Introns reduce transitivity proportionally to their length, suggesting that silencing spreads along the pre-mRNA

Plant Journal

Volumn 64, Issue 3, 2010, Pages 392-401

  Vermeersch, Leen ^a,b   De Winne, Nancy ^a,b   Depicker, Ann ^a,b  

^a DEPARTMENT OF PLANT SYSTEMS BIOLOGY   (Belgium)

^b GHENT UNIVERSITY   (Belgium)

Author keywords

Arabidopsis thaliana; Chimeric primary target; Intron; Inverted repeat locus; RNA interference; Transitivity

Indexed keywords

ARABIDOPSIS THALIANA; CHIMERIC PRIMARY TARGET; INTRON; INVERTED REPEAT; RNA INTERFERENCE; TRANSITIVITY;

GENES;

RNA;

PLANT RNA; RNA PRECURSOR;

ARABIDOPSIS; ARTICLE; GENE EXPRESSION REGULATION; GENE SILENCING; GENETICS; INTRON; TRANSGENE; TRANSGENIC PLANT;

ARABIDOPSIS; GENE EXPRESSION REGULATION, PLANT; GENE SILENCING; INTRONS; PLANTS, GENETICALLY MODIFIED; RNA PRECURSORS; RNA, PLANT; TRANSGENES;

ARABIDOPSIS; ARABIDOPSIS THALIANA;

EID: 78149437462     PISSN: 09607412     EISSN: 1365313X     Source Type: Journal    
DOI: 10.1111/j.1365-313X.2010.04335.x     Document Type: Article

References (37)

