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BioMed Research International
Volume 2013 (2013), Article ID 307145, 7 pages
http://dx.doi.org/10.1155/2013/307145
Research Article

miR156- and miR171-Binding Sites in the Protein-Coding Sequences of Several Plant Genes

Al-Farabi Kazakh National University, 71 Al-Farabi Avenue, Building No.6, Almaty 050038, Kazakhstan

Received 26 February 2013; Revised 20 May 2013; Accepted 23 June 2013

Academic Editor: Vassily Lyubetsky

Copyright © 2013 Assyl Bari et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Linked References

  1. J. T. Cuperus, N. Fahlgren, and J. C. Carrington, “Evolution and functional diversification of MIRNA genes,” Plant Cell, vol. 23, no. 2, pp. 431–442, 2011. View at Publisher · View at Google Scholar · View at Scopus
  2. Z. Tang, L. Zhang, C. Xu et al., “Uncovering small RNA-mediated responses to cold stress in a wheat thermosensitive genic male-sterile line by deep sequencing,” Plant Physiology, vol. 159, no. 2, pp. 721–738, 2012.
  3. G. Wu and R. S. Poethig, “Temporal regulation of shoot development in Arabidopsis thaliana by miRr156 and its target SPL3,” Development, vol. 133, no. 18, pp. 3539–3547, 2006. View at Publisher · View at Google Scholar · View at Scopus
  4. A. Yamaguchi, M.-F. Wu, L. Yang, G. Wu, R. S. Poethig, and D. Wagner, “The MicroRNA-regulated SBP-Box transcription factor SPL3 is a direct upstream activator of LEAFY, FRUITFULL, and APETALA1,” Developmental Cell, vol. 17, no. 2, pp. 268–278, 2009. View at Publisher · View at Google Scholar · View at Scopus
  5. S. Schwarz, A. V. Grande, N. Bujdoso, H. Saedler, and P. Huijser, “The microRNA regulated SBP-box genes SPL9 and SPL15 control shoot maturation in Arabidopsis,” Plant Molecular Biology, vol. 67, no. 1-2, pp. 183–195, 2008. View at Publisher · View at Google Scholar · View at Scopus
  6. S. H. Cho, C. Coruh, and M. J. Axtella, “miR156 and miR390 regulate tasiRNA accumulation and developmental timing in Physcomitrella patens,” Plant Cell, vol. 24, no. 12, pp. 4837–4849, 2012.
  7. U. Chorostecki, V. A. Crosa, A. F. Lodeyro et al., “Identification of new microRNA-regulated genes by conserved targeting in plant species,” Nucleic Acids Research, vol. 40, no. 18, pp. 8893–8904, 2012.
  8. Y. Meng, C. Shao, H. Wang, and M. Chen, “The regulatory activities of plant microRNAs: a more dynamic perspective,” Plant Physiology, vol. 157, no. 4, pp. 1583–1595, 2011. View at Publisher · View at Google Scholar · View at Scopus
  9. T. Hewezi, T. R. Maier, D. Nettleton, and T. J. Baum, “The arabidopsis microrna396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection,” Plant Physiology, vol. 159, no. 1, pp. 321–335, 2012. View at Publisher · View at Google Scholar · View at Scopus
  10. J. J. Kim, J. H. Lee, W. Kim, H. S. Jung, P. Huijser, and J. H. Ahn, “The microrNA156-SQUAMOSA promoter binding protein-like3 module regulates ambient temperature-responsive flowering via flowering locus in Arabidopsis,” Plant Physiology, vol. 159, no. 1, pp. 461–478, 2012. View at Publisher · View at Google Scholar · View at Scopus
  11. B. John, A. J. Enright, A. Aravin, T. Tuschl, C. Sander, and D. S. Marks, “Human microRNA targets,” Plos Biology, vol. 2, no. 11, article e363, 2004. View at Publisher · View at Google Scholar · View at Scopus
  12. M. Kiriakidou, P. T. Nelson, A. Kouranov et al., “A combined computational-experimental approach predicts human microRNA targets,” Genes and Development, vol. 18, no. 10, pp. 1165–1178, 2004. View at Publisher · View at Google Scholar · View at Scopus
  13. A. Krek, D. Grün, M. N. Poy et al., “Combinatorial microRNA target predictions,” Nature Genetics, vol. 37, no. 5, pp. 495–500, 2005. View at Publisher · View at Google Scholar · View at Scopus
  14. F. Grey, R. Tirabassi, H. Meyers et al., “A viral microRNA down-regulates multiple cell cycle genes through mRNA 5'UTRs,” Plos pathogens, vol. 6, no. 6, article e1000967, 2010. View at Publisher · View at Google Scholar · View at Scopus
  15. F. Moretti, R. Thermann, and M. W. Hentze, “Mechanism of translational regulation by miR-2 from sites in the 5′ untranslated region or the open reading frame,” RNA, vol. 16, no. 12, pp. 2493–2502, 2010. View at Publisher · View at Google Scholar · View at Scopus
