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Foreign DNA capture during CRISPR–Cas adaptive immunity
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Tyrosine residues (Tyr22) in Cas1 subunits bracket the foreign genetic material, acting as a ruler that limits the central dsDNA region of the protospacer to a length of 23 nucleotides.
“Tyrosine residues (Tyr22) in Cas1 subunits bracket the foreign genetic material, acting as a ruler that limits the central dsDNA region of the protospacer to a length of 23 nucleotides (nt) [20,27].”
From CRISPR-Cas: Converting A Bacterial Defence Mechanism into A State-of-the-Art Genetic Manipulation Tool (2019) · cites this paper as [20]
In E. coli, Cas1 and Cas2 form a symmetric heterohexameric protein complex (Cas1-Cas2) that is required for spacer acquisition, featuring two Cas1 dimers and a single Cas2 dimer.
“In E. coli, the most widely studied adaptation model, Cas1 and Cas2 form a symmetric heterohexameric protein complex (Cas1-Cas2) that is required for spacer acquisition, featuring two Cas1 dimers (Cas1a, Cas1a’, Cas1b and Cas1b’) and a single Cas2 dimer [20].”
From CRISPR-Cas: Converting A Bacterial Defence Mechanism into A State-of-the-Art Genetic Manipulation Tool (2019) · cites this paper as [20]
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Cites
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Katoh, K., & Standley, D. M. (2013) · Molecular Biology and Evolution · doi:10.1093/molbev/mst010 · Cited by 46,209
CRISPR RNA Maturation by Trans-Encoded Small RNA and Host Factor RNase III
Deltcheva, E., Chylinski, K., Sharma, C. M., Gonzales, K., Chao, Y., Pirzada, Z. A., Eckert, M. R., Vogel, J., & Charpentier, E. (2011) · Nature · doi:10.1038/nature09886 · Cited by 2,563
Flagged first, then by citations
Research works printed but not linked: 27
- Barrangou, R. et al. CRISPR provides acquired resistance against viruses in prokaryotes. Science 315, 1709–1712 (2007) · DOI · Paper page
- Mojica, F. J., Diez-Villasenor, C., Garcia-Martinez, J. & Soria, E. Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements. J. Mol. Evol. 60, 174–182 (2005) · DOI · Paper page
- Bolotin, A., Quinquis, B., Sorokin, A. & Ehrlich, S. D. Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin. Microbiology 151, 2551–2561 (2005) · DOI · Paper page
- Pourcel, C., Salvignol, G. & Vergnaud, G. CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies. Microbiology 151, 653–663 (2005) · DOI · Paper page
- Garneau, J. E. et al. The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA. Nature 468, 67–71 (2010) · DOI
- van der Oost, J., Westra, E. R., Jackson, R. N. & Wiedenheft, B. Unravelling the structural and mechanistic basis of CRISPR–Cas systems. Nature Rev. Microbiol. 12, 479–492 (2014)
- Yosef, I., Goren, M. G. & Qimron, U. Proteins and DNA elements essential for the CRISPR adaptation process in Escherichia coli . Nucleic Acids Res. 40, 5569–5576 (2012) · DOI · Paper page
- Datsenko, K. A. et al. Molecular memory of prior infections activates the CRISPR/Cas adaptive bacterial immunity system. Nature Comm. 3, 945 (2012) · DOI · Paper page
- Swarts, D. C., Mosterd, C., van Passel, M. W. & Brouns, S. J. CRISPR interference directs strand specific spacer acquisition. PLoS ONE 7, e35888 (2012) · DOI
- Nuñez, J. K. et al. Cas1-Cas2 complex formation mediates spacer acquisition during CRISPR–Cas adaptive immunity. Nature Struct. Mol. Biol. 21, 528–534 (2014) · DOI · Paper page
- Arslan, Z., Hermanns, V., Wurm, R., Wagner, R. & Pul, U. Detection and characterization of spacer integration intermediates in type I-E CRISPR–Cas system. Nucleic Acids Res. 42, 7884–7893 (2014) · DOI