1. Allen, E., Xie, Z., Gustafson, A.M., and, Carrington, J.C., (2005) microRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell, 121, 207-221.
2. Bayne, E.H., Portoso, M., Kagansky, A., Kos-Braun, I.C., Urano, T., Ekwall, K., Alves, F., Rappsilber, J., and, Allshire, R.C., (2008) Splicing factors facilitate RNAi-directed silencing in fission yeast. Science, 322, 602-606.
3. Bleys, A., Van Houdt, H., and, Depicker, A., (2006a) Down-regulation of endogenes mediated by a transitive silencing signal. RNA, 12, 1633-1639.
4. Bleys, A., Van Houdt, H., and, Depicker, A., (2006b) Transitive and systemic RNA silencing: both involving an RNA amplification mechanism? In Small RNAs: Analysis and Regulatory Functions, Nucleic Acids and Molecular Biology, 17 (, Nellen, W., and, Hammann, C., eds). Berlin: Springer, pp. 119-139.
5. Bleys, A., Vermeersch, L., Van Houdt, H., and, Depicker, A., (2006c) The frequency and efficiency of endogene suppression by transitive silencing signals is influenced by the length of sequence homology. Plant Physiol. 142, 788-796.
6. Breyne, P., De Loose, M., Dedonder, A., Van Montagu, M., and, Depicker, A., (1993) Quantitative kinetic analysis of π-glucuronidase activities using a computer-directed microtiter plate reader. Plant Mol. Biol. Rep. 11, 21-31.
7. Cerutti, H., and, Casas-Mollano, J.A., (2006) On the origin and functions of RNA-mediated silencing: from protists to man. Curr. Genet. 50, 81-99.
8. Clough, S.J., and, Bent, A.F., (1998) Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16, 735-743.
9. De Buck, S., Jacobs, A., Van Montagu, M., and, Depicker, A., (1998) Agrobacterium tumefaciens transformation and cotransformation frequencies of Arabidopsis thaliana root explants and tobacco protoplasts. Mol. Plant-Microbe Interact. 11, 449-457.
10. De Buck, S., Van Montagu, M., and, Depicker, A., (2001) Transgene silencing of invertedly repeated transgenes is released upon deletion of one of the transgenes involved. Plant Mol. Biol. 46, 433-445.
11. De Buck, S., Windels, P., De Loose, M., and, Depicker, A., (2004) Single-copy T-DNAs integrated at different positions in the Arabidopsis genome display uniform and comparable π-glucuronidase accumulation levels. Cell. Mol. Life Sci. 61, 2632-2645.
12. Dreyfuss, G., Kim, V.N., and, Kataoka, N., (2002) Messenger-RNA-binding proteins and the messages they carry. Nat. Rev. Mol. Cell Biol. 3, 195-205.
13. Van Eldik, G., Litire, K., Jacobs, J.J.M.R., Van Montagu, M., and, Cornelissen, M., (1998) Silencing of π-1,3-glucanase genes in tobacco correlates with an increased abundance of RNA degradation intermediates. Nucleic Acids Res. 26, 5176-5181.
14. Garca-PArez, R.D., Van Houdt, H., and, Depicker, A., (2004) Spreading of post-transcriptional gene silencing along the target gene promotes systemic silencing. Plant J. 38, 594-602.
15. Gasciolli, V., Mallory, A.C., Bartel, D.P., and, Vaucheret, H., (2005) Partially redundant functions of Arabidopsis DICER-like enzymes and a role for DCL4 in producing trans-acting siRNAs. Curr. Biol. 15, 1494-1500.
16. Gazzani, S., Lawrenson, T., Woodward, C., Headon, D., and, Sablowski, R., (2004) A link between mRNA turnover and RNA interference in Arabidopsis. Science, 306, 1046-1048.
17. Gregory, B.D., OMalley, R.C., Lister, R., Urich, M.A., Tonti-Filippini, J., Chen, H., Millar, A.H., and, Ecker, J.R., (2008) A link between RNA metabolism and silencing affecting Arabidopsis development. Dev. Cell, 14, 854-866.
18. Gy, I., Gasciolli, V., Lauressergues, D., Morel, J.-B., Gombert, J., Proux, F., Proux, C., Vaucheret, H., and, Mallory, A.C., (2007) Arabidopsis FIERY1, XRN2, and XRN3 are endogenous RNA silencing suppressors. Plant Cell, 19, 3451-3461.
19. Hamilton, A.J., Brown, S., Yuanhai, H., Ishizuka, M., Lowe, A., Alpuche Solis, A.-G., and, 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.
20. Han, Y., and, Grierson, D., (2002) Relationship between small antisense RNAs and aberrant RNAs associated with sense transgene mediated gene silencing in tomato. Plant J. 29, 509-519.
21. Herr, A.J., Molnar, A., Jones, A., and, Baulcombe, D.C., (2006) Defective RNA processing enhances RNA silencing and influences flowering of Arabidopsis. Proc. Natl Acad. Sci. USA, 103, 14994-15001.
22. Himber, C., Dunoyer, P., Moissiard, G., Ritzenthaler, C., and, Voinnet, O., (2003) Transitivity-dependent and -independent cell-to-cell movement of RNA silencing. EMBO J. 22, 4523-4533.
23. Kociaska, E., Kalantidis, K., Wypijewski, K., Sadowski, J., and, Tabler, M., (2005) Analysis of RNA silencing in agroinfiltrated leaves of Nicotiana benthamiana and Nicotiana tabacum. Plant Mol. Biol. 59, 647-661.
24. Kumakura, N., Takeda, A., Fujioka, Y., Motose, H., Takano, R., and, Watanabe, Y., (2009) SGS3 and RDR6 interact and colocalize in cytoplasmic SGS3/RDR6-bodies. FEBS Lett. 583, 1261-1266.
25. Luo, Z., and, Chen, Z., (2007) Improperly terminated, unpolyadenylated mRNA of sense transgenes is targeted by RDR6-mediated RNA silencing in Arabidopsis. Plant Cell, 19, 943-958.
26. Metzlaff, M., ODell, M., Hellens, R., and, Flavell, R.B., (2000) Developmentally and transgene regulated nuclear processing of primary transcripts of chalcone synthase A in petunia. Plant J. 23, 63-72.
27. Mroczka, A., Roberts, P.D., Fillatti, J.J., Wiggins, B.E., Ulmasov, T., and, Voelker, T., (2010) An intron sense suppression construct targeting soybean FAD2-1 requires a double-stranded RNA-producing inverted repeat T-DNA insert. Plant Physiol. 153, 882-891.
28. Nicolas, F.E., Torres-Martnez, S., and, Ruiz-Vazquez, R.M., (2003) Two classes of small antisense RNAs in fungal RNA silencing triggered by non-integrative transgenes. EMBO J. 22, 3983-3991.
29. Sanders, M., Maddelein, W., Depicker, A., Van Montagu, M., Cornelissen, M., and, Jacobs, J., (2002) An active role for endogenous π-1,3-glucanase genes in transgene-mediated co-suppression in tobacco. EMBO J. 21, 5824-5832.
30. Sijen, T., Fleenor, J., Simmer, F., Thijssen, K.L., Parrish, S., Timmons, L., Plasterk, R.H.A., and, Fire, A., (2001) On the role of RNA amplification in dsRNA-triggered gene silencing. Cell, 107, 465-476.
31. Vaistij, F.E., Jones, L., and, Baulcombe, D.C., (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.
32. Van Houdt, H., Ingelbrecht, I., Van Montagu, M., and, Depicker, A., (1997) Post-transcriptional 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.
33. Van Houdt, H., Bleys, A., and, Depicker, A., (2003) RNA target sequences promote spreading of RNA silencing. Plant Physiol. 131, 245-253.
34. Vazquez, F., Vaucheret, H., Rajagopalan, R., Lepers, C., Gasciolli, V., Mallory, A.C., Hilbert, J.-L., Bartel, D.P., and, CrAtA, P., (2004) Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs. Mol. Cell, 16, 69-79.
35. Vogt, U., PAlissier, T., Pütz, A., Razvi, F., Fischer, R., and, Wassenegger, M., (2004) Viroid-induced RNA silencing of GFP-viroid fusion transgenes does not induce extensive spreading of methylation or transitive silencing. Plant J. 38, 107-118.
36. Voinnet, O., (2008) Use, tolerance and avoidance of amplified RNA silencing by plants. Trends Plant Sci. 13, 317-328.
37. Yoshikawa, M., Peragine, A., Park, M.Y., and, Poethig, R.S., (2005) A pathway for the biogenesis of trans-acting siRNAs in Arabidopsis. Genes Dev. 19, 2164-2175.