Detection of Human Dicer and Argonaute 2 Catalytic Activity

Methods in Molecular Biology

Volumn 725, Issue , 2011, Pages 121-141

  Perron, Marjorie P ^b   Landry, Patricia ^b   Plante, Isabelle ^b   Provost, Patrick ^a  

^a LAVAL UNIVERSITY   (Canada)

^b NONE

Author keywords

Argonaute 2; Dicer; Enzyme activity; Gene regulation; Messenger RNA Target; Method; MicroRNA; MicroRNA precursor

Indexed keywords

EIF2C2 PROTEIN, HUMAN; INITIATION FACTOR 2; MICRORNA; RIBONUCLEASE III; RNA;

ARTICLE; CATALYSIS; CELL FRACTIONATION; CELL LINE; CELL STRAIN HEK293; DENATURING GRADIENT GEL ELECTROPHORESIS; ENZYME ASSAY; GENETIC TRANSCRIPTION; GENETICS; HUMAN; ISOTOPE LABELING; METABOLISM; NORTHERN BLOTTING; PROTEIN BINDING;

BLOTTING, NORTHERN; CATALYSIS; CELL LINE; DENATURING GRADIENT GEL ELECTROPHORESIS; ENZYME ASSAYS; EUKARYOTIC INITIATION FACTOR-2; HEK293 CELLS; HUMANS; ISOTOPE LABELING; MICRORNAS; PROTEIN BINDING; RIBONUCLEASE III; RNA; SUBCELLULAR FRACTIONS; TRANSCRIPTION, GENETIC;

MLCS; MLOWN;

EID: 80051570442     PISSN: 10643745     EISSN: 19406029     Source Type: Book Series    
DOI: 10.1007/978-1-61779-046-1_9     Document Type: Chapter

References (35)

