Ratiometric bimolecular beacons for the sensitive detection of RNA in single living cells

Nucleic Acids Research

Volumn 38, Issue 14, 2010, Pages

  Chen, Antony K ^a   Davydenko, Olga ^b   Behlke, Mark A ^c   Tsourkas, Andrew ^a  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

^b UNIVERSITY OF PENNSYLVANIA   (United States)

^c INTEGRATED DNA TECHNOLOGIES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; SMALL INTERFERING RNA; FLUORESCENT DYE; OLIGONUCLEOTIDE PROBE; RNA;

ANIMAL CELL; ARTICLE; CELL STRAIN 3T3; CELL STRAIN MCF 7; CELLULAR DISTRIBUTION; CONTROLLED STUDY; CYTOPLASM; GENE EXPRESSION; GENE FUNCTION; GENE LOCATION; GENE TARGETING; HELA CELL; HUMAN; HUMAN CELL; MOLECULAR BEACON; NONHUMAN; PRIORITY JOURNAL; RATIOMETRIC BIMOLECULAR BEACON; RNA ANALYSIS; RNA HYBRIDIZATION; ANALYSIS; ANIMAL; CELL CULTURE; CHEMISTRY; ELECTROPORATION; FLUORESCENCE MICROSCOPY; OLIGONUCLEOTIDE PROBE;

ANIMALS; CELLS, CULTURED; ELECTROPORATION; FLUORESCENT DYES; HUMANS; MICROSCOPY, FLUORESCENCE; OLIGONUCLEOTIDE PROBES; RNA;

EID: 77955788881     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkq436     Document Type: Article

References (19)

1. Tyagi,S. and Kramer,F.R. (1996) Molecular beacons: probes that fluoresce upon hybridization. Nat. Biotechnol., 14, 303-308.
2. Bratu,D.P., Cha,B.J., Mhlanga,M.M., Kramer,F.R. and Tyagi,S. (2003) Visualizing the distribution and transport of mRNAs in living cells. Proc. Natl Acad. Sci. USA, 100, 13308-13313.
3. Drake,T.J., Medley,C.D., Sen,A., Rogers,R.J. and Tan,W. (2005) Stochasticity of manganese superoxide dismutase mRNA expression in breast carcinoma cells by molecular beacon imaging. Chembiochem, 6, 2041-2047.
4. Nitin,N. and Bao,G. (2008) NLS peptide conjugated molecular beacons for visualizing nuclear RNA in living cells. Bioconjug. Chem., 19, 2205-2211.
5. Rhee,W.J. and Bao,G. (2009) Simultaneous detection of mRNA and protein stem cell markers in live cells. BMC Biotechnol., 9, 30.
6. Santangelo,P.J., Nix,B., Tsourkas,A. and Bao,G. (2004) Dual FRET molecular beacons for mRNA detection in living cells. Nucleic Acids Res., 32, e57.
7. Tyagi,S. and Alsmadi,O. (2004) Imaging native beta-actin mRNA in motile fibroblasts. Biophys. J., 87, 4153-4162.
8. Yeh,H.Y., Yates,M.V., Mulchandani,A. and Chen,W. (2008) Visualizing the dynamics of viral replication in living cells via Tat peptide delivery of nuclease-resistant molecular beacons. Proc. Natl Acad. Sci. USA, 105, 17522-17525.
9. Bao,G., Rhee,W.J. and Tsourkas,A. (2009) Fluorescent probes for live-cell RNA detection. Annu. Rev. Biomed. Eng., 11, 25-47.
10. Chen,A.K., Behlke,M.A. and Tsourkas,A. (2007) Avoiding false-positive signals with nuclease-vulnerable molecular beacons in single living cells. Nucleic Acids Res., 35, e105.
11. Chen,A.K., Behlke,M.A. and Tsourkas,A. (2008) Efficient cytosolic delivery of molecular beacon conjugates and flow cytometric analysis of target RNA. Nucleic Acids Res., 36, e69.
12. Chen,A.K., Behlke,M.A. and Tsourkas,A. (2009) Sub-cellular trafficking and functionality of 2′-O-methyl and 2′-O-methyl-phosphorothioate molecular beacons. Nucleic Acids Res., 37, e149.
13. Mhlanga,M.M., Vargas,D.Y., Fung,C.W., Kramer,F.R. and Tyagi,S. (2005) tRNA-linked molecular beacons for imaging mRNAs in the cytoplasm of living cells. Nucleic Acids Res., 33, 1902-1912.
14. Molenaar,C., Marras,S.A., Slats,J.C., Truffert,J.C., Lemaitre,M., Raap,A.K., Dirks,R.W. and Tanke,H.J. (2001) Linear 2′ O-Methyl RNA probes for the visualization of RNA in living cells. Nucleic Acids Res., 29, e89.
15. Seksek,O., Biwersi,J. and Verkman,A.S. (1997) Translational diffusion of macromolecule-sized solutes in cytoplasm and nucleus. J. Cell Biol., 138, 131-142.
16. Ohrt,T., Merkle,D., Birkenfeld,K., Echeverri,C.J. and Schwille,P. (2006) In situ fluorescence analysis demonstrates active siRNA exclusion from the nucleus by Exportin 5. Nucleic Acids Res., 34, 1369-1380.
17. Tsourkas,A., Behlke,M.A. and Bao,G. (2003) Hybridization of 2′-O-methyl and 2′-deoxy molecular beacons to RNA and DNA targets. Nucleic Acids Res., 31, 5168-5174.
18. Chen,A.K., Cheng,Z., Behlke,M.A. and Tsourkas,A. (2008) Assessing the sensitivity of commercially available fluorophores to the intracellular environment. Anal. Chem., 80, 7437-7444.
19. Rhee,W.J., Santangelo,P.J., Jo,H. and Bao,G. (2008) Target accessibility and signal specificity in live-cell detection of BMP-4 mRNA using molecular beacons. Nucleic Acids Res., 36, e30.