  16. M. Schnall-Levin, O. S. Rissland, W. K. Johnston, N. Perrimon, D. P. Bartel, and B. Berger, “Unusually effective microRNA targeting within repeat-rich coding regions of mammalian mRNAs,” Genome Research, vol. 21, no. 9, pp. 1395–1403, 2011. View at Publisher · View at Google Scholar · View at Scopus
  17. Y. Wang, A. Itaya, X. Zhong et al., “Function and evolution of a microRNA that regulates a caspi2+ -ATPase and triggers the formation of phased small interfering rnas in tomato reproductive Growth,” Plant Cell, vol. 23, no. 9, pp. 3185–3203, 2011. View at Publisher · View at Google Scholar · View at Scopus
  18. L. da Sacco and A. Masotti, “Recent insights and novel bioinformatics tools to understand the role of microRNAs binding to 5′ untranslated region,” International Journal of Molecular Sciences, vol. 14, no. 1, pp. 480–495, 2013.
  19. G. Wu, M. Y. Park, S. R. Conway, J.-W. Wang, D. Weigel, and R. S. Poethig, “The sequential action of miR156 and miR172 regulates developmental timing in arabidopsis,” Cell, vol. 138, no. 4, pp. 750–759, 2009. View at Publisher · View at Google Scholar · View at Scopus
  20. E. M. Engstrom, C. M. Andersen, J. Gumulak-Smith et al., “Arabidopsis homologs of the petunia HAIRY MERISTEM gene are required for maintenance of shoot and root indeterminacy,” Plant Physiology, vol. 155, no. 2, pp. 735–750, 2011. View at Publisher · View at Google Scholar · View at Scopus
  21. J. Krüger and M. Rehmsmeier, “RNAhybrid: MicroRNA target prediction easy, fast and flexible,” Nucleic Acids Research, vol. 34, pp. W451–W454, 2006. View at Publisher · View at Google Scholar · View at Scopus
  22. G. E. Crooks, G. Hon, J.-M. Chandonia, and S. E. Brenner, “WebLogo: a sequence logo generator,” Genome Research, vol. 14, no. 6, pp. 1188–1190, 2004. View at Publisher · View at Google Scholar · View at Scopus
  23. L. P. Lim, N. C. Lau, P. Garrett-Engele et al., “Microarray analysis shows that some microRNAs downregulate large numbers of-target mRNAs,” Nature, vol. 433, no. 7027, pp. 769–773, 2005. View at Publisher · View at Google Scholar · View at Scopus
  24. K. K.-H. Farh, A. Grimson, C. Jan et al., “Biochemistry: the widespread impact of mammalian microRNAs on mRNA repression and evolution,” Science, vol. 310, no. 5755, pp. 1817–1821, 2005. View at Publisher · View at Google Scholar · View at Scopus
  25. B. P. Lewis, C. B. Burge, and D. P. Bartel, “Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets,” Cell, vol. 120, no. 1, pp. 15–20, 2005. View at Publisher · View at Google Scholar · View at Scopus
  26. U. A. Ørom, F. C. Nielsen, and A. H. Lund, “MicroRNA-10a binds the 5′UTR of ribosomal protein mRNAs and enhances their translation,” Molecular Cell, vol. 30, no. 4, pp. 460–471, 2008. View at Publisher · View at Google Scholar · View at Scopus
  27. I. Lee, S. S. Ajay, I. Y. Jong et al., “New class of microRNA targets containing simultaneous 5′-UTR and 3′-UTR interaction sites,” Genome Research, vol. 19, no. 7, pp. 1175–1183, 2009. View at Publisher · View at Google Scholar · View at Scopus
  28. X. Zhou, X. Duan, J. Qian, and F. Li, “Abundant conserved microRNA target sites in the 5′-untranslated region and coding sequence,” Genetica, vol. 137, no. 2, pp. 159–164, 2009. View at Publisher · View at Google Scholar · View at Scopus
  29. A. S. Issabekova, O. A. Berillo, M. Regnier, and A. T. Ivashchenko, “Interactions of intergenic microRNAs with mRNAs of genes involved in carcinogenesis,” Bioinformation, vol. 8, no. 11, pp. 513–518, 2012.
  30. S. Miura, M. Nozawa, and M. Nei, “Evolutionary changes of the target sites of two MicroRNAs encoded in the Hox gene cluster of Drosophila and other insect species,” Genome Biology and Evolution, vol. 3, no. 1, pp. 129–139, 2011. View at Publisher · View at Google Scholar · View at Scopus
  31. M. Nozawa, S. Miura, and M. Nei, “Origins and evolution of MicroRNA genes in plant species,” Genome Biology and Evolution, vol. 4, no. 3, pp. 230–239, 2010. View at Publisher · View at Google Scholar · View at Scopus