Visualization of single mRNAs reveals temporal association of proteins with microRNA-regulated mRNA

Nucleic Acids Research

Volumn 39, Issue 17, 2011, Pages 7740-7749

  Shih, Joseph D ^a   Waks, Zeev ^a   Kedersha, Nancy ^b   Silver, Pamela A ^a  

^a HARVARD MEDICAL SCHOOL   (United States)

^b BRIGHAM AND WOMEN S HOSPITAL   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARGONAUTE 2 PROTEIN; CHEMOKINE RECEPTOR CXCR4; DOXYCYCLINE; HEDLS PROTEIN; MESSENGER RNA; MICRORNA; PROTEIN DCP1A; SMALL INTERFERING RNA; UNCLASSIFIED DRUG; YELLOW FLUORESCENT PROTEIN;

3' UNTRANSLATED REGION; ARTICLE; CONTROLLED STUDY; FLUORESCENCE IN SITU HYBRIDIZATION; GENE EXPRESSION SYSTEM; GENE MAPPING; GENE REPRESSION; GENE SILENCING; GENETIC TRANSCRIPTION; HUMAN; HUMAN CELL; INTRON; NONSENSE MEDIATED MRNA DECAY; NUCLEAR LOCALIZATION SIGNAL; PRIORITY JOURNAL; PROTEIN DEGRADATION; PROTEIN INTERACTION; PROTEIN LOCALIZATION; REPORTER GENE; RNA INTERFERENCE;

CELL LINE; GENES, REPORTER; HUMANS; MICRORNAS; RNA INTERFERENCE; RNA, MESSENGER; RNA-BINDING PROTEINS; RNA-INDUCED SILENCING COMPLEX;

MAMMALIA;

EID: 80053186141     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr456     Document Type: Article

References (27)

