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Volumn 5, Issue APR, 2014, Pages

CARF and WYL domains: Ligand-binding regulators of prokaryotic defense systems

Author keywords

Beta barrel; CRISPR; DNA binding proteins; Phage defense; Rossmann fold

Indexed keywords

DNA BINDING PROTEIN; TRANSCRIPTION FACTOR;

EID: 84901047385     PISSN: None     EISSN: 16648021     Source Type: Journal    
DOI: 10.3389/fgene.2014.00102     Document Type: Article
Times cited : (146)

References (62)
  • 1
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • doi: 10.1093/nar/25.17.3389
    • Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W., et al. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402. doi: 10.1093/nar/25.17.3389.
    • (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    Miller, W.6
  • 2
    • 33646739111 scopus 로고    scopus 로고
    • The NYN domains: novel predicted RNAses with a PIN domain-like fold
    • doi: 10.4161/rna.3.1.2548
    • Anantharaman, V., and Aravind, L. (2006). The NYN domains: novel predicted RNAses with a PIN domain-like fold. RNA Biol. 3, 18-27. doi: 10.4161/rna.3.1.2548.
    • (2006) RNA Biol. , vol.3 , pp. 18-27
    • Anantharaman, V.1    Aravind, L.2
  • 3
    • 84868092588 scopus 로고    scopus 로고
    • Ter-dependent stress response systems: novel pathways related to metal sensing, production of a nucleoside-like metabolite, and DNA-processing
    • doi: 10.1039/c2mb25239b
    • Anantharaman, V., Iyer, L. M., and Aravind, L. (2012). Ter-dependent stress response systems: novel pathways related to metal sensing, production of a nucleoside-like metabolite, and DNA-processing. Mol. Biosyst. 8, 3142-3165. doi: 10.1039/c2mb25239b.
    • (2012) Mol. Biosyst. , vol.8 , pp. 3142-3165
    • Anantharaman, V.1    Iyer, L.M.2    Aravind, L.3
  • 4
    • 84878893667 scopus 로고    scopus 로고
    • Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing
    • doi: 10.1186/1745-6150-8-15
    • Anantharaman, V., Makarova, K. S., Burroughs, A. M., Koonin, E. V., and Aravind, L. (2013). Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing. Biol. Direct 8, 15. doi: 10.1186/1745-6150-8-15.
    • (2013) Biol. Direct , vol.8 , pp. 15
    • Anantharaman, V.1    Makarova, K.S.2    Burroughs, A.M.3    Koonin, E.V.4    Aravind, L.5
  • 5
    • 84883019152 scopus 로고    scopus 로고
    • Novel autoproteolytic and DNA-damage sensing components in the bacterial SOS response and oxidized methylcytosine-induced eukaryotic DNA demethylation systems
    • doi: 10.1186/1745-6150-8-20
    • Aravind, L., Anand, S., and Iyer, L. M. (2013). Novel autoproteolytic and DNA-damage sensing components in the bacterial SOS response and oxidized methylcytosine-induced eukaryotic DNA demethylation systems. Biol. Direct 8, 20. doi: 10.1186/1745-6150-8-20.
    • (2013) Biol. Direct , vol.8 , pp. 20
    • Aravind, L.1    Anand, S.2    Iyer, L.M.3
  • 7
    • 0027324744 scopus 로고
    • Biology of DNA restriction
    • Bickle, T. A., and Kruger, D. H. (1993). Biology of DNA restriction. Microbiol. Rev. 57, 434-450.
    • (1993) Microbiol. Rev. , vol.57 , pp. 434-450
    • Bickle, T.A.1    Kruger, D.H.2
  • 8
    • 33746922036 scopus 로고    scopus 로고
    • Evolutionary genomics of the HAD superfamily: understanding the structural adaptations and catalytic diversity in a superfamily of phosphoesterases and allied enzymes
    • doi: 10.1016/j.jmb.2006.06.049
    • Burroughs, A. M., Allen, K. N., Dunaway-Mariano, D., and Aravind, L. (2006). Evolutionary genomics of the HAD superfamily: understanding the structural adaptations and catalytic diversity in a superfamily of phosphoesterases and allied enzymes. J. Mol. Biol. 361, 1003-1034. doi: 10.1016/j.jmb.2006.06.049.
    • (2006) J. Mol. Biol. , vol.361 , pp. 1003-1034
    • Burroughs, A.M.1    Allen, K.N.2    Dunaway-Mariano, D.3    Aravind, L.4
  • 9
    • 84893804492 scopus 로고    scopus 로고
    • New perspectives on the diversification of the RNA interference system: insights from comparative genomics and small RNA sequencing
    • doi: 10.1002/wrna.1210
    • Burroughs, A. M., Ando, Y., and Aravind, L. (2013a). New perspectives on the diversification of the RNA interference system: insights from comparative genomics and small RNA sequencing. Wiley Interdiscip. Rev. RNA 5, 141-182. doi: 10.1002/wrna.1210.
