메뉴 건너뛰기




Volumn 4, Issue 4, 2019, Pages 656-662

Non-specific degradation of transcripts promotes plasmid clearance during type III-A CRISPR–Cas immunity

Author keywords

[No Author keywords available]

Indexed keywords

CAS10 NUCLEASE; CRISPR ASSOCIATED PROTEIN; CSM6 RNASE; RIBONUCLEASE; UNCLASSIFIED DRUG; BACTERIAL PROTEIN;

EID: 85060800960     PISSN: None     EISSN: 20585276     Source Type: Journal    
DOI: 10.1038/s41564-018-0353-x     Document Type: Article
Times cited : (116)

References (43)
  • 1
    • 34047118522 scopus 로고    scopus 로고
    • CRISPR provides acquired resistance against viruses in prokaryotes
    • COI: 1:CAS:528:DC%2BD2sXjtlWntb8%3D
    • Barrangou, R. et al. CRISPR provides acquired resistance against viruses in prokaryotes. Science 315, 1709–1712 (2007).
    • (2007) Science , vol.315 , pp. 1709-1712
    • Barrangou, R.1
  • 2
    • 57849137502 scopus 로고    scopus 로고
    • CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA
    • COI: 1:CAS:528:DC%2BD1cXhsFSmtrnE
    • Marraffini, L. A. & Sontheimer, E. J. CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA. Science 322, 1843–1845 (2008).
    • (2008) Science , vol.322 , pp. 1843-1845
    • Marraffini, L.A.1    Sontheimer, E.J.2
  • 3
    • 84866859751 scopus 로고    scopus 로고
    • Cas9–crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria
    • COI: 1:CAS:528:DC%2BC38XhsFCrsLfO
    • Gasiunas, G., Barrangou, R., Horvath, P. & Siksnys, V. Cas9–crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria. Proc. Natl Acad. Sci. USA 109, E2579–E2586 (2012).
    • (2012) Proc. Natl Acad. Sci. USA , vol.109 , pp. E2579-E2586
    • Gasiunas, G.1    Barrangou, R.2    Horvath, P.3    Siksnys, V.4
  • 4
    • 70449753811 scopus 로고    scopus 로고
    • RNA-guided RNA cleavage by a CRISPR RNA–Cas protein complex
    • COI: 1:CAS:528:DC%2BC3cXksFWksw%3D%3D
    • Hale, C. R. et al. RNA-guided RNA cleavage by a CRISPR RNA–Cas protein complex. Cell 139, 945–956 (2009).
    • (2009) Cell , vol.139 , pp. 945-956
    • Hale, C.R.1
  • 5
    • 84865070369 scopus 로고    scopus 로고
    • A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity
    • COI: 1:CAS:528:DC%2BC38XhtFOqsb3L
    • Jinek, M. et al. A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity. Science 337, 816–821 (2012).
    • (2012) Science , vol.337 , pp. 816-821
    • Jinek, M.1
  • 6
    • 84861996069 scopus 로고    scopus 로고
    • CRISPR immunity relies on the consecutive binding and degradation of negatively supercoiled invader DNA by Cascade and Cas3
    • COI: 1:CAS:528:DC%2BC38XlvFyisr4%3D
    • Westra, E. R. et al. CRISPR immunity relies on the consecutive binding and degradation of negatively supercoiled invader DNA by Cascade and Cas3. Mol. Cell 46, 595–605 (2012).
    • (2012) Mol. Cell , vol.46 , pp. 595-605
    • Westra, E.R.1
  • 7
    • 85020445396 scopus 로고    scopus 로고
    • Diversity, classification and evolution of CRISPR–Cas systems
    • COI: 1:CAS:528:DC%2BC2sXptlSgsrc%3D
    • Koonin, E. V., Makarova, K. S. & Zhang, F. Diversity, classification and evolution of CRISPR–Cas systems. Curr. Opin. Microbiol. 37, 67–78 (2017).
