Transgene-induced RNA interference as a tool for plant functional genomics

Methods in Enzymology

Volumn 392, Issue , 2005, Pages 1-24

  McGinnis, Karen ^a   Chandler, Vicki ^a   Cone, Karen ^a   Kaeppler, Heidi ^a   Kaeppler, Shawn ^a   Kerschen, Arthur ^a   Pikaard, Craig ^a   Richards, Eric ^a   Sidorenko, Lyudmila ^a   Smith, Todd ^a   Springer, Nathan ^a   Wulan, Tuya ^a  

^a NONE

Author keywords

[No Author keywords available]

Indexed keywords

MESSENGER RNA; PLASMID VECTOR;

ARABIDOPSIS; ARTICLE; CHROMOSOME; CONTROLLED STUDY; FUNCTIONAL GENOMICS; GENE CONSTRUCT; GENE SILENCING; GENE TARGETING; HIGH THROUGHPUT SCREENING; INTEGRATION; MAIZE; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; RNA INTERFERENCE; TRANSGENE;

ARABIDOPSIS; GENOME, PLANT; GENOMICS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA INTERFERENCE; TRANSGENES; ZEA MAYS;

ARABIDOPSIS; ARABIDOPSIS THALIANA; ZEA MAYS;

EID: 19944428174     PISSN: 00766879     EISSN: None     Source Type: Book Series    
DOI: 10.1016/S0076-6879(04)92001-0     Document Type: Article

References (48)