    • (2013) Wiley Interdiscip. Rev. RNA , vol.5 , pp. 141-182
    • Burroughs, A.M.1    Ando, Y.2    Aravind, L.3
  • 10
    • 66149175454 scopus 로고    scopus 로고
    • Natural history of the E1-like superfamily: implication for adenylation, sulfur transfer, and ubiquitin conjugation
    • doi: 10.1002/prot.22298
    • Burroughs, A. M., Iyer, L. M., and Aravind, L. (2009). Natural history of the E1-like superfamily: implication for adenylation, sulfur transfer, and ubiquitin conjugation. Proteins 75, 895-910. doi: 10.1002/prot.22298.
    • (2009) Proteins , vol.75 , pp. 895-910
    • Burroughs, A.M.1    Iyer, L.M.2    Aravind, L.3
  • 11
    • 84878660353 scopus 로고    scopus 로고
    • Two novel PIWI families: roles in inter-genomic conflicts in bacteria and Mediator-dependent modulation of transcription in eukaryotes
    • doi: 10.1186/1745-6150-8-13
    • Burroughs, A. M., Iyer, L. M., and Aravind, L. (2013b). Two novel PIWI families: roles in inter-genomic conflicts in bacteria and Mediator-dependent modulation of transcription in eukaryotes. Biol. Direct 8:13. doi: 10.1186/1745-6150-8-13.
    • (2013) Biol. Direct , vol.8 , pp. 13
    • Burroughs, A.M.1    Iyer, L.M.2    Aravind, L.3
  • 12
    • 84859983403 scopus 로고    scopus 로고
    • RNA ligase RtcB splices 3'-phosphate and 5'-OH ends via covalent RtcB-(histidinyl)-GMP and polynucleotide-(3')pp(5')G intermediates
    • doi: 10.1073/pnas.1201207109
    • Chakravarty, A. K., Subbotin, R., Chait, B. T., and Shuman, S. (2012). RNA ligase RtcB splices 3'-phosphate and 5'-OH ends via covalent RtcB-(histidinyl)-GMP and polynucleotide-(3')pp(5')G intermediates. Proc. Natl. Acad. Sci. U.S.A. 109, 6072-6077. doi: 10.1073/pnas.1201207109.
    • (2012) Proc. Natl. Acad. Sci. U.S.A. , vol.109 , pp. 6072-6077
    • Chakravarty, A.K.1    Subbotin, R.2    Chait, B.T.3    Shuman, S.4
  • 13
    • 0032420333 scopus 로고    scopus 로고
    • JPred: a consensus secondary structure prediction server
    • doi: 10.1093/bioinformatics/14.10.892
    • Cuff, J. A., Clamp, M. E., Siddiqui, A. S., Finlay, M., and Barton, G. J. (1998). JPred: a consensus secondary structure prediction server. Bioinformatics 14, 892-893. doi: 10.1093/bioinformatics/14.10.892.
    • (1998) Bioinformatics , vol.14 , pp. 892-893
    • Cuff, J.A.1    Clamp, M.E.2    Siddiqui, A.S.3    Finlay, M.4    Barton, G.J.5
  • 14
    • 84874195392 scopus 로고    scopus 로고
    • A novel interference mechanism by a type IIIB CRISPR-Cmr module in Sulfolobus
    • doi: 10.1111/mmi.12152
    • Deng, L., Garrett, R. A., Shah, S. A., Peng, X., and She, Q. (2013). A novel interference mechanism by a type IIIB CRISPR-Cmr module in Sulfolobus. Mol. Microbiol. 87, 1088-1099. doi: 10.1111/mmi.12152.
    • (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
  • 15
    • 84861134293 scopus 로고    scopus 로고
    • Identification of novel components of NAD-utilizing metabolic pathways and prediction of their biochemical functions
    • doi: 10.1039/c2mb05487f
    • de Souza, R. F., and Aravind, L. (2012). Identification of novel components of NAD-utilizing metabolic pathways and prediction of their biochemical functions. Mol. Biosyst. 8, 1661-1677. doi: 10.1039/c2mb05487f.