    • (2017) Curr. Opin. Microbiol. , vol.37 , pp. 67-78
    • Koonin, E.V.1    Makarova, K.S.2    Zhang, F.3
  • 8
    • 85028711003 scopus 로고    scopus 로고
    • Type III CRISPR–Cas systems: when DNA cleavage just isn’t enough
    • COI: 1:CAS:528:DC%2BC2sXhtlylsLbI
    • Pyenson, N. C. & Marraffini, L. A. Type III CRISPR–Cas systems: when DNA cleavage just isn’t enough. Curr. Opin. Microbiol. 37, 150–154 (2017).
    • (2017) Curr. Opin. Microbiol. , vol.37 , pp. 150-154
    • Pyenson, N.C.1    Marraffini, L.A.2
  • 9
    • 84912066885 scopus 로고    scopus 로고
    • RNA targeting by the type III-A CRISPR–cas csm complex of Thermus thermophilus
    • COI: 1:CAS:528:DC%2BC2cXhvV2nu7vM
    • Staals, R. H. et al. RNA targeting by the type III-A CRISPR–cas csm complex of Thermus thermophilus. Mol. Cell 56, 518–530 (2014).
    • (2014) Mol. Cell , vol.56 , pp. 518-530
    • Staals, R.H.1
  • 10
    • 84912096635 scopus 로고    scopus 로고
    • Programmable RNA shredding by the Type III-A CRISPR–Cas system of Streptococcus thermophilus
    • COI: 1:CAS:528:DC%2BC2cXhvV2nu7rI
    • Tamulaitis, G. et al. Programmable RNA shredding by the Type III-A CRISPR–Cas system of Streptococcus thermophilus. Mol. Cell 56, 506–517 (2014).
    • (2014) Mol. Cell , vol.56 , pp. 506-517
    • Tamulaitis, G.1
  • 11
    • 84856778250 scopus 로고    scopus 로고
    • Structure and mechanism of the CMR complex for CRISPR-mediated antiviral immunity
    • COI: 1:CAS:528:DC%2BC38XitFGhtrc%3D
    • Zhang, J. et al. Structure and mechanism of the CMR complex for CRISPR-mediated antiviral immunity. Mol. Cell 45, 303–313 (2012).
    • (2012) Mol. Cell , vol.45 , pp. 303-313
    • Zhang, J.1
  • 12
    • 84958965794 scopus 로고    scopus 로고
    • Bipartite recognition of target RNAs activates DNA cleavage by the Type III-B CRISPR–Cas system
    • COI: 1:CAS:528:DC%2BC28XhtVaku73E
    • Elmore, J. R. et al. Bipartite recognition of target RNAs activates DNA cleavage by the Type III-B CRISPR–Cas system. Genes Dev. 30, 447–459 (2016).
    • (2016) Genes Dev. , vol.30 , pp. 447-459
    • Elmore, J.R.1
  • 13
    • 84958974597 scopus 로고    scopus 로고
    • RNA-activated DNA cleavage by the Type III-B CRISPR–Cas effector complex
    • COI: 1:CAS:528:DC%2BC28XhtVaku7vM
    • Estrella, M. A., Kuo, F. T. & Bailey, S. RNA-activated DNA cleavage by the Type III-B CRISPR–Cas effector complex. Genes Dev. 30, 460–470 (2016).
    • (2016) Genes Dev. , vol.30 , pp. 460-470
    • Estrella, M.A.1    Kuo, F.T.2    Bailey, S.3
  • 14
    • 84963900721 scopus 로고    scopus 로고
    • Spatiotemporal control of type III-A CRISPR–Cas immunity: coupling DNA degradation with the target RNA recognition
    • COI: 1:CAS:528:DC%2BC28XmslShurk%3D
    • Kazlauskiene, M., Tamulaitis, G., Kostiuk, G., Venclovas, C. & Siksnys, V. Spatiotemporal control of type III-A CRISPR–Cas immunity: coupling DNA degradation with the target RNA recognition. Mol. Cell 62, 295–306 (2016).
