An siRNA pathway prevents transgenerational retrotransposition in plants subjected to stress

Nature

Volumn 472, Issue 7341, 2011, Pages 115-120

  Ito, Hidetaka ^a,b   Gaubert, Hervé ^a   Bucher, Etienne ^a,b,c   Mirouze, Marie ^a,b,d   Vaillant, Isabelle ^a,b,e   Paszkowski, Jerzy ^a  

^a UNIVERSITY OF GENEVA   (Switzerland)

^b HOKKAIDO UNIVERSITY   (Japan)

^c UNIVERSITY OF BASEL   (Switzerland)

^d INSTITUT DE RECHERCHE POUR LE DÉVELOPPEMENT   (France)

^e UNIVERSITÉ CLERMONT AUVERGNE   (France)

Author keywords

[No Author keywords available]

Indexed keywords

EXTRACHROMOSOMAL DNA; SMALL INTERFERING RNA;

CHROMOSOME; DICOTYLEDON; FLOWER; GENETIC ANALYSIS; GENOME;

ARABIDOPSIS; ARTICLE; BIOGENESIS; CONTROLLED STUDY; ENVIRONMENTAL STRESS; FLOWER DEVELOPMENT; GENETIC TRANSCRIPTION; HEAT STRESS; MUTANT; NONHUMAN; PLANT GAMETOGENESIS; PRIORITY JOURNAL; PROGENY; RETROPOSON; SEEDLING; SIGNAL TRANSDUCTION; THERMAL SPRING; VEGETATIVE STAGE; WILD TYPE;

ARABIDOPSIS; ARABIDOPSIS PROTEINS; CHROMOSOMES, PLANT; DNA, PLANT; GENE EXPRESSION REGULATION, PLANT; GENE REGULATORY NETWORKS; GENES, PLANT; HEAT-SHOCK RESPONSE; MODELS, GENETIC; MUTAGENESIS, INSERTIONAL; RETROELEMENTS; RNA, PLANT; RNA, SMALL INTERFERING; SEEDLING; TRANSCRIPTION, GENETIC;

ARABIDOPSIS; EUKARYOTA;

EID: 79953746026     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature09861     Document Type: Article

References (30)

1. Slotkin, R. K. & Martienssen, R. Transposable elements and the epigenetic regulation of the genome. Nature Rev. Genet. 8, 272-285 (2007). (Pubitemid 46439291)
2. Lisch, D. Epigenetic regulation of transposable elements in plants. Annu. Rev. Plant Biol. 60, 43-66 (2008).
3. Herr, A. J., Jensen, M. B., Dalmay, T. & Baulcombe, D. C. RNA polymerase IV directs silencing of endogenous DNA. Science 308, 118-120 (2005). (Pubitemid 40471011)
4. Mosher, R. A., Schwach, F., Studholme, D. & Baulcombe, D. C. PolIVb influences RNA-directedDNAmethylationindependently of its role in siRNAbiogenesis. Proc. Natl Acad. Sci. USA 105, 3145-3150 (2008). (Pubitemid 351723682)
5. Miura, A. et al. Mobilization of transposons by a mutation abolishing full DNA methylation in Arabidopsis. Nature 411, 212-214 (2001).
6. Tsukahara, S. et al. Bursts of retrotransposition reproduced in Arabidopsis. Nature 461, 423-426 (2009).
7. Johannes, F. et al. Assessing the impact of transgenerational epigenetic variation on complex traits. PLoS Genet. 5, e1000530 (2009).
8. Reinders, J. et al. Compromised stability of DNA methylation and transposon immobilization in mosaic Arabidopsis epigenomes. Genes Dev. 23, 939-950 (2009).
9. Mirouze, M. et al. Selective epigenetic control of retrotransposition in Arabidopsis. Nature 461, 427-430 (2009).
10. Slotkin, R. K. et al. Epigenetic reprogramming and small RNA silencing of transposable elements in pollen. Cell 136, 461-472 (2009).
11. Mosher, R. A. et al. Uniparental expression of PolIV-dependent siRNAs in developing endosperm of Arabidopsis. Nature 460, 283-286 (2009).
12. Hsieh, T.-F. et al. Genome-wide demethylation of Arabidopsis endosperm. Science 324, 1451-1454 (2009).
13. Gehring, M., Bubb, K. L. & Henikoff, S. Extensive demethylation of repetitive elements during seed development underlies gene imprinting. Science 324, 1447-1451 (2009).
14. Tittel-Elmer, M. et al. Stress-induced activation of heterochromatic transcription. PLoS Genet. 6, e1001175 (2010).
15. Pecinka, A. et al. Epigenetic regulation of repetitive elements is attenuated by prolonged heat stress in Arabidopsis. Plant Cell 22, 3118-3129 (2010).
16. Hirochika, H., Okamoto, H. & Kakutani, T. Silencing of retrotransposons in Arabidopsis andreactivationby the ddm1mutation. Plant Cell 12,357-369 (2000).
17. Onodera, Y. et al. Plant nuclear RNA polymerase IV mediates siRNA and DNA methylation-dependent heterochromatin formation. Cell 120, 613-622 (2005). (Pubitemid 40343074)
18. Xie, Z. et al. Genetic and functional diversification of small RNA pathways in plants. PLoS Biol. 2, e104 (2004).
19. Naumann, K. et al. Pivotal role of AtSUVH2in heterochromatic histonemethylation and gene silencing in Arabidopsis. EMBO J. 24, 1418-1429 (2005). (Pubitemid 40593062)
20. Feuerbach, F., Drouaud, J. & Lucas, H. Retrovirus-like end processing of the tobacco Tnt1 retrotransposon linear intermediates of replication. J. Virol. 71, 4005-4015 (1997). (Pubitemid 27172416)
21. Hirochika, H. & Otsuki, H. Extrachromosomal circular forms of the tobacco retrotransposon Tto1. Gene 165, 229-232 (1995).
22. Johnson, L. M., Law, J. A., Khattar, A., Henderson, I. R. & Jacobsen, S. E. SRA-domain proteins required for DRM2-mediated de novo DNA methylation. PLoS Genet. 4, e1000280 (2008).
23. Law, J. A. & Jacobsen, S. E. Establishing, maintaining and modifying DNA methylation patterns in plants and animals. Nature Rev. Genet. 11, 204-220 (2010).
24. Vaucheret, H. Plant ARGONAUTES. Trends Plant Sci. 13, 350-358 (2008).
25. Vagin, V. V. et al. A distinct small RNA pathway silences selfish genetic elements in the germline. Science 313, 320-324 (2006). (Pubitemid 44480950)
26. Piegu, B. et al. Doubling genome size without polyploidization: dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice. Genome Res. 16, 1262-1269 (2006). (Pubitemid 44506959)
27. Ammiraju, J.S. S. et al. Evolutionary dynamics of an ancient retrotransposon family provides insights into evolution of genome size in the genus Oryza. Plant J. 52, 342-351 (2007). (Pubitemid 47537588)
28. Naito, K. et al. Unexpected consequences of a sudden and massive transposon amplification on rice gene expression. Nature 461, 1130-1134 (2009).
29. Lim, C. J. et al. Gene expression profiles during heat acclimation in Arabidopsis thaliana suspension-culture cells. J. Plant Res. 119, 373-383 (2006). (Pubitemid 44126203)
30. Vongs, A., Kakutani, T., Martienssen, R. A. & Richards, E. J. Arabidopsis thaliana DNA methylation mutants. Science 260, 1926-1928 (1993). (Pubitemid 23258270)