    • (2012) Mol. Biosyst. , vol.8 , pp. 1661-1677
    • de Souza, R.F.1    Aravind, L.2
  • 16
    • 84901070543 scopus 로고    scopus 로고
    • Chromosomal targeting by CRISPR-Cas systems can contribute to genome plasticity in bacteria
    • doi: 10.4161/mge.26831
    • Dy, R. L., Pitman, A. R., and Fineran, P. C. (2013). Chromosomal targeting by CRISPR-Cas systems can contribute to genome plasticity in bacteria. Mob. Genet. Elements 3, e26831. doi: 10.4161/mge.26831.
    • (2013) Mob. Genet. Elements , vol.3
    • Dy, R.L.1    Pitman, A.R.2    Fineran, P.C.3
  • 17
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: multiple sequence alignment with high accuracy and high throughput
    • doi: 10.1093/nar/gkh340
    • Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792-1797. doi: 10.1093/nar/gkh340.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 1792-1797
    • Edgar, R.C.1
  • 19
    • 0032566718 scopus 로고    scopus 로고
    • Characterization of the Escherichia coli RNA 3'-terminal phosphate cyclase and its sigma54-regulated operon
    • doi: 10.1074/jbc.273.39.25516
    • Genschik, P., Drabikowski, K., and Filipowicz, W. (1998). Characterization of the Escherichia coli RNA 3'-terminal phosphate cyclase and its sigma54-regulated operon. J. Biol. Chem. 273, 25516-25526. doi: 10.1074/jbc.273.39.25516.
    • (1998) J. Biol. Chem. , vol.273 , pp. 25516-25526
    • Genschik, P.1    Drabikowski, K.2    Filipowicz, W.3
  • 20
    • 0029145415 scopus 로고
    • Hypermodified bases in DNA
    • Gommers-Ampt, J. H., and Borst, P. (1995). Hypermodified bases in DNA. FASEB J. 9, 1034-1042.
    • (1995) FASEB J. , vol.9 , pp. 1034-1042
    • Gommers-Ampt, J.H.1    Borst, P.2
  • 21
    • 34548179003 scopus 로고    scopus 로고
    • Solution structure of YaeO, a Rho-specific inhibitor of transcription termination
    • doi: 10.1074/jbc.M702010200
    • Gutierrez, P., Kozlov, G., Gabrielli, L., Elias, D., Osborne, M. J., Gallouzi, I. E., et al. (2007). Solution structure of YaeO, a Rho-specific inhibitor of transcription termination. J. Biol. Chem. 282, 23348-23353. doi: 10.1074/jbc.M702010200.
    • (2007) J. Biol. Chem. , vol.282 , pp. 23348-23353
    • Gutierrez, P.1    Kozlov, G.2    Gabrielli, L.3    Elias, D.4    Osborne, M.J.5    Gallouzi, I.E.6
  • 22
    • 84890935599 scopus 로고    scopus 로고
    • Genetic characterization of anti-plasmid immunity by a Type III-A CRISPR-Cas system
    • doi: 10.1128/JB.01130-13
    • Hatoum-Aslan, A., Maniv, I., Samai, P., and Marraffini, L. A. (2013). Genetic characterization of anti-plasmid immunity by a Type III-A CRISPR-Cas system. J. Bacteriol. 196, 310-317. doi: 10.1128/JB.01130-13.
    • (2013) J. Bacteriol. , vol.196 , pp. 310-317
    • Hatoum-Aslan, A.1    Maniv, I.2    Samai, P.3    Marraffini, L.A.4
  • 23
    • 84874161995 scopus 로고    scopus 로고
    • Adaptation and modification of three CRISPR loci in two closely related cyanobacteria
    • doi: 10.4161/rna.24160
    • Hein, S., Scholz, I., Voss, B., and Hess, W. R. (2013). Adaptation and modification of three CRISPR loci in two closely related cyanobacteria. RNA Biol. 10, 852-864. doi: 10.4161/rna.24160.
    • (2013) RNA Biol. , vol.10 , pp. 852-864
    • Hein, S.1    Scholz, I.2    Voss, B.3    Hess, W.R.4
  • 24
    • 77954288774 scopus 로고    scopus 로고
    • Dali server: conservation mapping in 3D
    • doi: 10.1093/nar/gkq366
    • Holm, L., and Rosenstrom, P. (2010). Dali server: conservation mapping in 3D. Nucleic Acids Res. 38, W545-W549. doi: 10.1093/nar/gkq366.
    • (2010) Nucleic Acids Res. , vol.38
    • Holm, L.1    Rosenstrom, P.2
  • 25
    • 0031000649 scopus 로고    scopus 로고
    • An evolutionary treasure: unification of a broad set of amidohydrolases related to urease
    • doi: 10.1002/(SICI)1097-0134(199705)28:1<72::AID-PROT7>3.0.CO;2-L
    • Holm, L., and Sander, C. (1997). An evolutionary treasure: unification of a broad set of amidohydrolases related to urease. Proteins 28, 72-82. doi: 10.1002/(SICI)1097-0134(199705)28:1<72::AID-PROT7>3.0.CO;2-L.