    • (2016) Mol. Cell , vol.62 , pp. 295-306
    • Kazlauskiene, M.1    Tamulaitis, G.2    Kostiuk, G.3    Venclovas, C.4    Siksnys, V.5
  • 15
    • 84930085853 scopus 로고    scopus 로고
    • Co-transcriptional DNA and RNA cleavage during type III CRISPR–Cas immunity
    • COI: 1:CAS:528:DC%2BC2MXotVKnu7g%3D
    • Samai, P. et al. Co-transcriptional DNA and RNA cleavage during type III CRISPR–Cas immunity. Cell 161, 1164–1174 (2015).
    • (2015) Cell , vol.161 , pp. 1164-1174
    • Samai, P.1
  • 16
    • 84944449180 scopus 로고    scopus 로고
    • An updated evolutionary classification of CRISPR–Cas systems
    • COI: 1:CAS:528:DC%2BC2MXhsFKnsLfO
    • Makarova, K. S. et al. An updated evolutionary classification of CRISPR–Cas systems. Nat. Rev. Microbiol. 13, 722–736 (2015).
    • (2015) Nat. Rev. Microbiol. , vol.13 , pp. 722-736
    • Makarova, K.S.1
  • 17
    • 84958690222 scopus 로고    scopus 로고
    • Structural basis for the endoribonuclease activity of the type III-A CRISPR-associated protein Csm6
    • COI: 1:CAS:528:DC%2BC28XhtV2lsrrP
    • Niewoehner, O. & Jinek, M. Structural basis for the endoribonuclease activity of the type III-A CRISPR-associated protein Csm6. RNA 22, 318–329 (2016).
    • (2016) RNA , vol.22 , pp. 318-329
    • Niewoehner, O.1    Jinek, M.2
  • 18
    • 84966273607 scopus 로고    scopus 로고
    • Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling
    • COI: 1:CAS:528:DC%2BC28XhtVCqsLvE
    • Burroughs, A. M., Zhang, D., Schaffer, D. E., Iyer, L. M. & Aravind, L. Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling. Nucleic Acids Res. 43, 10633–10654 (2015).
    • (2015) Nucleic Acids Res. , vol.43 , pp. 10633-10654
    • Burroughs, A.M.1    Zhang, D.2    Schaffer, D.E.3    Iyer, L.M.4    Aravind, L.5
  • 19
    • 85021810724 scopus 로고    scopus 로고
    • A cyclic oligonucleotide signaling pathway in type III CRISPR–Cas systems
    • COI: 1:CAS:528:DC%2BC2sXhtlehur%2FF
    • Kazlauskiene, M., Kostiuk, G., Venclovas, C., Tamulaitis, G. & Siksnys, V. A cyclic oligonucleotide signaling pathway in type III CRISPR–Cas systems. Science 357, 605–609 (2017).
    • (2017) Science , vol.357 , pp. 605-609
    • Kazlauskiene, M.1    Kostiuk, G.2    Venclovas, C.3    Tamulaitis, G.4    Siksnys, V.5
  • 20
    • 85028735202 scopus 로고    scopus 로고
    • Type III CRISPR–Cas systems produce cyclic oligoadenylate second messengers
    • COI: 1:CAS:528:DC%2BC2sXhsVektrvK
    • Niewoehner, O. et al. Type III CRISPR–Cas systems produce cyclic oligoadenylate second messengers. Nature 548, 543–548 (2017).
    • (2017) Nature , vol.548 , pp. 543-548
    • Niewoehner, O.1
  • 21
    • 85052222007 scopus 로고    scopus 로고
    • Control of cyclic oligoadenylate synthesis in a type III CRISPR system
    • Rouillon, C., Athukoralage, J. S., Graham, S., Gruschow, S. & White, M. F. Control of cyclic oligoadenylate synthesis in a type III CRISPR system. eLife 7, e36734 (2018).
    • (2018) eLife , vol.7
    • Rouillon, C.1    Athukoralage, J.S.2    Graham, S.3    Gruschow, S.4    White, M.F.5
  • 22
    • 85054605583 scopus 로고    scopus 로고
    • Ring nucleases deactivate type III CRISPR ribonucleases by degrading cyclic oligoadenylate
    • Athukoralage, J. S., Rouillon, C., Graham, S., Gruschow, S. & White, M. F. Ring nucleases deactivate type III CRISPR ribonucleases by degrading cyclic oligoadenylate. Nature 562, 277–280 (2018).
