Time to grow up: The temporal role of smallRNAs in plants

Current Opinion in Plant Biology

Volumn 8, Issue 5, 2005, Pages 548-552

  Willmann, Matthew R ^a   Poethig, R Scott ^a  

^a UNIVERSITY OF PENNSYLVANIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

MICRORNA; PLANT RNA; SMALL INTERFERING RNA;

GENE EXPRESSION REGULATION; GENE SILENCING; GROWTH, DEVELOPMENT AND AGING; METABOLISM; PHYSIOLOGY; PLANT; REVIEW;

GENE EXPRESSION REGULATION, DEVELOPMENTAL; GENE EXPRESSION REGULATION, PLANT; GENE SILENCING; MICRORNAS; PLANTS; RNA, PLANT; RNA, SMALL INTERFERING;

ARABIDOPSIS;

EID: 23944456860     PISSN: 13695266     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.pbi.2005.07.008     Document Type: Review

References (53)

1. D.P. Bartel MicroRNAs: genomics, biogenesis, mechanism, and function Cell 116 2004 281 297
2. G. Meister, and T. Tuschl Mechanisms of gene silencing by double-stranded RNA Nature 431 2004 343 349
3. D.V. Dugas, and B. Bartel MicroRNA regulation of gene expression in plants Curr Opin Plant Biol 7 2004 512 520
4. A. Adai, C. Johnson, S. Mlotshwa, S. Archer-Evans, V. Manocha, V. Vance, and V. Sundaresan Computational prediction of miRNAs in Arabidopsis thaliana Genome Res 15 2005 78 91
5. E. Bonnet, J. Wuyts, P. Rouze, and Y. Van de Peer Detection of 91 potential conserved plant microRNAs in Arabidopsis thaliana and Oryza sativa identifies important target genes Proc Natl Acad Sci USA 101 2004 11511 11516 This paper demonstrates the high level of conservation of miRNAs across plants.
6. M.W. Jones-Rhoades, and D.P. Bartel Computational identification of plant microRNAs and their targets, including a stress-induced miRNA Mol Cell 14 2004 787 799 New miRNAs were predicted and validated by western blotting. The targets included genes that are involved in biosynthetic pathways. The expression of a miRNA targeting a sulfurylase is increased in low-sulfate conditions.
7. C.A. Kidner, and R.A. Martienssen The developmental role of microRNA in plants Curr Opin Plant Biol 8 2005 38 44
8. C. Llave, K.D. Kasschau, M.A. Rector, and J.C. Carrington Endogenous and silencing-associated small RNAs in plants Plant Cell 14 2002 1605 1619
9. M.W. Rhoades, B.J. Reinhart, L.P. Lim, C.B. Burge, B. Bartel, and D.P. Bartel Prediction of plant microRNA targets Cell 110 2002 513 520
10. R. Sunkar, and J.K. Zhu Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis Plant Cell 16 2004 2001 2019 New sRNAs were cloned from abiotic stress-treated seedlings. These new sRNAs included several stress-regulated miRNAs, suggesting that miRNAs in plants have roles beyond development.
11. X.J. Wang, J.L. Reyes, N.H. Chua, and T. Gaasterland Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets Genome Biol 5 2004 R65
12. D. Baulcombe RNA silencing in plants Nature 431 2004 356 363
13. V. Ambros MicroRNA pathways in flies and worms: growth, death, fat, stress, and timing Cell 113 2003 673 676
14. A.E. Pasquinelli, and G. Ruvkun Control of developmental timing by microRNAs and their targets Annu Rev Cell Dev Biol 18 2002 495 513
15. C. Hunter, H. Sun, and R.S. Poethig The Arabidopsis heterochronic gene ZIPPY is an ARGONAUTE family member Curr Biol 13 2003 1734 1739
16. M.Y. Park, G. Wu, A. Gonzalez-Sulser, H. Vaucheret, and R.S. Poethig Nuclear processing and export of microRNAs in Arabidopsis Proc Natl Acad Sci USA 102 2005 3691 3696 The authors provide the first direct evidence that miRNAs are processed to completion in the nucleus and exported to the cytoplasm.
