Yaşar KARAKURT, Ünlü Halime ÖZDAMAR, HÜSNÜ ÜNLÜ

Bitkilerde RNAi' nin çalışma mekanizması ve kullanım alanları

Bitkilerde RNA müdahale (RNAi) sistemi virüs enfeksiyonu, transgenler, tekrarlı elementler ve transpozonlar gibi bir çok uyarıcıya tepki gösterir. Bu uyarıcıların hepsi mRNA parçalanmasından protein sentezinin baskılanması ve kromatinlerin yeniden şekillenmesine kadar değişen susturucu sonuçlara yol açarlar. Böylece bitkiler RNAi‟nin etkili mekanizmalarının tamamını anlamak için araştırıcılara önemli olanaklar sunmaktadır. Bu derlemede bitki RNA mekanizmalarının biyokimyasal açıdan anlaşılmasına yardımcı olacak son gelişmeler ele alınmakta ve RNAi‟nin kullanımının sağlayacağı potansiyel yararlar üzerinde durulmaktadır.

Anahtar Kelimeler:

proteinler, RNA, interferans

RNAi-Operating mechanism and its potential uses in plants

In plants, the RNA interference (RNAi) system responds to a number of triggers including transgenes, viral infection, transposons, and repeated elements. All of these triggers lead to silencing outcomes ranging from transactional repression to mRNA degradation to chromatin remodeling. Hence, plants provide us with a unique opportunity to understand the full array of RNAi effector mechanisms. In the present review, the recent developments in understanding of plant RNAi mechanisms are discussed from a biochemical perspective and the potential benefits of RNAi are evaluated.

Keywords:

proteins, RNA, interference,

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Anonim, 2006. E-cadherin Genini RNAi ile Susturmak. www.genbilim.com
Anonim,2007.sİRNA ve İşlevsel Genomik Uygulamalar. www.gmbae.tubitak.gov.tr/tur/populer/
Baulcombe, D., 2004. RNA Silencing in Plants. Nature 431: 356–363.
Baumberger, N., Baulcombe, D. C., 2005. Arabidopsis ARGONAUTE1 is an RNA Slicer thatSelectively Recruits microRNAs and Short Interfering RNAs. Proceedings of National Academy of Science of USA 102: 11928–11933.
Bernstein, E., Caudy, A.A., Hammond, S.M., Hannon, G.J., 2001. Role for a Bidentate Ribonuclease in the Initiation Step of RNA Interference. Nature 409: 363–366.
Bohmert, K., Camus, I., Bellini, C., Bouchez, D., Caboche, M., Benning, C., 1998. AGO1 Defines A Novel Locus of Arabidopsis Controlling Leaf Development. European Molecular Biology Journal 17: 170–180.
Boutet, S., Vazquez, F., Liu, J., Beclin, C., Fagard, M., 2003. Arabidopsis HEN1: A Genetic Link Between Endogenous miRNA Controlling Development and siRNA Controlling Transgene Silencing and Virus Resistance. Current Biology 13: 843–48.
Carthew, R.W. 2001. Gene Silencing by Double-Stranded RNA. Current Opinion in Cell Biology 13: 244–248.
Chen, X., 2004. A microRNA as A Translational Repressor Of APETALA2 in Arabidopsis Flower Development. Science 303: 2022–2025.
Chuang, C.F., Meyerowitz, E.M., 2000. Specific and Heritable Genetic Interference by Double- Stranded RNA in Arabidopsis thaliana. Proceedings of the National Academy of Sciences, USA 97: 4985–4990.
Finnegan, E.J., Margis, R., Waterhouse, P.M., 2003. Posttranscriptional Gene Silencing Is Not Compromised in the Arabidopsis CARPEL FACTORY (DICER-LIKE1) Mutant, A Homologue of Dicer-1 from Drosophila. Current Biology 13: 236–240.
Gupta, S., Schoer, R.A., Egan, J.E., 2004. Inducible, Reversible, and Stable RNA Interference in Mammalian Cells. Proceedings of the National Academy of Sciences, USA 101:1927-32.
Gürdilek, R., 2006. Nobel Ödülleri. Bilim ve Teknik Dergisi. Kasım 2006, 12-13.
Hamilton, A.J., Baulcombe, D.C., 1999. A Species of Small Antisense RNA in Post Transcriptional Gene Silencing in Plants. Science 286: 950–952.
Hamilton, A., Voinnet, O., Chappell, L., Baulcombe, D., 2002. Two Classes of Short Interfering RNA in RNA Silencing. European Molecular Biology Journal. 21: 4671–4679.
Hammond, S.M., Bernstein, E., Beach, D., Hannon, G.J., 2000. An RNA-Directed Nuclease Mediates Post-Transcriptional Gene Silencing in Drosophila Cells. Nature 404: 293–296.
Hammond, S.M., Boettcher, S., Caudy, A.A., Kobayashi, R., Hannon, G.J., 2001. Argonaute2, a link between genetic and biochemical analyses of RNAi. Science 293: 1146–1150.
Hannon, G. J., 2002. RNA Interference. Nature 418: 244–251.
Hunter, C., Sun, H., Poethig, R. S., 2003. The Arabidopsis Heterochronic Gene ZIPPY Is An ARGONAUTE Family Member. Current Biology. 13: 1734–1739.
Hoffman, T., Kalinowski, G., Schwab, W., 2006. RNAi Induced Silencing of Gene Expression in Strawberry Fruit (Fragaria ananassa) by Agroinfiltration: A Rapid Assay for Gene Function Analysis. The Plant Journal. 48: 818–826
Lee, Y., Ahn, C., Han, J., 2003. The Nuclear RNase III Drosha Initiates microRNA Processing. Nature 425: 415–419.
Lee, Y.S., Nakahara, K., Pham, J.W., Kim, K., He, Z., Sontheimer, E.J., Carthew, R.W., 2004. Distinct Roles for Drosophila Dicer-1 and Dicer-2 in the siRNA/miRNA Silencing Pathways. Cell. 117: 69–81.
Lynn, K., Fernandez, A., Aida, M., Sedbrook, J., Tasaka, M., Masson, P., Barton, M.K., 1999. The PINHEAD/ZWILLE Gene Acts Pleiotropically in Arabidopsis Development and Has Overlapping Functions with the ARGONAUTE1 Gene. Development. 126: 469–481.
Matranga, C., Zamore, P.D., 2004. Plant RNA Interference in vitro. Cold Spring Harbor Symposia On Quantitative Biology. 69: 403-408.
Morel, J.B., Godon, C., Mourrain, P., Beclin, C., Boutet, S., Feuerbach, F., Proux, F., Vaucheret, H., 2002. Fertile Hypomorphic ARGONAUTE (ago1) Mutants Impaired in Post Transcriptional Gene Silencing and Virus Resistance. Plant Cell. 14: 629–639.
Orzaez, D., Mirabel, S., Wieland, W.H., Granell, A., 2006. Agroinfiltration of Tomato Fruits. A Tool for Rapid Functional Analysis of Transgenes Directly in Fruit. Plant Physiology. 140: 3–11.
Qi, Y., Denli, A.M., Hannon, G.J., 2005. Biochemical Specialization within Arabidopsis RNA Silencing Pathways. Molecular Cell. 19: 421–428.
Reinhart, B. J., Weinstein, E. G., Rhoades, M. W., Bartel, B., Bartel, D. P., 2002. MicroRNAs in Plants. Genes and Development 16: 1616–1626.
Schauer, S.E., Jacobsen, S.E., Meinke, D.W., Ray, A., 2002. DICER-LIKE1: Blind Men and Elephants in Arabidopsis Development. Trends in Plant Sciences. 7: 487–491.
Song, J.J., Smith, S.K., Hannon, G. J., Joshua-Tor, L., 2004. Crystal Structure of Argonaute and Its Implications for RISC Slicer Activity. Science 305: 1434–1437.
Tang, G., Reinhart, B.J., Bartel, D.P., Zamore, P.D., 2003. A Biochemical Framework for RNA Silencing in Plants. Genes and Development 17: 49–63.
Tian, B., Bevilacqua, P.C., Diegelman-Parente, A., Mathews, M.B., 2004. The Double- Stranded-RNA-Binding Motif: Interference and Much More. National Reviews in Molecular Cell Biology 5: 1013–1023.
Tomari, Y., Du, T., Haley, B., 2004. RISC Assembly Defects in the Drosophila RNAi Mutant Armitage. Cell 116: 831–41.
Tomari, Y., Matranga, C., Haley, B., Martinez, N., Zamore, P.D., 2004. A Protein Sensor for siRNA Asymmetry. Science 306: 1377–1380.
Vazquez, F., Gasciolli, V., Crete, P., Vaucheret, H., 2004. The Nuclear dsRNA Binding Protein HYL1 Is Required for microRNA Accumulation and Plant Development, but Not Post Transcriptional Transgene Silencing. Current Biology 14: 346–351.
Verdel, A., Jia, S., Gerber, S., Sugiyama, T., Gygi, S., Grewal, S.I., Moazed, D., 2004. RNAi- Mediated Targeting of Heterochromatin by the RITS Complex. Science 303: 672–676.
Waterhouse, P. M., Wang, M. B., Lough, T., 2001. Gene Silencing as An Adaptive Defence Against Viruses. Nature 411: 834–842.
Waterhouse, P.M., Helliwell, C.A., 2003. Exploring Plant Genomes by RNA-induced Gene Silencing. Nature Reviews Genetics 4: 29–38.
Wesley, S.V., Helliwell, C.A., Smith, N.A., Wang, M.B., Rouse, D.T., Liu, Q., Gooding, P.S., Singh, S.P., Abbott, D., Stoutjesdijk, P.A., Robinson, S.P., Gleave, A.P., Gren, A.G., Waterhouse, P.M., 2001. Construct Design for Efficient, Effective and High- Throughput Gene Silencing in Plants. Plant Journal, 27: 581–590.
Xie, Z., Johansen, L.K., Gustafson, A.M., Kasschau, K.D., Lellis, A.D., Zilberman, D., Jacobsen, S.E., Carrington, J.C., 2004. Genetic and Functional Diversification of Small RNA Pathways in Plants. PLoS Biology 2, E104.
Yu, B., Yang, Z., Li, J., Minakhina, S., Yang, M., Padgett, R. W., Steward, R., Chen, X., 2005.Methylation as A Crucial Step in Plant microRNA Biogenesis. Science 307: 932–935.
Zang, X.X., Loke, P., Kim, J., 2003. B7x: A Widely Expressed B7 Family Member that Inhibits T Cell Activation. Proceedings of The National Academy of Sciences, USA 100: 10388-10392.
Zhang, H., Kolb, F.A., Jaskiewicz, L., Westhof, E., Filipowicz, W., 2004. Single Processing Center Models for Human Dicer and Bacterial RNase III. Cell 118: 57–68.
Zilberman, D., Cao, X., Johansen, L.K., Xie, Z., Carrington, J.C., Jacobsen, S.E., 2004. Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA Methylation Triggered by Inverted Repeats. Current Biology 14: 1214–1220.