    • (1997) Proteins , vol.28 , pp. 72-82
    • Holm, L.1    Sander, C.2
  • 26
    • 84886810542 scopus 로고    scopus 로고
    • Computational identification of novel biochemical systems involved in oxidation, glycosylation and other complex modifications of bases in DNA
    • doi: 10.1093/nar/gkt573
    • Iyer, L. M., Zhang, D., Burroughs, A. M., and Aravind, L. (2013). Computational identification of novel biochemical systems involved in oxidation, glycosylation and other complex modifications of bases in DNA. Nucleic Acids Res. 41, 7635-7655. doi: 10.1093/nar/gkt573.
    • (2013) Nucleic Acids Res. , vol.41 , pp. 7635-7655
    • Iyer, L.M.1    Zhang, D.2    Burroughs, A.M.3    Aravind, L.4
  • 27
    • 84884696268 scopus 로고    scopus 로고
    • Dealing with the Evolutionary Downside of CRISPR Immunity: bacteria and beneficial Plasmids
    • doi: 10.1371/journal.pgen.1003844
    • Jiang, W., Maniv, I., Arain, F., Wang, Y., Levin, B. R., and Marraffini, L. A. (2013). Dealing with the Evolutionary Downside of CRISPR Immunity: bacteria and beneficial Plasmids. PLoS Genet. 9:e1003844. doi: 10.1371/journal.pgen.1003844.
    • (2013) PLoS Genet. , vol.9
    • Jiang, W.1    Maniv, I.2    Arain, F.3    Wang, Y.4    Levin, B.R.5    Marraffini, L.A.6
  • 28
    • 84876567971 scopus 로고    scopus 로고
    • RNA-programmed genome editing in human cells
    • doi: 10.7554/eLife.00471
    • Jinek, M., East, A., Cheng, A., Lin, S., Ma, E., and Doudna, J. (2013). RNA-programmed genome editing in human cells. Elife 2:e00471. doi: 10.7554/eLife.00471.
    • (2013) Elife , vol.2
    • Jinek, M.1    East, A.2    Cheng, A.3    Lin, S.4    Ma, E.5    Doudna, J.6
  • 29
    • 70449521979 scopus 로고    scopus 로고
    • A lower-order oligomer form of phage shock protein A (PspA) stably associates with the hexameric AAA(+) transcription activator protein PspF for negative regulation
    • doi: 10.1016/j.jmb.2009.09.055
    • Joly, N., Burrows, P. C., Engl, C., Jovanovic, G., and Buck, M. (2009). A lower-order oligomer form of phage shock protein A (PspA) stably associates with the hexameric AAA(+) transcription activator protein PspF for negative regulation. J. Mol. Biol. 394, 764-775. doi: 10.1016/j.jmb.2009.09.055.
    • (2009) J. Mol. Biol. , vol.394 , pp. 764-775
    • Joly, N.1    Burrows, P.C.2    Engl, C.3    Jovanovic, G.4    Buck, M.5
  • 30
    • 77955127606 scopus 로고    scopus 로고
    • Managing membrane stress: the phage shock protein (Psp) response, from molecular mechanisms to physiology
    • doi: 10.1111/j.1574-6976.2010.00240.x
    • Joly, N., Engl, C., Jovanovic, G., Huvet, M., Toni, T., Sheng, X., et al. (2010). Managing membrane stress: the phage shock protein (Psp) response, from molecular mechanisms to physiology. FEMS Microbiol. Rev. 34, 797-827. doi: 10.1111/j.1574-6976.2010.00240.x.
    • (2010) FEMS Microbiol. Rev. , vol.34 , pp. 797-827
    • Joly, N.1    Engl, C.2    Jovanovic, G.3    Huvet, M.4    Toni, T.5    Sheng, X.6
  • 31
    • 84872594608 scopus 로고    scopus 로고
    • Crystal structure and nucleic acid-binding activity of the CRISPR-associated protein Csx1 of Pyrococcus furiosus
    • doi: 10.1002/prot.24183
    • Kim, Y. K., Kim, Y. G., and Oh, B. H. (2013). Crystal structure and nucleic acid-binding activity of the CRISPR-associated protein Csx1 of Pyrococcus furiosus. Proteins 81, 261-270. doi: 10.1002/prot.24183.
