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Efficient construction of sequence-specific TAL effectors for modulating mammalian transcription
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These two methods have seen use as genetic editing mechanisms, for gene insertion, deletion, and modulation in multiple species and cell lines.
“These two methods have seen use as genetic editing mechanisms, for gene insertion, deletion, and modulation in multiple species and cell lines [93,94,95,96,97].”
From CRISPR-Cas: Converting A Bacterial Defence Mechanism into A State-of-the-Art Genetic Manipulation Tool (2019) · cites this paper as [93]
The paper’s Abstract reports that designer TALEs modulated endogenous gene transcription in human cells and describes zinc fingers as tools for site-specific DNA modification. It discusses targeting nucleases as a future possibility and cites a separate study of chromosomal deletions, but does not establish that the methods had been used for gene insertion, deletion, and modulation across multiple species and cell lines. (LLM, conf=0.86)
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Research works printed but not linked: 28
- Carr, P.A. & Church, G.M. Genome engineering. Nat. Biotechnol. 27, 1151–1162 (2009). · DOI
- Meister, G.E., Chandrasegaran, S. & Ostermeier, M. Heterodimeric DNA methyltransferases as a platform for creating designer zinc finger methyltransferases for targeted DNA methylation in cells. Nucleic Acids Res. 38, 1749–1759 (2010). · DOI
- Gonzalez, B. et al. Modular system for the construction of zinc-finger libraries and proteins. Nat. Protoc. 5, 791–810 (2010). · DOI
- Maeder, M.L., Thibodeau-Beganny, S., Sander, J.D., Voytas, D.F. & Joung, J.K. Oligomerized pool engineering (OPEN): an 'open-source' protocol for making customized zinc-finger arrays. Nat. Protoc. 4, 1471–1501 (2009). · DOI
- Blancafort, P., Magnenat, L. & Barbas, C.F., III . Scanning the human genome with combinatorial transcription factor libraries. Nat. Biotechnol. 21, 269–274 (2003). · DOI
- Rosen, L.E. et al. Homing endonuclease I-CreI derivatives with novel DNA target specificities. Nucleic Acids Res. 34, 4791–4800 (2006). · DOI
- Grizot, S. et al. Efficient targeting of a SCID gene by an engineered single-chain homing endonuclease. Nucleic Acids Res. 37, 5405–5419 (2009). · DOI
- Boch, J. et al. Breaking the code of DNA binding specificity of TAL-type III effectors. Science 326, 1509–1512 (2009). · DOI · Paper page
- Boch, J. & Bonas, U. Xanthomonas AvrBs3 family-type III effectors: discovery and function. Annu. Rev. Phytopathol. 48, 419–436 (2010). · DOI · Paper page
- Moscou, M.J. & Bogdanove, A.J. A simple cipher governs DNA recognition by TAL effectors. Science 326, 1501 (2009). · DOI
- Bogdanove, A.J., Schornack, S. & Lahaye, T. TAL effectors: finding plant genes for disease and defense. Curr. Opin. Plant Biol. 13, 394–401 (2010). · DOI
- Morbitzer, R., Romer, P., Boch, J. & Lahaye, T. Regulation of selected genome loci using de novo-engineered transcription activator-like effector (TALE)-type transcription factors. Proc. Natl. Acad. Sci. USA 107, 21617–21622 (2010). · DOI
- Kay, S., Hahn, S., Marois, E., Wieduwild, R. & Bonas, U. Detailed analysis of the DNA recognition motifs of the Xanthomonas type III effectors AvrBs3 and AvrBs3Deltarep16. Plant J. 59, 859–871 (2009). · DOI
- Romer, P. et al. Recognition of AvrBs3-like proteins is mediated by specific binding to promoters of matching pepper Bs3 alleles. Plant Physiol. 150, 1697–1712 (2009). · DOI
- Kay, S., Hahn, S., Marois, E., Hause, G. & Bonas, U. A bacterial effector acts as a plant transcription factor and induces a cell size regulator. Science 318, 648–651 (2007). · DOI
- Romer, P. et al. Plant pathogen recognition mediated by promoter activation of the pepper Bs3 resistance gene. Science 318, 645–648 (2007). · DOI
- Scholze, H. & Boch, J. TAL effector-DNA specificity. Virulence 1, 428–432 (2010). · DOI
- Christian, M. et al. Targeting DNA double-strand breaks with TAL effector nucleases. Genetics 186, 757–761 (2010). · DOI · Paper page
- Miller, J.C. et al. A TALE nuclease architecture for efficient genome editing. Nat. Biotechnol. published online, doi:10.1038/nbt.1755 (22 December 2010). · DOI · Paper page
- Engler, C., Gruetzner, R., Kandzia, R. & Marillonnet, S. Golden gate shuffling: a one-pot DNA shuffling method based on type IIs restriction enzymes. PLoS ONE 4, e5553 (2009). · DOI
- Engler, C., Kandzia, R. & Marillonnet, S. A one pot, one step, precision cloning method with high throughput capability. PLoS ONE 3, e3647 (2008). · DOI
- Beerli, R.R., Segal, D.J., Dreier, B. & Barbas, C.F., III . Toward controlling gene expression at will: specific regulation of the erbB-2/HER-2 promoter by using polydactyl zinc finger proteins constructed from modular building blocks. Proc. Natl. Acad. Sci. USA 95, 14628–14633 (1998). · DOI
- Xu, N., Papagiannakopoulos, T., Pan, G., Thomson, J.A. & Kosik, K.S. MicroRNA-145 regulates OCT4, SOX2, and KLF4 and represses pluripotency in human embryonic stem cells. Cell 137, 647–658 (2009). · DOI
- Wei, Z. et al. Klf4 interacts directly with Oct4 and Sox2 to promote reprogramming. Stem Cells 27, 2969–2978 (2009). · DOI
- Lee, H.J., Kim, E. & Kim, J.S. Targeted chromosomal deletions in human cells using zinc finger nucleases. Genome Res. 20, 81–89 (2010). · DOI
- Li, T. et al. TAL nucleases (TALNs): hybrid proteins composed of TAL effectors and FokI DNA-cleavage domain. Nucleic Acids Res. 39, 359–372 (2010). · DOI
- Gordley, R.M., Gersbach, C.A. & Barbas, C.F., III . Synthesis of programmable integrases. Proc. Natl. Acad. Sci. USA 106, 5053–5058 (2009). · DOI
- Zhang, F. et al. Multimodal fast optical interrogation of neural circuitry. Nature 446, 633–639 (2007). · DOI
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Metadata
- Authors
- Zhang, F., Cong, L., Lodato, S., Kosuri, S., Church, G. M., & Arlotta, P.
- Venue
- Nature Biotechnology
- Published
- 2011-01-19
- Volume
- 29
- Issue
- 2
- Pages
- 149-153
- ISSN
- 1087-0156
- 1546-1696
- PMC
- PMC3084533
- Cited by
- 712
- References
- 0
- Language
- en
- Licence
- www.springer.com/tdm (tdm)
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