Active turnover modulates mature microRNA activity in Caenorhabditis elegans

Nature

Volumn 461, Issue 7263, 2009, Pages 546-549

  Chatterjee, Saibal ^a   Großhans, Helge ^a  

^a FRIEDRICH MIESCHER INSTITUTE FOR BIOMEDICAL RESEARCH   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

ARGONAUTE PROTEIN; EXONUCLEASE; MICRORNA;

ANIMAL COMMUNITY; BIODEGRADATION; COMPLEXATION; DEVELOPMENTAL BIOLOGY; GENE EXPRESSION; GENETIC ANALYSIS; HOMEOSTASIS; MATURATION; NEMATODE; RNA;

ARTICLE; BIOGENESIS; CAENORHABDITIS ELEGANS; CELL LYSATE; DEGRADATION; ENZYME SPECIFICITY; GENE CONTROL; GENE EXPRESSION; GENE SILENCING; GENETIC TRANSCRIPTION; HOMEOSTASIS; IN VITRO STUDY; NONHUMAN; PRIORITY JOURNAL; REGULATORY MECHANISM; TURNOVER TIME;

ANIMALS; CAENORHABDITIS ELEGANS; CAENORHABDITIS ELEGANS PROTEINS; EXORIBONUCLEASES; GENE EXPRESSION REGULATION, DEVELOPMENTAL; LARVA; MICRORNAS; RIBONUCLEASE III; RNA STABILITY; RNA, HELMINTH; RNA-INDUCED SILENCING COMPLEX;

ANIMALIA; CAENORHABDITIS ELEGANS;

EID: 70349453924     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature08349     Document Type: Article

References (37)