    • (2013) Proteins , vol.81 , pp. 261-270
    • Kim, Y.K.1    Kim, Y.G.2    Oh, B.H.3
  • 32
    • 84895172125 scopus 로고    scopus 로고
    • The double-edged sword of Lamarck: comment on diversity, evolution, and therapeutic applications of small RNAs in prokaryotic and eukaryotic immune systems by Edwin L. Cooper and Nicola Overstreet
    • doi: 10.1016/j.plrev.2013.12.002
    • Koonin, E. V. (2014). The double-edged sword of Lamarck: comment on diversity, evolution, and therapeutic applications of small RNAs in prokaryotic and eukaryotic immune systems by Edwin L. Cooper and Nicola Overstreet. Phys. Life Rev. 11, 141-143. doi: 10.1016/j.plrev.2013.12.002.
    • (2014) Phys. Life Rev. , vol.11 , pp. 141-143
    • Koonin, E.V.1
  • 33
    • 84878168552 scopus 로고    scopus 로고
    • CRISPR-Cas: evolution of an RNA-based adaptive immunity system in prokaryotes
    • doi: 10.4161/rna.24022
    • Koonin, E. V., and Makarova, K. S. (2013). CRISPR-Cas: evolution of an RNA-based adaptive immunity system in prokaryotes. RNA Biol. 10, 679-686. doi: 10.4161/rna.24022.
    • (2013) RNA Biol. , vol.10 , pp. 679-686
    • Koonin, E.V.1    Makarova, K.S.2
  • 34
    • 0035910270 scopus 로고    scopus 로고
    • Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes
    • doi: 10.1006/jmbi.2000.4315
    • Krogh, A., Larsson, B., Von Heijne, G., and Sonnhammer, E. L. (2001). Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305, 567-580. doi: 10.1006/jmbi.2000.4315.
    • (2001) J. Mol. Biol. , vol.305 , pp. 567-580
    • Krogh, A.1    Larsson, B.2    Von Heijne, G.3    Sonnhammer, E.L.4
  • 35
    • 79251598240 scopus 로고    scopus 로고
    • The structure of the CRISPR-Associated Protein Csa3 provides insight into the regulation of the CRISPR/Cas system
    • doi: 10.1016/j.jmb.2010.11.019
    • Lintner, N. G., Frankel, K. A., Tsutakawa, S. E., Alsbury, D. L., Copie, V., Young, M. J., et al. (2010). The structure of the CRISPR-Associated Protein Csa3 provides insight into the regulation of the CRISPR/Cas system. J. Mol. Biol. 405, 939-955. doi: 10.1016/j.jmb.2010.11.019.
    • (2010) J. Mol. Biol. , vol.405 , pp. 939-955
    • Lintner, N.G.1    Frankel, K.A.2    Tsutakawa, S.E.3    Alsbury, D.L.4    Copie, V.5    Young, M.J.6
  • 36
    • 84868685897 scopus 로고    scopus 로고
    • Live virus-free or die: coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes
    • doi: 10.1186/1745-6150-7-40
    • Makarova, K. S., Anantharaman, V., Aravind, L., and Koonin, E. V. (2012). Live virus-free or die: coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes. Biol. Direct 7, 40. doi: 10.1186/1745-6150-7-40.
    • (2012) Biol. Direct , vol.7 , pp. 40
    • Makarova, K.S.1    Anantharaman, V.2    Aravind, L.3    Koonin, E.V.4
  • 37
    • 79960554003 scopus 로고    scopus 로고
    • Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems
    • doi: 10.1186/1745-6150-6-38
    • Makarova, K. S., Aravind, L., Wolf, Y. I., and Koonin, E. V. (2011a). Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems. Biol. Direct 6, 38. doi: 10.1186/1745-6150-6-38.
    • (2011) Biol. Direct , vol.6 , pp. 38
    • Makarova, K.S.1    Aravind, L.2    Wolf, Y.I.3    Koonin, E.V.4
  • 38
    • 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
    • doi: 10.1186/1745-6150-1-7
    • Makarova, K. S., Grishin, N. V., Shabalina, S. A., Wolf, Y. I., and Koonin, E. V. (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. doi: 10.1186/1745-6150-1-7.
    • (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
  • 40
    • 84877304698 scopus 로고    scopus 로고
    • Comparative genomics of defense systems in archaea and bacteria
    • doi: 10.1093/nar/gkt157
    • Makarova, K. S., Wolf, Y. I., and Koonin, E. V. (2013). Comparative genomics of defense systems in archaea and bacteria. Nucleic Acids Res. 41, 4360-4377. doi: 10.1093/nar/gkt157.