1. Pasquinelli, A.E. and Ruvkin, G. (2002) Control of developmental timing by microRNAs and their targets. Annu. Rev. Cell. Dev. Biol., 18, 495-512.
2. Volpe, T.A., Kidner, C., Hall, I.M., Teng, G., Grewal, S.I. and Martienssen, R.A. (2002) Regulation of heterochromatic silencing and histone H2 lysine-9 methylation by RNAi. Science, 297, 1833-1837. (Pubitemid 35024336)
3. Calin, G.A., Dumitru, C.D., Shimizu, M., Bichi, R., Zupo, S., Noch, E., Alder, H., Rattan, S., Keating, M., Rai, K. et al. (2002) Frequent deletions and down-regulation of micro-RNA genes miR15 and miR16 at 13q14 in chronic lymphoncytic leukemia. Proc. Natl Acad. Sci. USA, 99, 15524-15529. (Pubitemid 35403967)
4. Eis, P.A., Tam, W., Sun, L., Chadburn, A., Li, Z., Gomez, M.F., Lund, E. and Dahlberg, J.D. (2005) Accumulation of miR-155 and BIC RNA in human B cell lymphomas. Proc. Natl Acad. Sci. USA, 102, 3627-3632. (Pubitemid 40354662)
5. Landthaler, M., Yalcin, A. and Tuschl, T. (2004) The human DiGeorge syndrome critical region gene 8 and its D melanogaster homolog are required for miRNA biogenesis. Curr. Biol., 14, 2162-2167. (Pubitemid 39623200)
6. Lykke-Andersen, J. (2002) Identification of a human decapping complex associated with hUpf proteins in nonsense-mediated decay. Mol. Cell. Biol., 22, 8114-8121. (Pubitemid 35304045)
7. Stoecklin, G., Mayo, T. and Anderson, P. (2006) ARE-mRNA degradation requires the 50-30 decay pathway. EMBO Rep., 7, 72-77.
8. Liu, J., Valencia-Sanchez, M.A., Hannon, G.J. and Parker, R. (2005) MicroRNA-dependent localization of targeted mRNAs to mammalian P-bodies. Nat. Cell. Biol., 7, 719-723. (Pubitemid 40975754)
9. Eulalio, A., Behm-Ansmant, I. and Izaurralde, E. (2007) P-body formation is a consequence, not the cause, of RNA-mediated gene silencing. Mol. Cell. Biol., 27, 3970-3981. (Pubitemid 47010995)
10. Peterson, C.P., Bordeleau, M.-E., Pelletier, J. and Sharp, P.A. (2006) Short RNAs repress translation after initiation in mammalian cells. Mol. Cell, 21, 533-542. (Pubitemid 43228008)
11. Brengues, M., Teixeira, D. and Parker, R. (2005) Movement of eukaryotic mRNAs between polysomes and cytoplasmic processing bodies. Science, 310, 486-489. (Pubitemid 41507961)
12. Coller, J. and Parker, R. (2005) General translational repression by activators of mRNA decapping. Cell, 122, 875-886. (Pubitemid 41345205)
13. Kedersha, N., Stoecklin, G., Ayodele, M., Yacono, P., Lykke-Andersen, J., Fritzler, M.J., Scheuner, D., Kaufman, R.J., Golan, D.E. and Anderson, P. (2005) Stress granules and processing bodies are dynamically linked sites of mRNP remodeling. J. Cell Biol., 169, 871-884. (Pubitemid 41002864)
14. Kimball, S.R., Horetsky, R.L., Ron, D., Jefferson, L.S. and Harding, H.P. (2003) Mammalian stress granules represent sites of accumulation of stalled translation initiation complexes. Am. J. Physiol. Cell Physiol., 284, C273-C284. (Pubitemid 36120065)
15. Wang, B., Yanez, A. and Novina, C.D. (2008) MicroRNA-repressed mRNAs contain 40S but not 60S components. Proc. Natl Acad. Sci. USA, 105, 5343-5348. (Pubitemid 351753865)
16. Smolke, C. (2009) Building outside of the box: iGEM and the BioBricks Foundation. Nat. Biotechnol., 27, 1099-1102.
17. Chung, K.H., Hart, C.C., Al-Bassam, S., Avery, A., Taylor, J., Patel, P.D., Vojtek, A.B. and Turner, D.L. (2006) Polycistronic RNA polymerase II expression vectors for RNA interference based on BIC/miR-155. Nucleic Acids Res., 34, e53.
18. Raj, A., van den Bogaard, P., Rifkin, S.A., van Oudenaaren, A. and Tyagi, S. (2008) Imaging individual mRNA molecules using multiple singly labeled probes. Nat. Methods, 5, 877-879.
19. Guo, H., Ingolia, N.T., Weissman, J.S. and Bartel, D.P. (2010) Mammalian microRNAs predominantly act to decrease target mRNA levels. Nature, 466, 835-841.
20. Liu, J., Rivas, F.V., Wohlschlegel, J., Yates, J.R., Parker, R. and Hannon, G.J. (2005) A role for the P-body component GW182 in microRNA function. Nat. Cell. Biol., 7, 1261-1266.
21. Mollet, S., Cougot, N., Wilczynska, A., Dautry, F., Kress, M., Bertrand, E. and Weil, D. (2008) Translationally repressed mRNA transiently cycles through stress granules during stress. Mol. Biol. Cell, 19, 4469-4479.
22. Fenger-Gron, M., Fillman, C., Norrild, B. and Lykke-Andersen, J. (2005) Multiple processing body factors and the ARE binding protein TTP activate mRNA decapping. Mol. Cell, 20, 905-915. (Pubitemid 41814879)
23. Wilhelm, J.E., Buszczak, M. and Sayles, S. (2005) Efficient protein trafficking requires trailer hitch, a component of a ribonucleoprotein complex localized to the ER in Drosophila. Dev. Cell, 9, 675-685. (Pubitemid 41555149)
24. Tritschler, F., Eulalio, A., Helms, S., Schmidt, S., Coles, M., Weichenrieder, O., Izaurralde, E. and Truffault, V. (2008) Similar modes of interaction enable trailer hitch and EDC3 to associate with DCP1 and Me31B in distinct protein complexes. Mol. Biol. Cell, 28, 6695-6708.
25. Jensen, L.J., Kuhn, M., Stark, M., Chaffron, S., Creevey, C., Muller, J., Doerks, T., Julien, P., Roth, A., Simonovic, M. et al. (2009) STRING 8-a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res., 37, D412-D416.
26. Meister, G., Landthaler, M., Patkaniowska, A., Dorsett, Y., Teng, G. and Tuschl, T. (2004) Human Argonaute2 mediates RNA cleavage targeted by miRNAs and siRNAs. Mol. Cell, 15, 185-197. (Pubitemid 38950966)
27. Franks, T.M. and Lykke-Andersen, J. (2008) The control of mRNA decapping and P-body formation. Mol. Cell, 32, 605-615.