Virus induced gene silencing in Brachypodium distachyon, a model organism for cereals

Plant Cell, Tissue and Organ Culture

Volumn 100, Issue 1, 2010, Pages 91-96

  Demircan, Turan ^a   Akkaya, Mahinur S ^a  

^a MIDDLE EAST TECHNICAL UNIVERSITY   (Turkey)

Author keywords

Brachypodium distachyon; Gene silencing; GFP expression; Phytoene desaturase (PDS) gene; qRT PCR; VIGS

Indexed keywords

EID: 77952664598     PISSN: 01676857     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11240-009-9623-x     Document Type: Article

References (33)

1. Bennett MD, Leitch IJ (2005) Plant genome size research: a field in focus. Ann Bot (Lond) 95:1-6.
2. Bozkurt O, Unver T, Akkaya MS (2007) Genes associated with resistance to wheat yellow rust disease identified by differential display analysis. Physiol Mol Plant Pathol 71:251-259.
3. Brodersen P, Sakvarelidze-Achard L, Bruun-Rasmussen M, Dunoyer P, Yamamoto YY, Sieburth L, Voinnet O (2008) Widespread translational inhibition by plant miRNAs and siRNAs. Science 320:1185-1190. doi:10.1126/science.1159151.
4. Brunn-Rasmussen M, Madsen CT, Jessing S, Albrechtsen M (2007) Stability of Barley stripe mosaic virus-i{dotless}nduced gene silencing in barley. Mol Plant Microbe Interact 20:1323-1331.
5. Caplen NJ, Parrish S, Imani F, Fire A, Morgan RA (2001) Specific inhibition of gene expression by small double-stranded RNAs in invertebrate and vertebrate systems. Proc Natl Acad Sci USA 98:9742-9747.
6. Christiansen P, Didion T, Andersen C, Folling M, Nielsen K (2005) A rapid and efficient transformation protocol for the grass Brachypodium distachyon. Plant Cell Rep 23:751-758.
7. Dereeper A, Guignon V, Blanc G, Audic S, Buffet S, Chevenet F, Dufayard JF, Guindon S, Lefort V, Lescot M, Claverie JM, Gascuel O (2008) Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res 36:465-469. doi: 10.1093/nar/gkn180.
8. Devos KM, Beales J, Nagamura Y, Sasaki T (1999) Arabidopsis- rice: will colinearity allow gene prediction across the eudicotmonocot divide? Genome Res 9:825-829.
9. Draper J, Mur LA, Jenkins G, Ghosh-Biswas GC, Bablak P, Hasterok R, Routledge AP (2001) Brachypodium distachyon. A new model system for functional genomics in grasses. Plant Physiol 127:1539-1555.
10. Engvild KC (2005) Mutagenesis of the model grass Brachypodium distachyon with sodium azide. Risoe-R-1510 (EN) Report. Risoe National Laboratory, Roskilde, Denmark
11. Garvin DF, Gu YQ, Hasterok R, Hazen SP, Jenkins G, Mockler TC, Mur LAC, Vogel JP (2008) Development of genetic and genomic research resources for Brachypodium distachyon, a new model system for grass crop research. Crop Sci 48:69-84.
12. Hasterok R, Draper J, Jenkins G (2004) Laying the cytotaxonomic foundations of a new model grass, Brachypodium distachyon (L.) Beauv. Chromosome Res 12:397-403.
13. Hasterok R, Marasek A, Donnison IS, Armstead I, Thomas A, King IP, Wolny E, Idziak D, Draper J, Jenkins G (2006) Alignment of the genomes of Brachypodium distachyon and temperate cereals and grasses using bacterial artificial chromosome landing with fluorescence in situ hybridization. Genetics 173:349-362.
14. Holzberg S, Brosio P, Gross C, Pogue GP (2002) Barley stripe mosaic virus induced gene silencing in a monocot plant. Plant J 30: 315-327.
15. Huo N, Gu Y, Lazo G, Vogel J, Coleman-Derr D, Luo M, Thilmony R, Garvin DF, Anderson OD (2006) Construction and characterization of two BAC libraries from Brachypodium distachyon, a new model for grass genomics. Genome 49:1099-1108.