17. ••] provide the first description of a developmental phenotype for rdr6 and sgs3, and the first identification of trans-acting siRNAs in biology. DCL1 is shown to be involved in both miRNA and ta-siRNA pathways.
18. ••] provide the first identification of trans-acting siRNAs in biology. PTGS proteins RDR6 and SGS3, as well as the miRNA pathway components AGO1, DCL1, HUA ENHANCER 1 (HEN1), and HYPONASTIC LEAVES1 (HYL1), are shown to be involved in ta-siRNA pathways.
19. A. Brink Phase change in higher plants and somatic cell heredity Q Rev Biol 37 1962 1 22
20. W.P. Hackett Juvenility, maturation, and rejuvenation in woody plants Hortic Rev 7 1985 109 155
21. R.S. Poethig Phase change and the regulation of developmental timing in plants Science 301 2003 334 336
22. J.C. Chien, and I.M. Sussex Differential regulation of trichome formation on the adaxial and abaxial leaf surfaces by gibberellins and photoperiod in Arabidopsis thaliana (L.) Heynh Plant Physiol 111 1996 1321 1328
23. A. Telfer, K.M. Bollman, and R.S. Poethig Phase change and the regulation of trichome distribution in Arabidopsis thaliana Development 124 1997 645 654
24. H. Tsukaya, K. Shoda, G.T. Kim, and H. Uchimiya Heteroblasty in Arabidopsis thaliana (L.) Heynh Planta 210 2000 536 542
25. J.M. Martínez-Zapater, J.A. Jarillo, M. Cruz-Alvarez, M. Roldán, and J. Salinas Arabidopsis late-flowering fve mutants are affected in both vegetative and reproductive development Plant J 7 1995 543 551
26. K.M. Bollman, M.J. Aukerman, M.Y. Park, C. Hunter, T.Z. Berardini, and R.S. Poethig HASTY, the Arabidopsis ortholog of exportin 5/MSN5, regulates phase change and morphogenesis Development 130 2003 1493 1504
27. C. Gómez-Mena, M. Pineiro, J.M. Franco-Zorrilla, J. Salinas, G. Coupland, and J.M. Martinez-Zapater Early bolting in short days: an Arabidopsis mutation that causes early flowering and partially suppresses the floral phenotype of leafy Plant Cell 13 2001 1011 1024
28. W.J. Soppe, L. Bentsink, and M. Koornneef The early-flowering mutant efs is involved in the autonomous promotion pathway of Arabidopsis thaliana Development 126 1999 4763 4770
29. S. Melzer, G. Kampmann, J. Chandler, and K. Apel FPF1 modulates the competence to flowering in Arabidopsis Plant J 18 1999 395 405
30. D.B. Scott, W. Jin, H.K. Ledford, H.S. Jung, and M.A. Honma EAF1 regulates vegetative-phase change and flowering time in Arabidopsis Plant Physiol 120 1999 675 684
31. D. Weigel, and O. Nilsson A developmental switch sufficient for flower initiation in diverse plants Nature 377 1995 495 500
32. T.Z. Berardini, K. Bollman, H. Sun, and R.S. Poethig Regulation of vegetative phase change in Arabidopsis thaliana by cyclophilin 40 Science 291 2001 2405 2407
33. J.H. Clarke, D. Tack, K. Findlay, M. Van Montagu, and M. Van Lijsebettens The SERRATE locus controls the formation of the early juvenile leaves and phase length in Arabidopsis Plant J 20 1999 493 501
34. M.J. Prigge, and D.R. Wagner The Arabidopsis SERRATE gene encodes a zinc-finger protein required for normal shoot development Plant Cell 13 2001 1263 1279
35. J.A. Banks, and N. Fedoroff Patterns of developmental and heritable change in methylation of the Suppressor-mutator transposable element Dev Genet 10 1989 425 437
36. N.V. Fedoroff, and J.A. Banks Is the Suppressor-mutator element controlled by a basic developmental regulatory mechanism? Genetics 120 1988 559 577