    • (2018) Nature , vol.562 , pp. 277-280
    • Athukoralage, J.S.1    Rouillon, C.2    Graham, S.3    Gruschow, S.4    White, M.F.5
  • 23
    • 84958125062 scopus 로고    scopus 로고
    • Degradation of phage transcripts by CRISPR-associated RNases enables type III CRISPR–Cas immunity
    • COI: 1:CAS:528:DC%2BC28XitFCktrY%3D
    • Jiang, W., Samai, P. & Marraffini, L. A. Degradation of phage transcripts by CRISPR-associated RNases enables type III CRISPR–Cas immunity. Cell 164, 710–721 (2016).
    • (2016) Cell , vol.164 , pp. 710-721
    • Jiang, W.1    Samai, P.2    Marraffini, L.A.3
  • 24
    • 85052151253 scopus 로고    scopus 로고
    • The ribonuclease activity of Csm6 is required for anti-plasmid immunity by Type III-A CRISPR–Cas systems
    • Foster, K., Kalter, J., Woodside, W., Terns, R. M. & Terns, M. P. The ribonuclease activity of Csm6 is required for anti-plasmid immunity by Type III-A CRISPR–Cas systems. RNA Biol. 10.1080/15476286.2018.1493334(2018).
    • (2018) RNA Biol
    • Foster, K.1    Kalter, J.2    Woodside, W.3    Terns, R.M.4    Terns, M.P.5
  • 25
    • 84890935599 scopus 로고    scopus 로고
    • Genetic characterization of antiplasmid immunity through a type III-A CRISPR–CAS system
    • Hatoum-Aslan, A., Maniv, I., Samai, P. & Marraffini, L. A. Genetic characterization of antiplasmid immunity through a type III-A CRISPR–CAS system. J. Bacteriol. 196, 310–317 (2014).
    • (2014) J. Bacteriol. , vol.196 , pp. 310-317
    • Hatoum-Aslan, A.1    Maniv, I.2    Samai, P.3    Marraffini, L.A.4
  • 26
    • 77954058183 scopus 로고    scopus 로고
    • Presence of a classical RRM-fold palm domain in Thg1-type 3′–5′nucleic acid polymerases and the origin of the GGDEF and CRISPR polymerase domains
    • Anantharaman, V., Iyer, L. M. & Aravind, L. Presence of a classical RRM-fold palm domain in Thg1-type 3′–5′nucleic acid polymerases and the origin of the GGDEF and CRISPR polymerase domains. Biol. Direct. 5, 43 (2010).
    • (2010) Biol. Direct. , vol.5
    • Anantharaman, V.1    Iyer, L.M.2    Aravind, L.3
  • 27
    • 75749118174 scopus 로고    scopus 로고
    • Self versus non-self discrimination during CRISPR RNA-directed immunity
    • COI: 1:CAS:528:DC%2BC3cXltlCntQ%3D%3D
    • Marraffini, L. A. & Sontheimer, E. J. Self versus non-self discrimination during CRISPR RNA-directed immunity. Nature 463, 568–571 (2010).
    • (2010) Nature , vol.463 , pp. 568-571
    • Marraffini, L.A.1    Sontheimer, E.J.2
  • 28
    • 84874195392 scopus 로고    scopus 로고
    • A novel interference mechanism by a type IIIB CRISPR-Cmr module in Sulfolobus
    • COI: 1:CAS:528:DC%2BC3sXivFOksL4%3D
    • Deng, L., Garrett, R. A., Shah, S. A., Peng, X. & She, Q. A novel interference mechanism by a type IIIB CRISPR-Cmr module in Sulfolobus. Mol. Microbiol. 87, 1088–1099 (2013).
