Evidence for nuclear processing of plant micro RNA and short interfering RNA precursors

Plant Physiology

Volumn 132, Issue 3, 2003, Pages 1382-1390

  Papp, István ^a,d   Mette, M Florian ^a   Aufsatz, Werner ^a   Daxinger, Lucia ^a   Schauer, Stephen E ^b   Ray, Animesh ^b,c   Van Der Winden, Johannes ^a   Matzke, Marjori ^a   Matzke, Antonius J M ^a  

^a ERICH SCHMID INSTITUTE OF MATERIALS SCIENCE   (Austria)

^b UNIVERSITY OF ROCHESTER   (United States)

^c KECK GRADUATE INSTITUTE   (United States)

^d SZENT ISTVÁN UNIVERSITY   (Hungary)

Author keywords

[No Author keywords available]

Indexed keywords

BIOASSAY; GENETIC ENGINEERING; PROTEINS; RNA;

PUTATIVE NUCLEAR LOCALIZATION SIGNALS;

PLANTS (BOTANY);

ARABIDOPSIS; EMBRYOPHYTA;

EID: 0038376766     PISSN: 00320889     EISSN: None     Source Type: Journal    
DOI: 10.1104/pp.103.021980     Document Type: Article

References (48)

1. Aufsatz W, Mette MF, van der Winden J, Matzke A, Matzke M (2002a) RNA-ditected DNA methylation in Arabidopsis. Proc Natl Acad Sci USA Suppl 99: 16499-16506
2. Aufsatz W, Mette MF, van der Winden J, Matzke M, Matzke A (2002b) HDA6, a putative histone deacetylase needed to enhance DNA methylation induced by double stranded RNA. EMBO J 21: 6832-6841
3. Bass B (2002) RNA editing by adenosine deaminases that act on RNA. Annu Rev Biochem 71: 817-846
4. Billy E, Brondani V, Zhang H, Müller U, Filipowicz W (2001) Specific interference with gene expression induced by long, double-stranded RNA in mouse embryonal teratocarcinoma cell lines. Proc Natl Acad Sci USA 98: 14428-14433
5. Cerutti H (2003) RNA interference: traveling in the cell and gaining functions? Trends Genet 19: 39-46
6. Clough S, Bent A (1998) Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J 16: 735-743
7. Davis S, Vierstra R (1998) Soluble, highly fluorescent variants of green fluorescent protein (GFP) for use in higher plants. Plant Mol Biol 36: 521-528
8. Djikeng A, Shi H, Tschudi C, Ullu E (2001) RNA interference in Trypanosoma brucei: cloning of small interfering RNAs provides evidence of retroposon-derived 24-26-nucleotide RNAs. RNA 7: 1522-1530
9. Elbashir S, Lendeckel W, Tuschl T (2001a) RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev 15: 188-200
10. Elbashir S, Martinez J, Patkaniowska A, Lendeckel W, Tuschl T (2001b) Functional anatomy of siRNAs for mediating efficient RNAi in Drosophila melanogaster embryo lysate. EMBO J 20: 6877-6888
11. Finnegan EJ, Margis R, Waterhouse P (2003) Posttranscriptional gene silencing is not compromised in the Arabidopsis CARPEL FACTORY (DICER-LIKE1) mutant, a homolog of Dicer-1 from Drosophila. Curr Biol 13: 236-240
12. Golden T, Schauer S, Lang J, Pein S, Mushegian A, Grossniklaus U, Meinke D, Ray A (2002) SHORT INTEGUMENTS1/SUSPENSOR1/CARPEL FACTORY, a Dicer homolog, is a maternal effect gene required for embryo development in Arabidopsis. Plant Physiol 130: 808-822
13. Hall I, Shankaranarayana G, Noma K, Ayoub N, Cohen A, Grewal S (2002) Establishment and maintenance of a heterochromatic domain. Science 297: 2232-2237
14. Hamilton A, Voinnet O, Chappell L, Baulcombe D (2002) Two classes of short interfering RNA in RNA silencing. EMBO J 21: 4671-4679
15. Hannon G (2002) RNA interference. Nature 418: 244-251
16. Jacobsen S, Running M, Meyerowitz E (1999) Disruption of an RNA helicase/RNAse III gene in Arabidopsis causes unregulated cell division in floral meristems. Development 126: 5231-5243
17. Jones L, Hamilton A, Voinnet O, Thomas C, Maule A, Baulcombe D (1999) RNA-DNA interactions and DNA methylation in posttranscriptional gene silencing. Plant Cell 11: 2291-2301
18. Jones L, Ratcliff F, Baulcombe D (2001) RNA-directed transcriptional gene silencing in plants can be inherited independently of the RNA trigger and requires Met1 for maintenance. Curr Biol 11: 747-757
19. Val promoter significantly induce RNAi-mediated gene silencing in the cytoplasm of human cells. Nucleic Acids Res 31: 700-707
20. Lebruska L, Maher L III (1999) Selection and characterization of an RNA decoy for transcription factor NF-κB. Biochemistry 38: 3168-3174
21. Lee Y, Jeon K, Lee J, Kim S, Kim V (2002) MicroRNA maturation: stepwise processing and subcellular localization. EMBO J 21: 4663-4670
22. Llave C, Kasschau K, Carrington J (2000) Virus-encoded suppressor of posttranscriptional gene silencing targets a maintenance step in the silencing pathway. Proc Natl Acad Sci USA 97: 13401-13406