1. Chang, T. C. & Mendell, J. T. microRNAs in vertebrate physiology and human disease. Annu. Rev. Genomics Hum. Genet. 8, 215-239 (2007).
2. Ding, X. C., Weiler, J. & Großhans, H. Regulating the regulators: mechanisms controlling the maturation of microRNAs. Trends Biotechnol. 27, 27-36 (2009).
3. Esquela-Kerscher, A. & Slack, F. J. Oncomirs-microRNAs with a role in cancer. Nature Rev. Cancer 6, 259-269 (2006).
4. Ramachandran, V. & Chen, X. Degradation of microRNAs by a family of exoribonucleases in Arabidopsis. Science 321, 1490-1492 (2008).
5. Büssing, I., Slack, F. J. & Großhans, H. let-7 microRNAs in development, stem cells and cancer. Trends Mol. Med. 14, 400-409 (2008).
6. Reinhart, B. J. et al. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature 403, 901-906 (2000).
7. Vella, M. C., Choi, E. Y., Lin, S. Y., Reinert, K. & Slack, F. J. The C. elegans microRNA let-7 binds to imperfect let-7 complementary sites from the lin-41 39UTR. Genes Dev. 18, 132-137 (2004).
8. Bagga, S. et al. Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation. Cell 122, 553-563 (2005).
9. Abbott, A. L. et al. The let-7 microRNA family members mir-48, mir-84, and mir-241 function together to regulate developmental timing in Caenorhabditis elegans. Dev. Cell 9, 403-414 (2005).
10. Kennedy, S., Wang, D. & Ruvkun, G. A conserved siRNA-degrading RNase negatively regulates RNA interference in C. elegans. Nature 427, 645-649 (2004).
11. Chernyakov, I., Whipple, J. M., Kotelawala, L., Grayhack, E. J. & Phizicky, E. M. Degradation of several hypomodified mature tRNA species in Saccharomyces cerevisiae is mediated by Met22 and the 59-39 exonucleases Rat1 and Xrn1. Genes Dev. 22, 1369-1380 (2008).
12. Weidhaas, J. B. et al. MicroRNAs as potential agents to alter resistance to cytotoxic anticancer therapy. Cancer Res. 67, 11111-11116 (2007).
13. Gy, I. et al. Arabidopsis FIERY1, XRN2, and XRN3 are endogenous RNA silencing suppressors. Plant Cell 19, 3451-3461 (2007).
14. Lee, R. C. & Ambros, V. An extensive class of small RNAs in Caenorhabditis elegans. Science 294, 862-864 (2001).
15. Ketting, R. F. et al. Dicer functions in RNA interference and in synthesis of small RNA involved in developmental timing in C. elegans. Genes Dev. 15, 2654-2659 (2001).
16. Grishok, A. et al. Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing. Cell 106, 23-34 (2001).
17. Großhans, H., Johnson, T., Reinert, K. L., Gerstein, M. & Slack, F. J. The temporal patterning microRNA let-7 regulates several transcription factors at the larval to adult transition in C. elegans. Dev. Cell 8, 321-330 (2005).
18. Slack, F. J. et al. The lin-41 RBCC gene acts in the C. elegans heterochronic pathway between the let-7 regulatory RNA and the LIN-29 transcription factor. Mol. Cell 5, 659-669 (2000).
19. Ding, X. C. & Großhans, H. Repression of C. elegans microRNA targets at the initiation level of translation requires GW182 proteins. EMBO J. 28, 213-222 (2009).
20. Stevens, A. & Poole, T. L. 59-exonuclease-2 of Saccharomyces cerevisiae. Purification and features of ribonuclease activity with comparison to 59-exonuclease-1. J. Biol. Chem. 270, 16063-16069 (1995).
21. Stevens, A. & Maupin, M. K. A 59-39 exoribonuclease of human placental nuclei: purification and substrate specificity. Nucleic Acids Res. 15, 695-708 (1987).
22. Hutvagner, G. et al. A cellular function for the RNA-interference enzyme Dicer in the maturation of the let-7 small temporal RNA. Science 293, 834-838 (2001).
23. Pillai, R. S. et al. Inhibition of translational initiation by let-7 microRNA in human cells. Science 309, 1573-1576 (2005).
24. Hutvagner, G., Simard, M. J., Mello, C. C. & Zamore, P. D. Sequence-specific inhibition of small RNA function. PLoS Biol. 2, E98 (2004).
25. Wang, Y., Sheng, G., Juranek, S., Tuschl, T. & Patel, D. J. Structure of the guide-strand-containing argonaute silencing complex. Nature 456, 209-213 (2008).
26. Martinez, J. & Tuschl, T. RISC is a 59 phosphomonoester-producing RNA endonuclease. Genes Dev. 18, 975-980 (2004).
27. Bhattacharyya, S. N., Habermacher, R., Martine, U., Closs, E. I. & Filipowicz, W. Relief of microRNA-mediated translational repression in human cells subjected to stress. Cell 125, 1111-1124 (2006).
28. Kedde, M. et al. RNA-binding protein Dnd1 inhibits microRNA access to target mRNA. Cell 131, 1273-1286 (2007).
29. Ding, X. C., Slack, F. J. & Großhans, H. The let-7 microRNA interfaces extensively with the translation machinery to regulate cell differentiation. Cell Cycle 7, 3083-3090 (2008).
30. Pall, G. S. & Hamilton, A. J. Improved northern blot method for enhanced detection of small RNA. Nature Protocols 3, 1077-1084 (2008).
31. Hager, D. A. & Burgess, R. R. Elution of proteins from sodium dodecyl sulfate-polyacrylamide gels, removal of sodium dodecyl sulfate, and renaturation of enzymatic activity: results with sigma subunit of Escherichia coli RNA polymerase, wheat germ DNA topoisomerase, and other enzymes. Anal. Biochem. 109, 76-86 (1980).
32. Chatterjee, S. et al. An RNA-binding respiratory component mediates import of type II tRNAs into Leishmania mitochondria. J. Biol. Chem. 281, 25270-25277 (2006).
33. Mathy, N. et al. 59-to-39 exoribonuclease activity in bacteria: role of RNase J1 in rRNA maturation and 59 stability of mRNA. Cell 129, 681-692 (2007).
34. Kolb, F. A. et al. Human dicer: purification, properties, and interaction with PAZ PIWI domain proteins. Methods Enzymol. 392, 316-336 (2005).
35. Matranga, C., Tomari, Y., Shin, C., Bartel, D. P. & Zamore, P. D. Passenger-strand cleavage facilitates assembly of siRNA into Ago2-containing RNAi enzyme complexes. Cell 123, 607-620 (2005).
36. Dziembowski, A., Lorentzen, E., Conti, E. & Séraphin, B. A single subunit, Dis3, is essentially responsible for yeast exosome core activity. Nature Struct. Mol. Biol. 14, 15-22 (2007).
37. Lee, M. H. & Schedl, T. Identification of in vivo mRNA targets of GLD-1, a maxi-KH motif containing protein required for C. elegans germ cell development. Genes Dev. 15, 2408-2420 (2001).