An RNA-aptamer-based two-color CRISPR labeling system

Scientific Reports

Volumn 6, Issue , 2016, Pages

  Wang, Siyuan ^a,b   Su, Jun Han ^a,b   Zhang, Feng ^c,d,e   Zhuang, Xiaowei ^a,b  

^a HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^b HARVARD UNIVERSITY   (United States)

^c BROAD INSTITUTE OF MIT AND HARVARD   (United States)

^d MASSACHUSETTS INSTITUTE OF TECHNOLOGY   (United States)

^e Massachusetts Institute of Technology   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

APTAMER; BACTERIAL PROTEIN; CAS9 ENDONUCLEASE STREPTOCOCCUS PYOGENES; ENDONUCLEASE;

CHROMATIN; CRISPR CAS SYSTEM; FLUORESCENT ANTIBODY TECHNIQUE; GENE LOCUS; GENETICS; HUMAN; METABOLISM; PROCEDURES; STAINING; TUMOR CELL LINE;

APTAMERS, NUCLEOTIDE; BACTERIAL PROTEINS; CELL LINE, TUMOR; CHROMATIN; CRISPR-CAS SYSTEMS; ENDONUCLEASES; FLUORESCENT ANTIBODY TECHNIQUE; GENETIC LOCI; HUMANS; STAINING AND LABELING;

EID: 84971296084     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep26857     Document Type: Article

References (23)

1. Misteli, T. Beyond the sequence: cellular organization of genome function. Cell 128, 787-800 (2007).
2. Misteli, T. The cell biology of genomes: bringing the double helix to life. Cell 152, 1209-12 (2013).
3. Hübner, M. R., & Spector, D. L. Chromatin dynamics. Annu. Rev. Biophys. 39, 471-89 (2010).
4. Robinett, C. C., et al. In vivo localization of DNA sequences and visualization of large-scale chromatin organization using lac operator/repressor recognition. J. Cell Biol. 135, 1685-700 (1996).
5. Miyanari, Y., Ziegler-Birling, C., & Torres-Padilla, M.-E. Live visualization of chromatin dynamics with fluorescent TALEs. Nat. Struct. Mol. Biol. 20, 1321-4 (2013).
6. Chen, B., et al. Dynamic imaging of genomic loci in living human cells by an optimized CRISPR/Cas system. Cell 155, 1479-91 (2013).
7. Ma, H., et al. Multicolor CRISPR labeling of chromosomal loci in human cells. Proc. Natl. Acad. Sci. USA 112, 3002-3007 (2015).
8. Chen, B., et al. Expanding the CRISPR imaging toolset with Staphylococcus aureus Cas9 for simultaneous imaging of multiple genomic loci. Nucleic Acids Res., doi: 10.1093/nar/gkv1533 (2016).
9. Esvelt, K. M., et al. Orthogonal Cas9 proteins for RNA-guided gene regulation and editing. Nat. Methods 10, 1116-21 (2013).
10. Ran, F. A., et al. In vivo genome editing using Staphylococcus aureus Cas9. Nature 520, 186-191 (2015).
11. Hocine, S., Raymond, P., Zenklusen, D., Chao, J. A., & Singer, R. H. Single-molecule analysis of gene expression using two-color RNA labeling in live yeast. Nat. Methods 10, 119-21 (2013).
12. Zalatan, J. G., et al. Engineering Complex Synthetic Transcriptional Programs with CRISPR RNA Scaffolds. Cell 160, 339-50 (2014).
13. Shechner, D. M., Hacisuleyman, E., Younger, S. T., & Rinn, J. L. Multiplexable, locus-specific targeting of long RNAs with CRISPRDisplay. Nat. Methods 12, 664-670 (2015).
14. Merzlyak, E. M., et al. Bright monomeric red fluorescent protein with an extended fluorescence lifetime. Nat. Methods 4, 555-7 (2007).
15. Konermann, S., et al. Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex. Nature 517, 583-588 (2014).
16. Molenaar, C., et al. Visualizing telomere dynamics in living mammalian cells using PNA probes. EMBO J. 22, 6631-41 (2003).
17. Shao, S., et al. Long-Term dual-color tracking of genomic loci by modified sgRNAs of the CRISPR/Cas9 system. Nucleic Acids Res., doi: 10.1093/nar/gkw066 (2016).
18. Gibson, D. G., et al. Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat. Methods 6, 343-5 (2009).
19. Grünwald, D., & Singer, R. H. In vivo imaging of labelled endogenous β-Actin mRNA during nucleocytoplasmic transport. Nature 467, 604-7 (2010).
20. Wu, B., Chao, J. A., & Singer, R. H. Fluorescence fluctuation spectroscopy enables quantitative imaging of single mRNAs in living cells. Biophys. J. 102, 2936-44 (2012).
21. Morgenstern, J. P., & Land, H. Advanced mammalian gene transfer: high titre retroviral vectors with multiple drug selection markers and a complementary helper-free packaging cell line. Nucleic Acids Res. 18, 3587-96 (1990).
22. Cong, L., et al. Multiplex genome engineering using CRISPR/Cas systems. Science 339, 819-23 (2013).
23. Wang, S., Moffitt, J. R., Dempsey, G. T., Xie, X. S., & Zhuang, X. Characterization and development of photoactivatable fluorescent proteins for single-molecule-based superresolution imaging. Proc. Natl. Acad. Sci. USA 111, 8452-7 (2014).