RNA target sequences promote spreading of RNA silencing

Plant Physiology

Volumn 131, Issue 1, 2003, Pages 245-253

  Van Houdt, Helena ^a   Bleys, Annick ^a   Depicker, Anna ^a  

^a DEPARTMENT OF PLANT SYSTEMS BIOLOGY   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

GENES; PHYSIOLOGY; RNA;

TRANSGENIC PLANTS;

PLANTS (BOTANY);

EMBRYOPHYTA;

EID: 0037253319     PISSN: 00320889     EISSN: None     Source Type: Journal    
DOI: 10.1104/pp.009407     Document Type: Article

References (54)

1. Baulcombe DC (1999) RNA makes RNA makes no protein. Curr Biol 9: R599-R601
2. Béclin C, Boutet S, Waterhouse P, Vaucheret H (2002) A branched pathway for transgene-induced RNA silencing in plants. Curr Biol 12: 684-688
3. Bender J (2001) A vicious cycle: RNA silencing and DNA methylation in plants. Cell 106: 129-132
4. Braunstein TH, Moury B, Johannessen M, Albrechtsen M (2002) Specific degradation of 3′ regions of GUS mRNA in posttranscriptionally silenced tobacco lines may be related to 5′-3′ spreading of silencing. RNA 8: 1034-1044
5. Chuang C-F, Meyerowitz EM (2000) Specific and heritable genetic interference by double-stranded RNA in Arabidopsis thaliana. Proc Natl Acad Sci USA 97: 4985-4990
6. Dalmay T, Hamilton A, Rudd S, Angell S, Baulcombe DC (2000) An RNA-dependent RNA polymerase gene in Arabidopsis is required for posttranscriptional gene silencing mediated by a transgene but not by a virus. Cell 101: 543-553
7. De Buck S, Jacobs A, Van Montagu M, Depicker A (1999) The DNA sequences of T-DNA junctions suggest that complex T-DNA loci are formed by a recombination process resembling T-DNA integration. Plant J 20: 295-304
8. De Loose M, Danthinne X, Van Bockstaele E, Van Montagu M, Depicker A (1995) Different 5′ leader sequences modulate β-glucuronidase accumulation levels in transgenic Nicotiana tabacum plants. Euphytica 85: 209-216
9. Depicker A, Ingelbrecht I, Van Houdt H, De Loose M, Van Montagu M (1996) Post-transcriptional reporter transgene silencing in transgenic tobacco. In D Grierson, GW Lycett, GA Tucker, eds, Mechanisms and Applications of Gene Silencing. Nottingham University Press, Nottingham, UK, pp 71-84
10. Elbashir SM, Lendeckel W, Tuschl T (2001a) RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev 15: 188-200
11. Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T (2001b) Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411: 494-498
12. English JJ, Mueller E, Baulcombe DC (1996) Suppression of virus accumulation in transgenic plants exhibiting silencing of nuclear genes. Plant Cell 8: 179-188
13. Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE, Mello CC (1998) Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature 391: 806-811
14. Hamilton AJ, Baulcombe DC (1999) A species of small antisense RNA in posttranscriptional gene silencing in plants. Science 286: 950-952
15. Hamilton AJ, Brown S, Yuanhai H, Ishizuka M, Lowe A, Alpuche Soils A-G, Grierson D (1998) A transgene with repeated DNA causes high frequency, post-transcriptional suppression of ACC-oxidase gene expression in tomato. Plant J 15: 737-746
16. Hammond SM, Bernstein E, Beach D, Hannon GJ (2000) An RNA-directed nuclease mediates post-transcriptional gene silencing in Drosophila cells. Nature 404: 293-295
17. Han Y, Grierson D (2002) The influence of inverted repeats on the production of small antisense RNAs involved in gene silencing. Mol Genet Genomics 267: 629-635
18. Hutvágner G, Zamore PD (2002) RNAi: Nature abhors a double-strand. Curr Opin Genet Dev 12: 225-232
19. Ingelbrecht I, Van Houdt H, Van Montagu M, Depicker A (1994) Posttranscriptional silencing of reporter transgenes in tobacco correlates with DNA methylation. Proc Natl Acad Sci USA 91: 10502-10506
20. Jones AL, Thomas CL, Maule AJ (1998) De novo methylation and co-suppression induced by a cytoplasmically replicating plant RNA virus. EMBO J 17: 6385-6393
21. Jones L, Hamilton AJ, Voinnet O, Thomas CL, Maule AJ, Baulcombe DC (1999) RNA-DNA interactions and DNA methylation in post-transcriptional gene silencing. Plant Cell 11: 2291-2301
22. Kooter JM, Matzke MA, Meyer P (1999) Listening to the silent genes: transgene silencing, gene regulation and pathogen control. Trends Plant Sci 4: 340-347
23. Kovařík A, Van Houdt H, Holý A, Depicker A (2000) Drug-induced hypomethylation of a posttranscriptionally silenced transgene locus of tobacco leads to partial release of silencing. FEBS Lett 467: 47-51
24. Lipardi C, Wei Q, Paterson BM (2001) RNAi as random degradative PCR: siRNA primers convert mRNA into dsRNAs that are degraded to generate new siRNAs. Cell 107: 297-307
25. Matzke M, Matzke AJP, Kooter JM (2001) RNA: guiding gene silencing. Science 293: 1080-1083
26. Mette MF, Aufsatz W, van der Winden J, Matzke MA, Matzke AJM (2000) Transcriptional silencing and promoter methylation triggered by double-stranded RNA. EMBO J 19: 5194-5201