- Nuñez, J. K., Lee, A. S., Engelman, A. & Doudna, J. A. Integrase-mediated spacer acquisition during CRISPR–Cas adaptive immunity. Nature 519, 193–198 (2015) · DOI · Paper page
- Rollie, C., Schneider, S., Brinkmann, A. S., Bolt, E. L. & White, M. F. Intrinsic sequence specificity of the Cas1 integrase directs new spacer acquisition. eLife 4, 10.7554/eLife.08716 (2015) · DOI
- Heler, R., Marraffini, L. A. & Bikard, D. Adapting to new threats: the generation of memory by CRISPR–Cas immune systems. Mol. Microbiol. 93, 1–9 (2014) · DOI
- Brouns, S. J. et al. Small CRISPR RNAs guide antiviral defense in prokaryotes. Science 321, 960–964 (2008) · DOI · Paper page
- Carte, J., Wang, R., Li, H., Terns, R. M. & Terns, M. P. Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes. Genes Dev. 22, 3489–3496 (2008) · DOI
- Haurwitz, R. E., Jinek, M., Wiedenheft, B., Zhou, K. & Doudna, J. A. Sequence- and structure-specific RNA processing by a CRISPR endonuclease. Science 329, 1355–1358 (2010) · DOI
- Jinek, M. et al. A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity. Science 337, 816–821 (2012) · DOI · Paper page
- Levy, A. et al. CRISPR adaptation biases explain preference for acquisition of foreign DNA. Nature 520, 505–510 (2015) · DOI
- Wiedenheft, B. et al. Structural basis for DNase activity of a conserved protein implicted in CRISPR-mediated genome defense. Structure 17, 904–912 (2009) · DOI · Paper page
- Savilahti, H., Rice, P. A. & Mizuuchi, K. The phage Mu transpososome core: DNA requirements for assembly and function. EMBO J. 14, 4893–4903 (1995) · DOI
- Scottoline, B. P., Chow, S., Ellison, V. & Brown, P. O. Disruption of the terminal base pairs of retroviral DNA during integration. Genes Dev. 11, 371–382 (1997) · DOI
- Katz, R. A., Merkel, G., Andrake, M. D., Roder, H. & Skalka, A. M. Retroviral integrases promote fraying of viral DNA ends. J. Biol. Chem. 286, 25710–25718 (2011) · DOI
- Adams, P. D. et al. PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr. D 66, 213–221 (2010) · DOI · Paper page
- Emsley, P. & Cowtan, K. Coot: model-building tools for molecular graphics. Acta Crystallogr. D 60, 2126–2132 (2004) · DOI · Paper page
- Babu, M. et al. A dual function of the CRISPR–Cas system in bacterial antivirus immunity and DNA repair. Mol. Microbiol. 79, 484–502 (2011) · DOI · Paper page
- Makarova, K. S. et al. Evolution and classification of the CRISPR–Cas systems. Nature Rev. Microbiol. 9, 467–477 (2011)
Cited by
Sorted by citations
Origins and evolution of CRISPR-Cas systems
Koonin, E. V., & Makarova, K. S. (2019) · Philosophical Transactions of the Royal Society B: Biological Sciences · doi:10.1098/rstb.2018.0087 · Cited by 494
CRISPR-Cas Encoding of a Digital Movie into the Genomes of a Population of Living Bacteria
Shipman, S. L., Nivala, J., Macklis, J. D., & Church, G. M. (2017) · Nature · doi:10.1038/nature23017 · Cited by 361
Loureiro, A., & da Silva, G. J. (2019) · Antibiotics · doi:10.3390/antibiotics8010018 · Cited by 129
A bend, flip and trap mechanism for transposon integration
Morris, E. R., Grey, H., McKenzie, G., Jones, A. C., & Richardson, J. M. (2016) · eLife · doi:10.7554/elife.15537 · Cited by 26
PAM binding ensures orientational integration during Cas4-Cas1-Cas2-mediated CRISPR adaptation
Dhingra, Y., Suresh, S. K., Juneja, P., & Sashital, D. G. (2022) · Molecular Cell · doi:10.1016/j.molcel.2022.09.030 · Cited by 21
Metadata
- Authors
- Nuñez, J. K., Harrington, L. B., Kranzusch, P. J., Engelman, A. N., & Doudna, J. A.
- Venue
- Nature
- Published
- 2015-10-21
- Volume
- 527
- Issue
- 7579
- Pages
- 535-538
- ISSN
- 0028-0836
- 1476-4687
- PMC
- PMC4662619
- Cited by
- 201
- References
- 2
- Language
- en
- Licence
- www.springer.com/tdm (tdm)
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