16. Keller B, Feuillet C (2000) Colinearity in the grass genomes. Trends Plant Sci 5:246-251.
17. Opanowicz M, Vain P, Draper J, Parker D, Doonan JH (2008) Brachypodium distachyon: making hay with a wild grass. Trends Plant Sci 13:172-177. doi:10.1016/j.tplants.2008.01.007.
18. Pǎcurar DI, Thordal-Christensen H, Nielsen KK, Lenk I (2008) A high-throughput Agrobacterium-mediated transformation system for the grass model species Brachypodium distachyon L. Transgenic Res 17:965-975. doi:10.1007/s11248-007-9159-y
19. Parinov S, Sevugan M, Ye D, Yang WC, Kumaran M, Sundaresan V (1999) Analysis of flanking sequences from dissociation insertion lines: a database for reverse genetics in Arabidopsis. Plant Cell 11:2263-2270.
20. Pfaffl MW (2001) A new mathematical model for relative quantification in real-time RT PCR. Nucleic Acids Res 29: 2002-2007.
21. Pogue GP, Lindbo JA, Dawson WO, Turpen TH (1998) Tobamovirus transient expression vectors: tools for plant biology and highlevel expression of foreign proteins in plants. Kluwer Academic Publishers, Dordrecht, pp 1-27.
22. Qin G, Gu H, Ma L, Peng Y, Deng XW, Chen Z, Qu LJ (2007) Disruption of phytoene desaturase gene results in albino and dwarf phenotypes in Arabidopsis by impairing chlorophyll, carotenoid, and gibberellin biosynthesis. Cell Res 17:471-482.
23. Rana TM (2007) Illuminating the silence: understanding the structure and function of small RNAs. Nat Rev Mol Cell Biol 8:23-36.
24. Robertson D (2004) VIGS vectors for gene silencing: many targets, many tools. Annu Rev Plant Biol 55:495-519.
25. Routledge APM, Shelley G, Smith JV, Talbot NJ, Draper J, Mur LAL (2004) Magnaporthe grisea interactions with the model grass Brachypodium distachyon closely resembles those with rice (Oryza sativa). Mol Plant Pathol 5:253-265.
26. Scofield SR, Huang L, Brandt AS, Gill BS (2005) Development of a virus-induced gene silencing system for hexaploid wheat and its use in functional analysis of the Lr21-mediated leaf rust resistance pathway. Plant Physiol 138:2165-2173.
27. Thompson JD et al (1997) The CLUSTAL-X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876-4882.
28. Tikhonov AP, San Miguel PJ, Nakajima Y, Gorenstein NM, Bennetzen JL, Avramova Z (1999) Colinearity and its exceptions in orthologous adh regions of maize and sorghum. Proc Natl Acad Sci USA 96:7409-7414.
29. Tuschi T, Zamore PD, Lehmann R, Bartel DP, Sharp PA (1999) Targeted mRNA degradation by double stranded RNA in vitro. Genes Dev 13:3191-3197.
30. Twyman RM, Christou P, Stöger E (2002) Genetics transformation of plants and their cells. In: Oksman-Caldentey K-M, Barz WH (eds) Plant biotechnology and transgenic plants. CRC Press, USA, pp 111-143.
31. Vogel JP, Gu YQ, Twigg P, Lazo GR, Laudencia-Chingcuanco D, Hayden DM, Donze TJ, Vivian LA, Stamova B, Coleman-Derr D (2006) EST sequencing and phylogenetic analysis of the model grass Brachypodium distachyon. Theor Appl Genet 113:186-195.
32. Winkler RG, Frank MR, Galbraith DW, Feyereisen R, Feldmann KA (1998) Systematic reverse genetics of transfer-DNA-tagged lines of Arabidopsis. Isolation of mutations in the cytochrome p450 gene superfamily. Plant Physiol 118:743-750.
33. Zamore PD, Tuschl T, Sharp PA, Bartel DP (2000) RNAi: doublestranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 101:25-33