    • (2013) Nucleic Acids Res. , vol.41 , pp. 4360-4377
    • Makarova, K.S.1    Wolf, Y.I.2    Koonin, E.V.3
  • 41
    • 70849123800 scopus 로고    scopus 로고
    • Prokaryotic homologs of Argonaute proteins are predicted to function as key components of a novel system of defense against mobile genetic elements
    • doi: 10.1186/1745-6150-4-29
    • Makarova, K. S., Wolf, Y. I., Van der Oost, J., and Koonin, E. V. (2009). Prokaryotic homologs of Argonaute proteins are predicted to function as key components of a novel system of defense against mobile genetic elements. Biol. Direct 4, 29. doi: 10.1186/1745-6150-4-29.
    • (2009) Biol. Direct , vol.4 , pp. 29
    • Makarova, K.S.1    Wolf, Y.I.2    Van der Oost, J.3    Koonin, E.V.4
  • 42
    • 84873734105 scopus 로고    scopus 로고
    • RNA-guided human genome engineering via Cas9
    • doi: 10.1126/science.1232033
    • Mali, P., Yang, L., Esvelt, K. M., Aach, J., Guell, M., Dicarlo, J. E., et al. (2013). RNA-guided human genome engineering via Cas9. Science 339, 823-826. doi: 10.1126/science.1232033.
    • (2013) Science , vol.339 , pp. 823-826
    • Mali, P.1    Yang, L.2    Esvelt, K.M.3    Aach, J.4    Guell, M.5    Dicarlo, J.E.6
  • 43
    • 0021723865 scopus 로고
    • DNA synthesis in Pseudomonas acidovorans infected with mutants of bacteriophage phi W-14 defective in the synthesis of alpha-putrescinylthymine
    • Miller, P. B., and Warren, R. A. (1984). DNA synthesis in Pseudomonas acidovorans infected with mutants of bacteriophage phi W-14 defective in the synthesis of alpha-putrescinylthymine. J. Virol. 52, 1036-1038.
    • (1984) J. Virol. , vol.52 , pp. 1036-1038
    • Miller, P.B.1    Warren, R.A.2
  • 44
    • 0030907620 scopus 로고    scopus 로고
    • The Escherichia coli phage-shock-protein (psp) operon
    • doi: 10.1046/j.1365-2958.1997.3481712.x
    • Model, P., Jovanovic, G., and Dworkin, J. (1997). The Escherichia coli phage-shock-protein (psp) operon. Mol. Microbiol. 24, 255-261. doi: 10.1046/j.1365-2958.1997.3481712.x.
    • (1997) Mol. Microbiol. , vol.24 , pp. 255-261
    • Model, P.1    Jovanovic, G.2    Dworkin, J.3
  • 45
    • 84894081986 scopus 로고    scopus 로고
    • Generation of gene-modified cynomolgus monkey via Cas9/RNA-Mediated gene targeting in one-cell embryos
    • doi: 10.1016/j.cell.2014.01.027
    • Niu, Y., Shen, B., Cui, Y., Chen, Y., Wang, J., Wang, L., et al. (2014). Generation of gene-modified cynomolgus monkey via Cas9/RNA-Mediated gene targeting in one-cell embryos. Cell 156, 836-843. doi: 10.1016/j.cell.2014.01.027.
    • (2014) Cell , vol.156 , pp. 836-843
    • Niu, Y.1    Shen, B.2    Cui, Y.3    Chen, Y.4    Wang, J.5    Wang, L.6
  • 46
    • 0017441019 scopus 로고
    • Functioning of purine salvage pathways in Escherichia coli K-12
    • Nygaard, P. (1977). Functioning of purine salvage pathways in Escherichia coli K-12. Adv. Exp. Med. Biol. 76A, 186-195.
    • (1977) Adv. Exp. Med. Biol. , vol.76 A , pp. 186-195
    • Nygaard, P.1
  • 47
    • 0029807312 scopus 로고    scopus 로고
    • AbiG, a genotypically novel abortive infection mechanism encoded by plasmid pCI750 of Lactococcus lactis subsp. cremoris UC653
    • O'Connor, L., Coffey, A., Daly, C., and Fitzgerald, G. F. (1996). AbiG, a genotypically novel abortive infection mechanism encoded by plasmid pCI750 of Lactococcus lactis subsp. cremoris UC653. Appl. Environ. Microbiol. 62, 3075-3082.
    • (1996) Appl. Environ. Microbiol. , vol.62 , pp. 3075-3082
    • O'Connor, L.1    Coffey, A.2    Daly, C.3    Fitzgerald, G.F.4
  • 48
    • 84883752794 scopus 로고    scopus 로고
    • Bacterial argonaute samples the transcriptome to identify foreign DNA
    • doi: 10.1016/j.molcel.2013.08.014
    • Olovnikov, I., Chan, K., Sachidanandam, R., Newman, D. K., and Aravin, A. A. (2013). Bacterial argonaute samples the transcriptome to identify foreign DNA. Mol. Cell 51, 594-605. doi: 10.1016/j.molcel.2013.08.014.