1. Agrawal N., Dasaradhi P.V., Mohmmed A., Malhotra P., Bhatnagar R.K., Mukherjee S.K. RNA interference: Biology, mechanism, and applications. Microbiol. Mol. Biol. Rev. 67:2003;657-685
2. Ambros V., Lee R.C., Lavanway A., Williams P.T., Jewell D. MicroRNAs and other tiny endogenous RNAs in C. elegans. Curr. Biol. 13:2003;807-818
3. Aoyama T., Chua N.H. A glucocorticoid-mediated transcriptional induction system in transgenic plants. Plant J. 11:1997;605-612
4. Armstrong C.L., Green C.E. Establishment and maintenance of friable, embryogenic maize callus and the involvement of L-proline. Planta. 164:1985;207-214
5. Armstrong C., Green C., Phillips R. Development and availability of germplasm with high Type II culture formation response. Maize Genet. Coop. Newslett. 65:1991;92-93
6. Bailis J., Forsburg S. RNAi hushes heterochromatin. Genome Biol. 3:2002;. reviews 1035.1-1035.4.
7. Carpenter A.E., Sabatini D.M. Systematic genome-wide screens of gene function. Nat. Rev. Genet. 5:2004;11-22
8. Christensen A.H., Quail P.H. Ubiquitin promoter-based vectors for high-level expression of selectable and/or screenable marker genes in monocotyledonous plants. Transgenic Res. 5:1996;213-218
9. Chu C., Wang C., Sun C., Hsu C., Yin K., Chu C., Bi F. Establishment of an efficient medium for anther culture of rice through comparative experiments of the nitrogen source. Sci. Sin. 18:1975;659-668
10. Chuang C.F., Meyerowitz E.M. Specific and heritable genetic interference by double-stranded RNA in Arabidopsis thaliana. Proc. Natl. Acad. Sci. USA. 97:2000;4985-4990
11. Clough S.J., Bent A.F. Floral dip: A simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J. 16:1998;735-743
12. Dawe R.K. RNA interference, transposons, and the centromere. Plant Cell. 15:2003;297-301
13. den Dulk-Ras A., Hooykaas P.J. Electroporation of Agrobacterium tumefaciens. Methods Mol. Biol. 55:1995;63-72
14. Dennehey B.K., Petersen W.L., Fordsantino C., Pajeau M., Armstrong C.L. Comparison of selective agents for use with the selectable marker gene bar in maize transformation. Plant Cell Tissue Organ Cult. 36:1994;1-7
15. Desfeux C., Clough S.J., Bent A.F. Female reproductive tissues are the primary target of Agrobacterium-mediated transformation by the Arabidopsis floral-dip method. Plant Physiol. 123:2000;895-904
16. Doench J.G., Petersen C.P., Sharp P.A. siRNAs can function as miRNAs. Genes Dev. 17:2003;438-442
17. Frame B.R., Shou H., Chikwamba R.K., Zhang Z., Xiang C., Fonger T.M., Pegg S.E., Li B., Nettleton D.S., Pei D., Wang K. Agrobacterium tumefaciens-mediated transformation of maize embryos using a standard binary vector system. Plant Physiol. 129:2002;13-22
18. Frame B.R., Zhang H., Cocciolone S.M., Sidorenko L.V., Dietrich C.R., Pegg S.E., Zhen S., Schnable P.S., Wang K. Production of transgenic maize from bombarded type II callus: Effect of gold particle size and callus morphology on transformation efficiency. In Vitro Dev. Biol. Plant. 36:2000;21-29
19. Fraser A.G., Kamath R.S., Zipperlen P., Martinez-Campos M., Sohrmann M., Ahringer J. Functional genomic analysis of C. elegans chromosome I by systematic RNA interference. Nature. 408:2000;325-330
20. Gallie D.R. The 5′-leader of tobacco mosaic virus promotes translation through enhanced recruitment of eIF4F. Nucleic Acids Res. 30:2002;3401-3411
21. Gaut B.S., Doebley J.F. DNA sequence evidence for the segmental allotetraploid origin of maize. Proc. Natl. Acad. Sci. USA. 94:1997;6809-6814
22. Gelvin S.B. Agrobacterium and plant genes involved in T-DNA transfer and integration. Annu. Rev. Plant Physiol. Plant Mol. Biol. 51:2000;223-256
23. Gelvin S.B. Agrobacterium-mediated plant transformation: The biology behind the "gene-jockeying" tool. Microbiol. Mol. Biol. Rev. 67:2003;16-37
24. Hajdukiewicz P., Svab Z., Maliga P. The small, versatile pPZP family of Agrobacterium binary vectors for plant transformation. Plant Mol. Biol. 25:1994;989-994
25. Hannon G.J. RNA interference. Nature. 418:2002;244-251
26. Kerschen A., Napoli C.A., Jorgensen R., Müller A.E. Effectiveness of RNA interference in transgenic plants. FEBS Lett. 566:(1-3):2004;223-228
27. Ketelaar T., Allwood E.G., Anthony R., Voigt B., Menzel D., Hussey P.J. The actin-interacting protein AIP1 is essential for actin organization and plant development. Curr. Biol. 14:2004;145-149
28. Lawrence R.J., Earley K., Pontes O., Silva M., Chen Z.J., Neves N., Viegas W., Pikaard C.S. A concerted DNA methylation/histone methylation switch regulates rRNA gene dosage control and nucleolar dominance. Mol. Cell. 13:2004;599-609
29. Lawrence R.J., Pikaard C.S. Transgene-induced RNA interference: A strategy for overcoming gene redundancy in polyploids to generate loss-of-function mutations. Plant J. 36:2003;114-121
30. Li Y.Z., Ma H.M., Zhang J.L., Wang Z.Y., Hong M.M. Effects of the first intron of rice waxy gene on the expression of foreign genes in rice and tobacco protoplasts. Plant Sci. 108:1995;181-190
31. Martienssen R.A. Maintenance of heterochromatin by RNA interference of tandem repeats. Nat. Genet. 35:2003;213-214
32. Matzke M., Matzke A.J. RNAi extends its reach. Science. 301:2003;1060-1061
33. Mersereau M., Pazour G.J., Das A. Efficient transformation of Agrobacterium tumefaciens by electroporation. Gene. 90:1990;149-151
34. Paddison P.J., Silva J.M., Conklin D.S., Schlabach M., Li M., Aruleba S., Balija V., O'Shaughnessy A., Gnoj L., Scobie K., Chang K., Westbrook T., Cleary M., Sachidanandam R., McCombie W.R., Elledge S.J., Hannon G.J. A resource for large-scale RNA-interference-based screens in mammals. Nature. 428:2004;427-431
35. Sambrook J., Russell D. "Molecular Cloning: A Laboratory Manual," 3rd Ed.:2001;Cold Spring Harbor Laboraory Press, Cold Spring Harbor, NY
36. Shirane D., Sugao K., Namiki S., Tanabe M., Iino M., Hirose K. Enzymatic production of RNAi libraries from cDNAs. Nat. Genet. 36:2004;190-196
37. Simmer F., Moorman C., Van Der Linden A.M., Kuijk E., Van Den Berghe P.V., Kamath R., Fraser A.G., Ahringer J., Plasterk R.H. Genome-wide RNAi of C. elegans using the hypersensitive rrf-3 strain reveals novel gene functions. PLoS Biol. 1:2003;E12
38. Sleat D.E., Gallie D.R., Jefferson R.A., Bevan M.W., Turner P.C., Wilson T.M. Characterisation of the 5′-leader sequence of tobacco mosaic virus RNA as a general enhancer of translation in vitro. Gene. 60:1987;217-225
39. Smith N.A., Singh S.P., Wang M.B., Stoutjesdijk P.A., Green A.G., Waterhouse P.M. Total silencing by intron-spliced hairpin RNAs. Nature. 407:2000;319-320
40. Songstad D.D., Armstrong C.L., Petersen W.L. Agno3 increases Type-II callus production from immature embryos of maize inbred B73 and its derivatives. Plant Cell Rep. 9:1991;699-702
41. Spencer T.M., O'Brien J.V., Start W.G., Adams T.R., Gordon-Kamm W.J., Lemaux P.G. Segregation of transgenes in maize. Plant Mol. Biol. 18:1992;201-210
42. Thompson C.J., Movva N.R., Tizard R., Crameri R., Davies J.E., Lauwereys M., Botterman J. Characterization of the herbicide-resistance gene Bar from Streptomyces hygroscopicus. EMBO J. 6:1987;2519-2523
43. Waterhouse P.M., Graham M.W., Wang M.B. Virus resistance and gene silencing in plants can be induced by simultaneous expression of sense and antisense RNA. Proc. Natl. Acad. Sci. USA. 95:1998;13959-13964
44. Waterhouse P.M., Helliwell C.A. Exploring plant genomes by RNA-induced gene silencing. Nat. Rev. Genet. 4:2003;29-38
45. Wesley S.V., Helliwell C.A., Smith N.A., Wang M., Rouse D.T., Liu Q., Gooding P.S., Singh S.P., Abbott D., Stoutjesdijk P.A., Robinson S.P., Gleave A.P., Green A.G., Waterhouse P.M. Construct design for efficient, effective and high-throughput gene silencing in plants. Plant J. 27:2001;581-590
46. Xiao H., Wang Y., Liu D., Wang W., Li X., Zhao X., Xu J., Zhai W., Zhu L. Functional analysis of the rice AP3 homologue OsMADS16 by RNA interference. Plant Mol. Biol. 52:2003;957-966
47. Zentella R., Yamauchi D., Ho T.H. Molecular dissection of the gibberellin/abscisic acid signaling pathways by transiently expressed RNA interference in barley aleurone cells. Plant Cell. 14:2002;2289-2301
48. Zupan J., Muth T.R., Draper O., Zambryski P. The transfer of DNA from Agrobacterium tumefaciens into plants: A feast of fundamental insights. Plant J. 23:2000;11-28