Transgene regulation in plants by alternative splicing of a suicide exon

Nucleic Acids Research

Volumn 40, Issue 10, 2012, Pages 4701-4710

  Hickey, Scott F ^a   Sridhar, Malathy ^a   Westermann, Alexander J ^b   Qin, Qian ^a   Vijayendra, Pooja ^a   Liou, Geoffrey ^a   Hammond, Ming C ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b UNIVERSITY OF WÜRZBURG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

GLUTAMIC ACID; GLYCINE; LYSINE;

ALTERNATIVE RNA SPLICING; ARTICLE; EXON; EXON SKIPPING; GENE ACTIVATION; GENE CASSETTE; GENE DOSAGE; GENE EXPRESSION; NONHUMAN; OPEN READING FRAME; PRIORITY JOURNAL; SUICIDE GENE; TRANSCRIPTION REGULATION; TRANSGENE;

ALTERNATIVE SPLICING; ARABIDOPSIS PROTEINS; EXONS; GENE EXPRESSION REGULATION, PLANT; OPEN READING FRAMES; TOBACCO; TRANSGENES;

EID: 84861555033     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gks032     Document Type: Article

References (33)

1. Chen, M. and Manley, J.L. (2009) Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches. Nat. Rev. Mol. Cell Biol., 10, 741-754.
2. Lopez, A.J. (1998) Alternative splicing of pre-mRNA: developmental consequences and mechanisms of regulation. Annu. Rev. Genet., 32, 279-305.
3. Terzi, L.C. and Simpson, G.G. (2008) Regulation of flowering time by RNA processing. Curr. Top. Microbiol., 326, 201-218.
4. Ali, G.S. and Reddy, A.S. (2008) Regulation of alternative splicing of pre-mRNAs by stresses. Curr. Top. Microbiol., 326, 257-275.
5. Gassmann, W. (2008) Alternative splicing in plant defense. Curr. Top. Microbiol., 326, 219-233.
6. Kojima, S., Shingle, D.L. and Green, C.B. (2011) Post-transcriptional control of circadian rhythms. J. Cell Sci., 124, 311-320.
7. Campbell, M.A., Haas, B.J., Hamilton, J.P., Mount, S.M. and Buell, C.R. (2006) Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis. BMC Genomics, 7, 327.
8. Wang, B.B. and Brendel, V. (2006) Genomewide comparative analysis of alternative splicing in plants. Proc. Natl Acad. Sci. USA, 103, 7175-7180.
9. Padidam, M. (2003) Chemically regulated gene expression in plants. Curr. Opin. Plant Biol., 6, 169-177.
10. Singer, S.D., Cox, K.D. and Liu, Z. (2011) Enhancer-promoter interference and its prevention in transgenic plants. Plant Cell Rep., 30, 723-731.
11. Halpin, C. (2005) Gene stacking in transgenic plants-the challenge for 21st century plant biotechnology. Plant Biotechnol. J., 3, 141-155.
12. Kertesz, S., Kerenyi, Z., Merai, Z., Bartos, I., Palfy, T., Barta, E. and Silhavy, D. (2006) Both introns and long 3'-UTRs operate as cis-acting elements to trigger nonsense-mediated decay in plants. Nucleic Acids Res., 34, 6147-6157.
13. Kerenyi, Z., Merai, Z., Hiripi, L., Benkovics, A., Gyula, P., Lacomme, C., Barta, E., Nagy, F. and Silhavy, D. (2008) Inter-kingdom conservation of mechanism of nonsense-mediated mRNA decay. EMBO J., 27, 1585-1595.
14. Weigand, J.E. and Suess, B. (2007) Tetracycline aptamer-controlled regulation of pre-mRNA splicing in yeast. Nucleic Acids Res., 35, 4179-4185.
15. Culler, S.J., Hoff, K.G. and Smolke, C.D. (2010) Reprogramming cellular behavior with RNA controllers responsive to endogenous proteins. Science, 330, 1251-1255.