    • (2013) Mol. Cell , vol.51 , pp. 594-605
    • Olovnikov, I.1    Chan, K.2    Sachidanandam, R.3    Newman, D.K.4    Aravin, A.A.5
  • 49
    • 0037178275 scopus 로고    scopus 로고
    • Damage-repair error-prone polymerases of eubacteria: association with mobile genome elements
    • doi: 10.1016/S0378-1119(02)00701-1
    • Permina, E. A., Mironov, A. A., and Gelfand, M. S. (2002). Damage-repair error-prone polymerases of eubacteria: association with mobile genome elements. Gene 293, 133-140. doi: 10.1016/S0378-1119(02)00701-1.
    • (2002) Gene , vol.293 , pp. 133-140
    • Permina, E.A.1    Mironov, A.A.2    Gelfand, M.S.3
  • 50
    • 33846078626 scopus 로고    scopus 로고
    • REBASE-enzymes and genes for DNA restriction and modification
    • doi: 10.1093/nar/gkl891
    • Roberts, R. J., Vincze, T., Posfai, J., and Macelis, D. (2007). REBASE-enzymes and genes for DNA restriction and modification. Nucleic Acids Res. 35, D269-D270. doi: 10.1093/nar/gkl891.
    • (2007) Nucleic Acids Res. , vol.35
    • Roberts, R.J.1    Vincze, T.2    Posfai, J.3    Macelis, D.4
  • 51
    • 0036645689 scopus 로고    scopus 로고
    • Structures of the pleiotropic translational regulator Hfq and an Hfq-RNA complex: a bacterial Sm-like protein
    • doi: 10.1093/emboj/cdf322
    • Schumacher, M. A., Pearson, R. F., Moller, T., Valentin-Hansen, P., and Brennan, R. G. (2002). Structures of the pleiotropic translational regulator Hfq and an Hfq-RNA complex: a bacterial Sm-like protein. EMBO J. 21, 3546-3556. doi: 10.1093/emboj/cdf322.
    • (2002) EMBO J. , vol.21 , pp. 3546-3556
    • Schumacher, M.A.1    Pearson, R.F.2    Moller, T.3    Valentin-Hansen, P.4    Brennan, R.G.5
  • 52
    • 23144452044 scopus 로고    scopus 로고
    • The HHpred interactive server for protein homology detection and structure prediction
    • doi: 10.1093/nar/gki408
    • Soding, J., Biegert, A., and Lupas, A. N. (2005). The HHpred interactive server for protein homology detection and structure prediction. Nucleic Acids Res. 33, W244-W248. doi: 10.1093/nar/gki408.
    • (2005) Nucleic Acids Res. , vol.33
    • Soding, J.1    Biegert, A.2    Lupas, A.N.3
  • 53
    • 84878936806 scopus 로고    scopus 로고
    • CRISPR-mediated adaptive immune systems in bacteria and archaea
    • doi: 10.1146/annurev-biochem-072911-172315
    • Sorek, R., Lawrence, C. M., and Wiedenheft, B. (2013). CRISPR-mediated adaptive immune systems in bacteria and archaea. Annu. Rev. Biochem. 82, 237-266. doi: 10.1146/annurev-biochem-072911-172315.
    • (2013) Annu. Rev. Biochem. , vol.82 , pp. 237-266
    • Sorek, R.1    Lawrence, C.M.2    Wiedenheft, B.3
  • 54
    • 77955085897 scopus 로고    scopus 로고
    • Self-targeting by CRISPR: gene regulation or autoimmunity?
    • doi: 10.1016/j.tig.2010.05.008
    • Stern, A., Keren, L., Wurtzel, O., Amitai, G., and Sorek, R. (2010). Self-targeting by CRISPR: gene regulation or autoimmunity? Trends Genet. 26, 335-340. doi: 10.1016/j.tig.2010.05.008.
    • (2010) Trends Genet. , vol.26 , pp. 335-340
    • Stern, A.1    Keren, L.2    Wurtzel, O.3    Amitai, G.4    Sorek, R.5
  • 55
    • 83355174071 scopus 로고    scopus 로고
    • Novel mechanism of RNA repair by RtcB via sequential 2',3'-cyclic phosphodiesterase and 3'-Phosphate/5'-hydroxyl ligation reactions
    • doi: 10.1074/jbc.M111.302133
    • Tanaka, N., Chakravarty, A. K., Maughan, B., and Shuman, S. (2011). Novel mechanism of RNA repair by RtcB via sequential 2',3'-cyclic phosphodiesterase and 3'-Phosphate/5'-hydroxyl ligation reactions. J. Biol. Chem. 286, 43134-43143. doi: 10.1074/jbc.M111.302133.