37. R. Martienssen, A. Barkan, W.C. Taylor, and M. Freeling Somatically heritable switches in the DNA modification of Mu transposable elements monitored with a suppressible mutant in maize Genes Dev 4 1990 331 343
38. R. Martienssen, and A. Baron Coordinate suppression of mutations caused by Robertson's Mutator transposons in maize Genetics 136 1994 1157 1170
39. G.N. Rudenko, A. Ono, and V. Walbot Initiation of silencing of maize MuDR/Mu transposable elements Plant J 33 2003 1013 1025
40. Z. Lippman, and R. Martienssen The role of RNA interference in heterochromatic silencing Nature 431 2004 364 370
41. O.A. Hoekenga, M.G. Muszynski, and K.C. Cone Developmental patterns of chromatin structure and DNA methylation responsible for epigenetic expression of a maize regulatory gene Genetics 155 2000 1889 1902
42. S.M. Cocciolone, and K.C. Cone Pl-Bh, an anthocyanin regulatory gene of maize that leads to variegated pigmentation Genetics 135 1993 575 588
43. F. de Carvalho, G. Gheysen, S. Kushnir, M. Van Montagu, D. Inzé, and C. Castresana Suppression of beta-1,3-glucanase transgene expression in homozygous plants EMBO J 11 1992 2595 2602
44. T. Elmayan, S. Balzergue, F. Beon, V. Bourdon, J. Daubremet, Y. Guenet, P. Mourrain, J.C. Palauqui, S. Vernhettes, and T. Vialle Arabidopsis mutants impaired in cosuppression Plant Cell 10 1998 1747 1758
45. T. Elmayan, and H. Vaucheret Expression of single copies of a strongly expressed 35S transgene can be silenced post-transcriptionally Plant J 9 1996 787 797
46. E. Glazov, K. Phillips, G.J. Budziszewski, H. Schob, F. Meins Jr., and J.Z. Levin A gene encoding an RNase D exonuclease-like protein is required for post-transcriptional silencing in Arabidopsis Plant J 35 2003 342 349
47. C. Beclin, S. Boutet, P. Waterhouse, and H. Vaucheret A branched pathway for transgene-induced RNA silencing in plants Curr Biol 12 2002 684 688
48. C.A. Kidner, and R.A. Martienssen Spatially restricted microRNA directs leaf polarity through ARGONAUTE1 Nature 428 2004 81 84 ARGONAUTE1 has been shown to be involved in PTGS, but this paper demonstrates for the first time that it is also important for miRNA regulation. In ago1, the expression of miRNA165 and its targets, the adaxializing factors PHABULOSA (PHB)/PHAVOLUTA (PHV), is upregulated and their localizations are disrupted.
49. D. Zilberman, X. Cao, and S.E. Jacobsen ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation Science 299 2003 716 719
50. S.E. Jacobsen, M.P. Running, and E.M. Meyerowitz Disruption of an RNA helicase/RNAse III gene in Arabidopsis causes unregulated cell division in floral meristems Development 126 1999 5231 5243
51. W. Park, J. Li, R. Song, J. Messing, and X. Chen CARPEL FACTORY, a Dicer homolog, and HEN1, a novel protein, act in microRNA metabolism in Arabidopsis thaliana Curr Biol 12 2002 1484 1495
52. E. Allen, Z. Xie, A.M. Gustafson, and J.C. Carrington microRNA-directed phasing during trans-acting siRNA biogenesis in plants Cell 121 2005 207 221 The authors show that miRNA173 and miRNA390 can regulate the biogenesis of ta-siRNAs by directing their phasing.
53. L. Williams, C.C. Carles, K.S. Osmont, and J.C. Fletcher A database analysis method identifies an endogenous trans-acting short-interfering RNA that targets the Arabidopsis ARF2, ARF3, and ARF4 genes Proc Natl Acad Sci USA 102 2005 9703 9708