Distinct catalytic and non-catalytic roles of ARGONAUTE4 in RNA-directed DNA methylation

Nature

Volumn 443, Issue 7114, 2006, Pages 1008-1012

  Qi, Yijun ^a,e   He, Xingyue ^a,b   Wang, Xiu Jie ^c   Kohany, Oleksiy ^d   Jurka, Jerzy ^d   Hannon, Gregory J ^a  

^a HOWARD HUGHES MEDICAL INSTITUTE   (United States)

^b STONY BROOK UNIVERSITY   (United States)

^c INSTITUTE OF GENETICS AND DEVELOPMENTAL BIOLOGY   (China)

^d Genetic Information Research Institute   (United States)

^e NATIONAL INSTITUTE OF BIOLOGICAL SCIENCES   (China)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING ENERGY; CATALYSIS; GENES; MUTAGENESIS;

DNA METHYLATION; RNA INTERFERENCE; SEPARABLE MECHANISMS; TARGET LOCI;

DNA;

PROTEIN; PROTEIN ARGONAUTE4; SMALL INTERFERING RNA; UNCLASSIFIED DRUG;

CATALYSIS; DNA; GENE EXPRESSION; IMMOBILIZATION; METHYLATION; MUTATION; RNA;

ARTICLE; CATALYSIS; DNA METHYLATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN MOTIF; RNA BINDING; RNA TRANSCRIPTION;

ARABIDOPSIS;

EID: 33750435234     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature05198     Document Type: Article

References (27)

1. Chan, S. W., Henderson, I. R. & Jacobsen, S. E. Gardening the genome: DNA methylation in Arabidopsis thaliana. Nature Rev. Genet. 6, 351-360 (2005).
2. Matzke, M. A. & Birchler, J. A. RNAi-mediated pathways in the nucleus. Nature Rev. Genet. 6, 24-35 (2005).
3. Xie, Z. et al. Genetic and functional diversification of small RNA pathways in plants. PLoS Biol. 2, e104 (2004).
4. Zilberman, D., Cao, X. & Jacobsen, S. E. ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. Science 299, 716-719 (2003).
5. Chan, S. W. et al. RNA silencing genes control de novo DNA methylation. Science 303, 1336 (2004).
6. Zilberman, D. et al. Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats. Curr. Biol. 14, 1214-1220 (2004).
7. Herr, A. J., Jensen, M. B., Dalmay, T. & Baulcombe, D. C. RNA polymerase IV directs silencing of endogenous DNA. Science 308, 118-120 (2005).
8. Onodera, Y. et al. Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation. Cell 120, 613-622 (2005).
9. Li, C. et al. An ARGONAUTE4-containing nuclear processing center colocalized with Cajal bodies in Arabidopsis thaliana. Cell 126, 93-106 (2006).
10. Lippman, Z., May, B., Yordan, C., Singer, T. & Martienssen, R. Distinct mechanisms determine transposon inheritance and methylation via small interfering RNA and histone modification. PLoS Biol. 1, e67 (2003).
11. Rohila, J. S., Chen, M., Cerny, R. & Fromm, M. E. Improved tandem affinity purification tag and methods for isolation of protein heterocomplexes from plants. Plant J. 38, 172-181 (2004).
12. Qi, Y., Denli, A. M. & Hannon, G. J. Biochemical specialization within Arabidopsis RNA silencing pathways. Mol. Cell 19, 421-428 (2005).
13. Baumberger, N. & Baulcombe, D. C. Arabidopsis ARGONAUTE1 is an RNA Slicer that selectively recruits microRNAs and short interfering RNAs. Proc. Natl Acad. Sci. USA 102, 11928-11933 (2005).
14. Hamilton, A., Voinnet, O., Chappell, L. & Baulcombe, D. Two classes of short interfering RNA in RNA silencing. EMBO J. 21, 4671-4679 (2002).
15. Singer, T., Yordan, C. & Martienssen, R. A. Robertson's Mutator transposons in A. thaliana are regulated by the chromatin-remodeling gene Decrease in DNA Methylation (DDM1). Genes Dev. 15, 591-602 (2001).
16. Cao, X. & Jacobsen, S. E. Locus-specific control of asymmetric and CpNpG methylation by the DRM and CMT3 methyltransferase genes. Proc. Natl Acad. Sci. USA 99 (Suppl. 4), 16491-16498 (2002).
17. Girard, A., Sachidanandam, R., Hannon, G. & Carmell, M. A germline-specific class of small RNAs binds mammalian Piwi proteins. Nature 442, 199-202 (2006).
18. Jurka, J. et al. Repbase Update, a database of eukaryotic repetitive elements. Cytogenet. Genome Res. 110, 462-467 (2005).
19. Vaucheret, H., Vazquez, F., Crete, P. & Bartel, D. P. The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development. Genes Dev. 18, 1187-1197 (2004).
20. Grewal, S. I. & Moazed, D. Heterochromatin and epigenetic control of gene expression. Science 301, 798-802 (2003).
21. Bao, N., Lye, K. W. & Barton, M. K. MicroRNA binding sites in Arabidopsis class III HD-ZIP mRNAs are required for methylation of the template chromosome. Dev. Cell 7, 653-662 (2004).
22. Qi, Y. & Hannon, G. J. Uncovering RNAi mechanisms in plants: biochemistry enters the foray. FEBS Lett. 579, 5899-5903 (2005).
23. Liu, J. et al. Argonaute2 is the catalytic engine of mammalian RNAi. Science 305, 1437-1441 (2004).
24. Rivas, F. V. et al. Purified Argonaute2 and an siRNA form recombinant human RISC. Nature Struct. Mol. Biol. 12, 340-349 (2005).
25. Jacobsen, S. & Meyerowitz, E. Hypermethylated SUPERMAN epigenetic alleles in Arabidopsis. Science 277, 1100-1103 (1997).
26. Allen, E., Xie, Z., Gustafson, A. M. & Carrington, J. C. MicroRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell 121, 207-221 (2005).
27. Clough, S. J. & Bent, A. F. Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16, 735-743 (1998).