    • (2011) J. Biol. Chem. , vol.286 , pp. 43134-43143
    • Tanaka, N.1    Chakravarty, A.K.2    Maughan, B.3    Shuman, S.4
  • 56
    • 36549075971 scopus 로고    scopus 로고
    • BLAST QuickStart: example-driven web-based BLAST tutorial
    • doi: 10.1007/978-1-59745-514-5_9
    • Wheeler, D., and Bhagwat, M. (2007). BLAST QuickStart: example-driven web-based BLAST tutorial. Methods Mol. Biol. 395, 149-176. doi: 10.1007/978-1-59745-514-5_9.
    • (2007) Methods Mol. Biol. , vol.395 , pp. 149-176
    • Wheeler, D.1    Bhagwat, M.2
  • 57
    • 0021188608 scopus 로고
    • Selective protection of 5'... GGCC... 3' and 5'... GCNGC... 3' sequences by the hypermodified oxopyrimidine in Bacillus subtilis bacteriophage SP10 DNA
    • Wiatr, C. L., and Witmer, H. J. (1984). Selective protection of 5'... GGCC... 3' and 5'... GCNGC... 3' sequences by the hypermodified oxopyrimidine in Bacillus subtilis bacteriophage SP10 DNA. J. Virol. 52, 47-54.
    • (1984) J. Virol. , vol.52 , pp. 47-54
    • Wiatr, C.L.1    Witmer, H.J.2
  • 58
    • 84857097177 scopus 로고    scopus 로고
    • RNA-guided genetic silencing systems in bacteria and archaea
    • doi: 10.1038/nature10886
    • Wiedenheft, B., Sternberg, S. H., and Doudna, J. A. (2012). RNA-guided genetic silencing systems in bacteria and archaea. Nature 482, 331-338. doi: 10.1038/nature10886.
    • (2012) Nature , vol.482 , pp. 331-338
    • Wiedenheft, B.1    Sternberg, S.H.2    Doudna, J.A.3
  • 59
    • 0030958319 scopus 로고    scopus 로고
    • ADP-ribosylation and early transcription regulation by bacteriophage T4
    • doi: 10.1007/978-1-4419-8632-0_8
    • Wilkens, K., Tiemann, B., Bazan, F., and Ruger, W. (1997). ADP-ribosylation and early transcription regulation by bacteriophage T4. Adv. Exp. Med. Biol. 419, 71-82. doi: 10.1007/978-1-4419-8632-0_8.
    • (1997) Adv. Exp. Med. Biol. , vol.419 , pp. 71-82
    • Wilkens, K.1    Tiemann, B.2    Bazan, F.3    Ruger, W.4
  • 60
    • 0021960028 scopus 로고
    • Polymer-level synthesis of oxopyrimidine deoxynucleotides by Bacillus subtilis phage SP10: characterization of modification-defective mutants
    • Witmer, H., and Wiatr, C. (1985). Polymer-level synthesis of oxopyrimidine deoxynucleotides by Bacillus subtilis phage SP10: characterization of modification-defective mutants. J. Virol. 53, 522-527.
    • (1985) J. Virol. , vol.53 , pp. 522-527
    • Witmer, H.1    Wiatr, C.2
  • 61
    • 80054759036 scopus 로고    scopus 로고
    • Regulation of growth and death in Escherichia coli by toxin-antitoxin systems
    • doi: 10.1038/nrmicro2651
    • Yamaguchi, Y., and Inouye, M. (2011). Regulation of growth and death in Escherichia coli by toxin-antitoxin systems. Nat. Rev. Microbiol. 9, 779-790. doi: 10.1038/nrmicro2651.
    • (2011) Nat. Rev. Microbiol. , vol.9 , pp. 779-790
    • Yamaguchi, Y.1    Inouye, M.2
  • 62
    • 84862602464 scopus 로고    scopus 로고
    • Polymorphic toxin systems: comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics
    • doi: 10.1186/1745-6150-7-18
    • Zhang, D., de Souza, R. F., Anantharaman, V., Iyer, L. M., and Aravind, L. (2012). Polymorphic toxin systems: comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics. Biol. Direct 7, 18. doi: 10.1186/1745-6150-7-18.
    • (2012) Biol. Direct , vol.7 , pp. 18
    • Zhang, D.1    de Souza, R.F.2    Anantharaman, V.3    Iyer, L.M.4    Aravind, L.5


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