1. Perron, M. P., and Provost, P. (2008) Protein interactions and complexes in human microRNA biogenesis and function, Front Biosci 13, 2537–2547.
2. Miranda, K. C., Huynh, T., Tay, Y., Ang, Y. S., Tam, W. L., Thomson, A. M., Lim, B., and Rigoutsos, I. (2006) A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes, Cell 126, 1203–1217.
3. Perron, M. P., and Provost, P. (2009) Protein components of the microRNA pathway and human diseases, Methods Mol Biol 487, 369–385.
4. Lee, Y., Jeon, K., Lee, J. T., Kim, S., and Kim, V. N. (2002) MicroRNA maturation: stepwise processing and subcellular localization, Embo J 21, 4663–4670.
5. Lee, Y., Kim, M., Han, J., Yeom, K. H., Lee, S., Baek, S. H., and Kim, V. N. (2004) MicroRNA genes are transcribed by RNA polymerase II, Embo J 23, 4051–4060.
6. Lee, Y., Ahn, C., Han, J., Choi, H., Kim, J., Yim, J., Lee, J., Provost, P., Radmark, O., Kim, S., and Kim, V. N. (2003) The nuclear RNase III Drosha initiates microRNA processing, Nature 425, 415–419.
7. Gregory, R. I., Yan, K. P., Amuthan, G., Chendrimada, T., Doratotaj, B., Cooch, N., and Shiekhattar, R. (2004) The Microprocessor complex mediates the genesis of microRNAs, Nature 432, 235–240.
8. Yi, R., Qin, Y., Macara, I. G., and Cullen, B. R. (2003) Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs, Genes Dev 17, 3011–3016.
9. Provost, P., Dishart, D., Doucet, J., Frendewey, D., Samuelsson, B., and Radmark, O. (2002) Ribonuclease activity and RNA binding of recombinant human Dicer, Embo J 21, 5864–5874.
10. Zhang, H., Kolb, F. A., Brondani, V., Billy, E., and Filipowicz, W. (2002) Human Dicer preferentially cleaves dsRNAs at their termini without a requirement for ATP, Embo J 21, 5875–5885.
11. Haase, A. D., Jaskiewicz, L., Zhang, H., Laine, S., Sack, R., Gatignol, A., and Filipowicz, W. (2005) TRBP, a regulator of cellular PKR and HIV-1 virus expression, interacts with Dicer and functions in RNA silencing, EMBO Rep 6, 961–967.
12. Chendrimada, T. P., Gregory, R. I., Kumaraswamy, E., Norman, J., Cooch, N., Nishikura, K., and Shiekhattar, R. (2005) TRBP recruits the Dicer complex to Ago2 for microRNA processing and gene silencing, Nature 436, 740–744.
13. Lee, Y., Hur, I., Park, S. Y., Kim, Y. K., Suh, M. R., and Kim, V. N. (2006) The role of PACT in the RNA silencing pathway, EMBO J 25, 522–532.
14. Bartel, D. P. (2004) MicroRNAs: genomics, biogenesis, mechanism, and function, Cell 116, 281–297.
15. Bhattacharyya, S. N., Habermacher, R., Martine, U., Closs, E. I., and Filipowicz, W. (2006) Relief of microRNA-mediated translational repression in human cells subjected to stress, Cell 125, 1111–1124.
16. Liu, J., Rivas, F. V., Wohlschlegel, J., Yates, J. R., 3rd, Parker, R., and Hannon, G. J. (2005) A role for the P-body component GW182 in microRNA function, Nat Cell Biol 7, 1261–1266.
17. Elbashir, S. M., Lendeckel, W., and Tuschl, T. (2001) RNA interference is mediated by 21-and 22-nucleotide RNAs, Genes Dev 15, 188–200.
18. Macrae, I. J., Zhou, K., Li, F., Repic, A., Brooks, A. N., Cande, W. Z., Adams, P. D., and Doudna, J. A. (2006) Structural basis for double-stranded RNA processing by Dicer, Science 311, 195–198.
19. Zhang, H., Kolb, F. A., Jaskiewicz, L., Westhof, E., and Filipowicz, W. (2004) Single processing center models for human Dicer and bacterial RNase III, Cell 118, 57–68.
20. Kataoka, Y., Takeichi, M., and Uemura, T. (2001) Developmental roles and molecular characterization of a Drosophila homologue of Arabidopsis Argonaute1, the founder of a novel gene superfamily, Genes Cells 6, 313–325.
21. Cerutti, L., Mian, N., and Bateman, A. (2000) Domains in gene silencing and cell differentiation proteins: the novel PAZ domain and redefinition of the Piwi domain, Trends Biochem Sci 25, 481–482.
22. Lingel, A., Simon, B., Izaurralde, E., and Sattler, M. (2004) Nucleic acid 3’-end recognition by the Argonaute2 PAZ domain, Nat Struct Mol Biol 11, 576–577.
23. Yan, K. S., Yan, S., Farooq, A., Han, A., Zeng, L., and Zhou, M. M. (2003) Structure and conserved RNA binding of the PAZ domain, Nature 426, 468–474.
24. Song, J. J., Smith, S. K., Hannon, G. J., and Joshua-Tor, L. (2004) Crystal structure of Argonaute and its implications for RISC slicer activity, Science 305, 1434–1437.
25. Lingel, A., Simon, B., Izaurralde, E., and Sattler, M. (2003) Structure and nucleic-acid binding of the Drosophila Argonaute 2 PAZ domain, Nature 426, 465–469.
26. Yuan, Y. R., Pei, Y., Ma, J. B., Kuryavyi, V., Zhadina, M., Meister, G., Chen, H. Y., Dauter, Z., Tuschl, T., and Patel, D. J. (2005) Crystal structure of A. aeolicus argonaute, a site-specific DNA-guided endoribonuclease, provides insights into RISC-mediated mRNA cleavage, Mol Cell 19, 405–419.
27. Hutvagner, G., and Zamore, P. D. (2002) A microRNA in a multiple-turnover RNAi enzyme complex, Science 297, 2056–2060.
28. Leu, Y. W., Rahmatpanah, F., Shi, H., Wei, S. H., Liu, J. C., Yan, P. S., and Huang, T. H. (2003) Double RNA interference of DNMT3b and DNMT1 enhances DNA demethylation and gene reactivation, Cancer Res 63, 6110–6115.
29. Griffiths-Jones, S., Saini, H. K., van Dongen, S., and Enright, A. J. (2008) miRBase: tools for microRNA genomics, Nucleic Acids Res 36, D154–158.
30. Ameres, S. L., Martinez, J., and Schroeder, R. (2007) Molecular basis for target RNA recognition and cleavage by human RISC, Cell 130, 101–112.
31. Bradford, M. M. (1976) A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding, Anal Biochem 72, 248–254.
32. Ender, C., Krek, A., Friedlander, M. R., Beitzinger, M., Weinmann, L., Chen, W., Pfeffer, S., Rajewsky, N., and Meister, G. (2008) A human snoRNA with microRNA-like functions, Mol Cell 32, 519–528.
33. Rudel, S., Flatley, A., Weinmann, L., Kremmer, E., and Meister, G. (2008) A multifunctional human Argonaute2-specific monoclonal antibody, Rna 14, 1244–1253.
34. Pall, G. S., Codony-Servat, C., Byrne, J., Ritchie, L., and Hamilton, A. (2007) Carbodiimide-mediated cross-linking of RNA to nylon membranes improves the detection of siRNA, miRNA and piRNA by northern blot, Nucleic Acids Res 35, e60.
35. Landry, P., Plante, I., Ouellet, D. L., Perron, M. P., Rousseau, G., and Provost, P. (2009) Existence of a microRNA pathway in anu-cleate platelets, Nat Struct Mol Biol 16, 961–966.