • Native tandem and ion mobility mass spectrometry highlight structural and modular similarities in CRISPR-associated protein complexes from Escherichia coli and Pseudomonas aeruginosa
    • doi: 10.1074/mcp.M112.02026
    • van Duijn E, Barbu IM, Barendregt A, Jore MM, Wiedenheft B, et al. (2012) Native tandem and ion mobility mass spectrometry highlight structural and modular similarities in CRISPR-associated protein complexes from Escherichia coli and Pseudomonas aeruginosa. Mol Cell Proteomics. doi: 10.1074/mcp.M112.02026.
    • (2012) Mol Cell Proteomics
    • van Duijn, E.1    Barbu, I.M.2    Barendregt, A.3    Jore, M.M.4    Wiedenheft, B.5
  • 40
    • 77956624244 scopus 로고    scopus 로고
    • The on-off switch of CRISPR immunity against phages in Escherichia coli
    • Mojica FJM, Díez-Villaseñor C, (2010) The on-off switch of CRISPR immunity against phages in Escherichia coli. Mol Microbiol 77: 1341-1345.
    • (2010) Mol Microbiol , vol.77 , pp. 1341-1345
    • Mojica, F.J.M.1    Díez-Villaseñor, C.2
  • 41
    • 77958603351 scopus 로고    scopus 로고
    • Complete genome sequence of Crohn's disease-associated adherent-invasive E. coli strain LF82
    • Miquel S, Peyretaillade E, Claret L, de Vallée A, Dossat C, et al. (2010) Complete genome sequence of Crohn's disease-associated adherent-invasive E. coli strain LF82. PLoS One 5: e12714.
    • (2010) PLoS One , vol.5
    • Miquel, S.1    Peyretaillade, E.2    Claret, L.3    de Vallée, A.4    Dossat, C.5
  • 42
    • 75749118174 scopus 로고    scopus 로고
    • Self versus non-self discrimination during CRISPR RNA-directed immunity
    • Marraffini LA, Sontheimer EJ, (2010) Self versus non-self discrimination during CRISPR RNA-directed immunity. Nature 463: 568-571.
    • (2010) Nature , vol.463 , pp. 568-571
    • Marraffini, L.A.1    Sontheimer, E.J.2
  • 43
    • 84866951828 scopus 로고    scopus 로고
    • An archaeal immune system can detect multiple protospacer adjacent motifs (PAMs) to target invader DNA
    • Fischer S, Maier LK, Stoll B, Brendel J, Fischer E, et al. (2012) An archaeal immune system can detect multiple protospacer adjacent motifs (PAMs) to target invader DNA. J Biol Chem 287: 33351-33363.
    • (2012) J Biol Chem , vol.287 , pp. 33351-33363
    • Fischer, S.1    Maier, L.K.2    Stoll, B.3    Brendel, J.4    Fischer, E.5
  • 44
    • 2542448032 scopus 로고    scopus 로고
    • Phylogeny of gamma-proteobacteria: resolution of one branch of the universal tree?
    • Broun JR, Volker C, (2004) Phylogeny of gamma-proteobacteria: resolution of one branch of the universal tree? BioEssays 26: 463-468.
    • (2004) BioEssays , vol.26 , pp. 463-468
    • Broun, J.R.1    Volker, C.2
  • 45
    • 0042195917 scopus 로고    scopus 로고
    • Enhancing Escherichia coli electrotransformation competency by invoking physiological adaptations to stress and modifying membrane integrity
    • Shi X, Karkut T, Alting-Mees M, Chamankhah M, Hemmingsen SM, et al. (2003) Enhancing Escherichia coli electrotransformation competency by invoking physiological adaptations to stress and modifying membrane integrity. Anal Biochem 320: 152-155.
    • (2003) Anal Biochem , vol.320 , pp. 152-155
    • Shi, X.1    Karkut, T.2    Alting-Mees, M.3    Chamankhah, M.4    Hemmingsen, S.M.5
  • 46
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3    Zhang, J.4    Zhang, Z.5


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