    • (2013) Mol. Microbiol. , vol.87 , pp. 1088-1099
    • Deng, L.1    Garrett, R.A.2    Shah, S.A.3    Peng, X.4    She, Q.5
  • 29
    • 84908456823 scopus 로고    scopus 로고
    • Conditional tolerance of temperate phages via transcription-dependent CRISPR–Cas targeting
    • COI: 1:CAS:528:DC%2BC2cXhvVCnu7vI
    • Goldberg, G. W., Jiang, W., Bikard, D. & Marraffini, L. A. Conditional tolerance of temperate phages via transcription-dependent CRISPR–Cas targeting. Nature 514, 633–637 (2014).
    • (2014) Nature , vol.514 , pp. 633-637
    • Goldberg, G.W.1    Jiang, W.2    Bikard, D.3    Marraffini, L.A.4
  • 30
    • 0020610320 scopus 로고
    • The toxic shock syndrome exotoxin structural gene is not detectably transmitted by a prophage
    • COI: 1:CAS:528:DyaL3sXlvVyrsLY%3D
    • Kreiswirth, B. N. et al. The toxic shock syndrome exotoxin structural gene is not detectably transmitted by a prophage. Nature 305, 709–712 (1983).
    • (1983) Nature , vol.305 , pp. 709-712
    • Kreiswirth, B.N.1
  • 31
    • 82555181642 scopus 로고    scopus 로고
    • Vectors for improved Tet repressor-dependent gradual gene induction or silencing in Staphylococcus aureus
    • COI: 1:CAS:528:DC%2BC3MXhs1GqtLvF
    • Helle, L. et al. Vectors for improved Tet repressor-dependent gradual gene induction or silencing in Staphylococcus aureus. Microbiology 157, 3314–3323 (2011).
    • (2011) Microbiology , vol.157 , pp. 3314-3323
    • Helle, L.1
  • 32
    • 85010341397 scopus 로고    scopus 로고
    • RNA and DNA targeting by a reconstituted Thermus thermophilus Type III-A CRISPR–Cas system
    • Liu, T. Y., Iavarone, A. T. & Doudna, J. A. RNA and DNA targeting by a reconstituted Thermus thermophilus Type III-A CRISPR–Cas system. PLoS ONE 12, e0170552 (2017).
    • (2017) PLoS ONE , vol.12
    • Liu, T.Y.1    Iavarone, A.T.2    Doudna, J.A.3
  • 33
    • 84940111503 scopus 로고    scopus 로고
    • Plasmid rolling-circle replication
    • Ruiz-Maso, J. A. et al. Plasmid rolling-circle replication. Microbiol Spectr. 3, PLAS-0035-2014 (2015).
    • (2015) Microbiol Spectr. , vol.3
    • Ruiz-Maso, J.A.1
  • 34
    • 84956762041 scopus 로고    scopus 로고
    • The CRISPR-associated Csx1 protein of Pyrococcus furiosus is an adenosine-specific endoribonuclease
    • COI: 1:CAS:528:DC%2BC28XpsFyhtLk%3D
    • Sheppard, N. F., Glover, C. V. 3rd, Terns, R. M. & Terns, M. P. The CRISPR-associated Csx1 protein of Pyrococcus furiosus is an adenosine-specific endoribonuclease. RNA 22, 216–224 (2016).
    • (2016) RNA , vol.22 , pp. 216-224
    • Sheppard, N.F.1    Glover, C.V.2    Terns, R.M.3    Terns, M.P.4
  • 35
    • 84878893667 scopus 로고    scopus 로고
    • Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing
    • COI: 1:CAS:528:DC%2BC3sXht1WjsLvF
    • Anantharaman, V., Makarova, K. S., Burroughs, A. M., Koonin, E. V. & Aravind, L. Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing. Biol. Direct. 8, 15 (2013).
    • (2013) Biol. Direct. , vol.8
    • Anantharaman, V.1    Makarova, K.S.2    Burroughs, A.M.3    Koonin, E.V.4    Aravind, L.5
  • 36
    • 84899132580 scopus 로고    scopus 로고
    • Staying alive: cell death in antiviral immunity
    • COI: 1:CAS:528:DC%2BC2cXntFGntbY%3D
    • Upton, J. W. & Chan, F. K. Staying alive: cell death in antiviral immunity. Mol. Cell 54, 273–280 (2014).