23. Llave C, Xie Z, Kasschau K, Carrington J (2002a) Cleavage of Scarecrow-like mRNAs targets directed by a class of Arabidopsis miRNA. Science 297: 2053-2056
24. Llave C, Kasschau K, Rector M, Carrington J (2002b) Endogenous and silencing-associated small RNAs in plants. Plant Cell 14: 1605-1619
25. Mallory A, Ely L, Smith TH, Marathe R, Anandalakshmi R, Fagard M, Vaucheret H, Pruss G, Bowman L, Vance V (2001) HC-Pro suppression of transgene silencing eliminates the small RNAs but not transgene methylation of the mobile signal. Plant Cell 13: 571-583
26. Mallory A, Reinahrt B, Bartel D, Vance V, Bowman L (2002) A vital suppressor of RNA silencing differentially regulates the accumulation of short interfering RNAs and micro-RNAs in tobacco. Proc Natl Acad Sci USA 99: 15228-15233
27. Matzke AJM, Matzke MA (1986) A set of novel Ti plasmid-derived vectors for the production of transgenic plants. Plant Mol Biol 7: 357-365
28. Matzke M, Primig M, Trnovsky J, Matzke AJM (1989) Reversible methylation and inactivation of marker genes in sequentially transformed tobacco plants. EMBO J 8: 643-649
29. Mette MF, Aufsatz W, van der Winden J, Matzke M, Matzke A (2000) Transcriptional gene silencing and promoter methylation triggered by double-stranded RNA. EMBO J 19: 5194-5201
30. Mette MF, Matzke A, Matzke M (2001) Resistance of RNA-mediated TGS to HC-Pro, a viral suppressor of PTGS, suggests alternative pathways for dsRNA processing. Curr Biol 11: 1119-1123
31. Mette MF, van der Winden J, Matzke M, Matzke A (1999) Production of aberrant promoter transcripts contributes to methylation and silencing of unlinked homologous promoters in trans. EMBO J 18: 241-248
32. Mette MF, Kanno T, Aufsatz W, Jakowitsch J, van der Winden J, Matzke M, Matzke A (2002a) Endogenous viral sequences and their potential contribution to heritable virus resistance in plants. EMBO J 21: 461-469
33. Mette MF, van der Winden J, Matzke M, Matzke A (2002b) Short RNAs can identify new candidate transposable element families in Arabidopsis. Plant Physiol 130: 6-9
34. Mitra A, An G (1989) Three distinct regulatory elements comprise the upstream promoter region of the nopaline synthase gene. Mol Gen Genet 215: 294-299
35. Park W, Li J, Song R, Messing J, Chen X (2002) CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana. Curr Biol 12: 1484-1495
36. Pietrzak M, Shillito R, Hohn T, Potrykus I (1986) Expression in plants of two bacterial antibiotic resistance genes after protoplast transformation with a new plant expression vector. Nucleic Acids Res 14: 5857-5868
37. Reinhart B, Weinstein E, Rhoades M, Bartel B, Bartel D (2002) MicroRNAs in plants. Genes Dev 16: 1616-1626
38. Rhoades M, Reinahrt B, Lim L, Burge C, Bartel B, Bartel D (2002) Prediction of plant microRNA targets. Cell 110: 513-520
39. Schauer S, Jacobsen S, Meinke D, Ray A (2002) DICER-LIKE1: blind men and elephants in Arabidopsis development. Trends Plant Sci 7: 487-491
40. Sijen T, Vijn I, Rebocho A, van Blokland R, Roelofs D, Mol J, Kooter J (2001) Transcriptional and posttranscriptional gene silencing are mechanistically related. Curr Biol 11: 436-440
41. Silhavy D, Molnár A, Lucioli A, Szittya G, Hornyik C, Tavazza M, Burgyán J (2002) A viral protein suppresses RNA silencing and binds silencing-generated, 21- to 25-nucleotide double-stranded RNAs. EMBO J 21: 3070-3080
42. Tang G, Reinhart B, Bartel D, Zamore P (2003) A biochemical framework for RNA silencing in plants. Genes Dev 17: 49-63
43. Voinnet O (2002) RNA silencing: small RNAs as ubiquitous regulators of gene expression. Curr Opin Plant Biol 5: 444-451
44. Voinnet O, Pinto X, Baulcombe D (1999) Suppression of gene silencing: a general strategy used by diverse DNA and RNA viruses. Proc Natl Acad Sci USA 96: 14147-14152
45. Volpe T, Kidner C, Hall I, Teng G, Grewal S, Martienssen R (2002) Regulation of heterochromatic silencing and histone H3 lysine-9 methylation by RNAi. Science 297: 1833-1837
46. Zamore P (2002) Ancient pathways programmed by small RNAs. Science 296: 1265-1269
47. Zeng Y, Cullen B (2002) RNA interference in human cells is restricted to the cytoplasm. RNA 8: 855-860
48. Zilberman D, Cao X, Jacobsen S (2003) ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. Science 299: 716-719