27. Mourrain P, Béclin C, Elmayan T, Feuerbach F, Godon C, Morel J-B, Jouette D, Lacombe A-M, Nikic S, Picault N et al. (2000) Arabidopsis SGS3 and SGS3 genes are required for posttranscriptional gene silencing and natural virus resistance. Cell 101: 533-542
28. Nishikura K (2001) A short primer on RNAi: RNA-directed RNA polymerase acts as a key catalyst. Cell 107: 415-418
29. Papaefthimiou I, Hamilton AJ, Denti MA, Baulcombe DC, Tsagris M, Tabler M (2001) Replicating potato spindle tuber viroid RNA is accompanied by short RNA fragments that are characteristic of posttranscriptional gene silencing. Nucleic Acids Res 29: 2395-2400
30. Pélissier T, Thalmeir S, Kempe D, Sänger H-L, Wassenegger M (1999) Heavy de novo methylation at symmetrical and non-symmetrical sites is a hȧllmark of RNA-directed DNA methylation. Nucleic Acids Res 27: 1625-1634
31. Ruiz MT, Voinnet O, Baulcombe DC (1998) Initiation and maintenance of virus-induced gene silencing. Plant Cell 10: 937-946
32. Sanders M, Maddelein W, Depicker A, Van Montagu M, Cornelissen M, Jacobs J (2002) An active role for endogenous β-1,3-glucanase genes in transgene-mediated co-suppression in tobacco. EMBO J 21: 5824-5832
33. Schiebel W, Haas B, Marinkovic̀ S, Klanner A, Sänger HL (1993) RNA-directed RNA polymerase from tomato leaves. II. Catalytic in vitro properties. J Biol Chem 268: 11858-11867
34. Sharp PA (2001) RNA interference-2001. Genes Dev 15: 485-490
35. Sijen R, Vijn I, Rebocho A, van Blokland R, Roelofs D, Mol JNM, Kooter JM (2001a) Transcriptional and posttranscriptional gene silencing are mechanistically related. Curr Biol 11: 436-440
36. Sijen T, Fleenor J, Simmer F, Thijssen KL, Parrish S, Timmons L, Plasterk RHA, Fire A (2001b) On the role of RNA amplification in dsRNA-triggered gene silencing. Cell 107: 465-476
37. Sijen T, Wellink J, Hiriart J-B, van Kammen A (1996) RNA-mediated virus resistance: role of repeated transgenes and delineation of targeted regions. Plant Cell 8: 2277-2294
38. Smith NA, Singh SP, Wang M-B, Stoutjesdijk PA, Green AG, Waterhouse PM (2000) Total silencing by intron-spliced hairpin RNAs. Nature 407: 319-320
39. Stoutjesdijk PA, Singh SP, Liu Q, Hurlstone CJ, Waterhouse PA, Green AG (2002) hpRNA-mediated targeting of the Arabidopsis FAD2 gene gives highly efficient and stable silencing. Plant Physiol 129: 1723-1731
40. Thomas CL, Jones L, Baulcombe DC, Maule AJ (2001) Size constraints for targeting post-transcriptional gene silencing and for RNA-directed methylation in Nicotiana benthamiana using a potato virus X vector. Plant J 25: 417-425
41. Vaistij FE, Jones L, Baulcombe DC (2002) Spreading of RNA targeting and DNA methylation in RNA silencing requires transcription of the target gene and a putative RNA-dependent RNA polymerase. Plant Cell 14: 857-867
42. Van Houdt H, Ingelbrecht I, Van Montagu M, Depicker A (1997) Posttranscriptional silencing of a neomycin phosphotransferase II transgene correlates with the accumulation of unproductive RNAs and with increased cytosine methylation of 3′ flanking regions. Plant J 12: 379-392
43. Van Houdt H, Kovařík A, Van Montagu M, Depicker A (2000a) Cross-talk between posttranscriptionally silenced neomycin phosphotransferase II transgenes. FEBS Lett 467: 41-46
44. Van Houdt H, Van Montagu M, Depicker A (2000b) Both sense and antisense RNAs are targets for the sense transgene-induced posttranscriptional silencing mechanism. Mol Gen Genet 263: 995-1002
45. Vance V, Vaucheret H (2001) RNA silencing in plants-defense and counterdefense. Science 292: 2277-2280
46. Vaucheret H, Béclin C, Fagard M (2001) Post-transcriptional gene silencing in plants. J Cell Sci 114: 3083-3091
47. Voinnet O (2001) RNA silencing as a plant immune system against viruses. Trends Genet 17: 449-459
48. Wang M-B, Wesley SV, Finnegan EJ, Smith NA, Waterhouse PM (2001) Replicating satellite RNA induces sequence-specific DNA methylation and truncated transcripts in plants. RNA 7: 16-28
49. Wassenegger M (2000) RNA-directed DNA methylation. Plant Mol Biol 43: 203-220
50. Wassenegger M, Heimes S, Riedel L, Sänger HL (1994) RNA-directed de novo methylation of genomic sequences in plants. Cell 76: 567-576
51. Waterhouse PM, Graham MW, Wang M-B (1998) Virus resistance and gene silencing in plants can be induced by simultaneous expression of sense and antisense RNA. Proc Natl Acad Sci USA 95: 13959-13964
52. Wesley SV, Helliwell CA, Smith NA, Wang M, Rouse DT, Liu Q, Gooding PS, Singh SP, Abbott D, Stoutjesdijk PA et al. (2001) Construct design for efficient, effective and high-throughput gene silencing in plants. Plant J 27: 581-590
53. Zamore PD (2001) RNA interference: listening to the sound of silence. Nat Struct Biol 8: 746-750
54. Zamore PD, Tuschl T, Sharp PA, Bartel DP (2000) RNAi: double-stranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 101: 25-33