    • (2014) Mol. Cell , vol.54 , pp. 273-280
    • Upton, J.W.1    Chan, F.K.2
  • 37
    • 77951104433 scopus 로고    scopus 로고
    • Bacteriophage resistance mechanisms
    • COI: 1:CAS:528:DC%2BC3cXjvFarsrY%3D
    • Labrie, S. J., Samson, J. E. & Moineau, S. Bacteriophage resistance mechanisms. Nat. Rev. Microbiol. 8, 317–327 (2010).
    • (2010) Nat. Rev. Microbiol. , vol.8 , pp. 317-327
    • Labrie, S.J.1    Samson, J.E.2    Moineau, S.3
  • 38
    • 0020315189 scopus 로고
    • Nucleotide sequence and functional map of pE194, a plasmid that specifies inducible resistance to macrolide, lincosamide, and streptogramin type B antibodies
    • COI: 1:CAS:528:DyaL38XktFyhsL0%3D, PID: 6279574
    • Horinouchi, S. & Weisblum, B. Nucleotide sequence and functional map of pE194, a plasmid that specifies inducible resistance to macrolide, lincosamide, and streptogramin type B antibodies. J. Bacteriol. 150, 804–814 (1982).
    • (1982) J. Bacteriol. , vol.150 , pp. 804-814
    • Horinouchi, S.1    Weisblum, B.2
  • 39
    • 0020266466 scopus 로고
    • Nucleotide sequence and functional map of pC194, a plasmid that specifies inducible chloramphenicol resistance
    • COI: 1:CAS:528:DyaL38XktFyhsLo%3D, PID: 6950931
    • Horinouchi, S. & Weisblum, B. Nucleotide sequence and functional map of pC194, a plasmid that specifies inducible chloramphenicol resistance. J. Bacteriol. 150, 815–825 (1982).
    • (1982) J. Bacteriol. , vol.150 , pp. 815-825
    • Horinouchi, S.1    Weisblum, B.2
  • 40
    • 84871809302 scopus 로고    scopus 로고
    • STAR: ultrafast universal RNA-seq aligner
    • COI: 1:CAS:528:DC%2BC38XhvV2gsbnF
    • Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15–21 (2013).
    • (2013) Bioinformatics , vol.29 , pp. 15-21
    • Dobin, A.1
  • 41
    • 84960924821 scopus 로고    scopus 로고
    • Transfer of the methicillin resistance genomic island among staphylococci by conjugation
    • COI: 1:CAS:528:DC%2BC28XktV2nsL4%3D
    • Ray, M. D., Boundy, S. & Archer, G. L. Transfer of the methicillin resistance genomic island among staphylococci by conjugation. Mol. Microbiol. 100, 675–685 (2016).
    • (2016) Mol. Microbiol. , vol.100 , pp. 675-685
    • Ray, M.D.1    Boundy, S.2    Archer, G.L.3
  • 42
    • 85009115800 scopus 로고    scopus 로고
    • Horizontally acquired AT-rich genes in Escherichia coli cause toxicity by sequestering RNA polymerase
    • COI: 1:CAS:528:DC%2BC2sXkvFyqs7Y%3D
    • Lamberte, L. E. et al. Horizontally acquired AT-rich genes in Escherichia coli cause toxicity by sequestering RNA polymerase. Nat. Microbiol. 2, 16249 (2017).
    • (2017) Nat. Microbiol. , vol.2 , pp. 16249
    • Lamberte, L.E.1
  • 43
    • 84897397058 scopus 로고    scopus 로고
    • featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
    • COI: 1:CAS:528:DC%2BC2cXltFGqu7c%3D
    • Liao, Y., Smyth, G. K. & Shi, W. featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics 30, 923–930 (2014).
    • (2014) Bioinformatics , vol.30 , pp. 923-930
    • Liao, Y.1    Smyth, G.K.2    Shi, W.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.