16. Kim, D.S., Gusti, V., Dery, K.J. and Gaur, R.K. (2008) Ligand-induced sequestering of branchpoint sequence allows conditional control of splicing. BMC Mol. Biol., 9, 23.
17. Cooper, T.A. (2005) Use of minigene systems to dissect alternative splicing elements. Methods, 37, 331-340.
18. Croft, M.T., Moulin, M., Webb, M.E. and Smith, A.G. (2007) Thiamine biosynthesis in algae is regulated by riboswitches. Proc. Natl Acad. Sci. USA, 104, 20770-20775.
19. Wachter, A., Tunc-Ozdemir, M., Grove, B.C., Green, P.J., Shintani, D.K. and Breaker, R.R. (2007) Riboswitch control of gene expression in plants by splicing and alternative 3' end processing of mRNAs. Plant Cell, 19, 3437-3450.
20. Bocobza, S., Adato, A., Mandel, T., Shapira, M., Nudler, E. and Aharoni, A. (2007) Riboswitch-dependent gene regulation and its evolution in the plant kingdom. Gene Dev., 21, 2874-2879.
21. Sudarsan, N., Barrick, J.E. and Breaker, R.R. (2003) Metabolite-binding RNA domains are present in the genes of eukaryotes. RNA, 9, 644-647.
22. Cooper, T.A., Wan, L. and Dreyfuss, G. (2009) RNA and disease. Cell, 136, 777-793.
23. Hammond, M.C., Wachter, A. and Breaker, R.R. (2009) A plant 5S ribosomal RNA mimic regulates alternative splicing of transcription factor IIIA pre-mRNAs. Nat. Struct. Mol. Biol., 16, 541-549.
24. Horton, R.M., Cai, Z.L., Ho, S.N. and Pease, L.R. (1990) Gene splicing by overlap extension: tailor-made genes using the polymerase chain reaction. Biotechniques, 8, 528-535.
25. Hofgen, R. and Willmitzer, L. (1990) Biochemical and genetic-analysis of different patatin isoforms expressed in various organs of potato (Solanum-Tuberosum). Plant Sci., 66, 221-230.
26. Fu, Y., Bannach, O., Chen, H., Teune, J.H., Schmitz, A., Steger, G., Xiong, L. and Barbazuk, W.B. (2009) Alternative splicing of anciently exonized 5S rRNA regulates plant transcription factor TFIIIA. Genome Res., 19, 913-921.
27. Yoine, M., Ohto, M.A., Onai, K., Mita, S. and Nakamura, K. (2006) The lba1 mutation of UPF1 RNA helicase involved in nonsense-mediated mRNA decay causes pleiotropic phenotypic changes and altered sugar signalling in Arabidopsis. Plant J., 47, 49-62.
28. Schwartz, S.H., Silva, J., Burstein, D., Pupko, T., Eyras, E. and Ast, G. (2008) Large-scale comparative analysis of splicing signals and their corresponding splicing factors in eukaryotes. Genome Res., 18, 88-103.
29. Maquat, L.E., Tarn, W.Y. and Isken, O. (2010) The pioneer round of translation: features and functions. Cell, 142, 368-374.
30. Burge, C.B., Tuschl, T. and Sharp, P.A. (1999) Splicing of precursors to mRNAs by the spliceosomes. In: Gesteland, R.F., Cech, T.R. and Atkins, J.F. (eds), The RNA World, 2nd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, pp. 525-560.
31. Schuler, M.A. (2008) Splice site requirements and switches in plants. Curr. Top. Microbiol., 326, 39-59.
32. Egoavil, C., Marton, H.A., Baynton, C.E., McCullough, A.J. and Schuler, M.A. (1997) Structural analysis of elements contributing to 5' splice site selection in plant pre-mRNA transcripts. Plant J., 12, 971-980.
33. Aoyama, T. and Chua, N.H. (1997) A glucocorticoid-mediated transcriptional induction system in transgenic plants. Plant J., 11, 605-612.