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Coauthors
Jose Alonso Department of Plant and Microbial Biology, North Carolina State University, USA
1 protocol

Steffen Heber Department of Computer Science, North Carolina State University, USA
1 protocol

Qiwen Hu Department of Computer Science, North Carolina State University, USA
1 protocol

Catharina Merchante Instituto de Hortofruticultura Subtropical y Mediterranea (IHSM)-UMA-CSIC, Departamento de Biología Molecular y Bioquímica, Universidad de Málaga, Spain
1 protocol

Anna N. Stepanova
  • Department of Plant and Microbial Biology, North Carolina State University, USA
  • 1 Author merit

Education

Ph.D in Biology, Department of Biology, University of Pennsylvania, 2001

Current position

Assistant Professor of Plant Biology and Genetics, Department of Plant & Microbial Biology, Program in Genetics, North Carolina State University, USA

Publications (since 2005)

  1. Stepanova, A. N. and Alonso, J. M. (2016). Auxin catabolism unplugged: Role of IAA oxidation in auxin homeostasis. Proc Natl Acad Sci U S A 113(39): 10742-10744.

  2. Villarino, G. H., Hu, Q., Manrique, S., Flores-Vergara, M., Sehra, B., Robles, L., Brumos, J., Stepanova, A. N., Colombo, L., Sundberg, E., Heber, S. and Franks, R. G. (2016). Transcriptomic Signature of the SHATTERPROOF2 Expression Domain Reveals the Meristematic Nature of Arabidopsis Gynoecial Medial Domain. Plant Physiol 171(1): 42-61.

  3. Hu, Q., Merchante, C., Stepanova, A. N., Alonso, J. M. and Heber, S. (2016). Genome-Wide Search for Translated Upstream Open Reading Frames in Arabidopsis Thaliana. IEEE Trans Nanobioscience 15(2): 148-157.

  4. Merchante, C., Brumos, J., Yun, J., Hu, Q., Spencer, K. R., Enriquez, P., Binder, B. M., Heber, S., Stepanova, A. N. and Alonso, J. M. (2015). Gene-specific translation regulation mediated by the hormone-signaling molecule EIN2. Cell 163(3): 684-697.

  5. Hu, Q., Merchante, C., Stepanova, A. N., Alonso, J. M. and Heber, S. (2015). A Stacking-Based Approach to Identify Translated Upstream Open Reading Frames in Arabidopsis thaliana. Bioinformatics Research and Applications, Springer Verlag, Lecture Notes in Computer Science, 9096:138-149.

  6. Alonso, J. M. and Stepanova, A. N. (2015). A recombineering-based gene tagging system for Arabidopsis. Methods Mol Biol 1227: 233-243.

  7. Alonso, J. M. and Stepanova, A. N. (2014). Arabidopsis transformation with large bacterial artificial chromosomes. Methods Mol Biol 1062: 271-283.

  8. Brumos, J., Alonso, J. M. and Stepanova, A. N. (2014). Genetic aspects of auxin biosynthesis and its regulation. Physiol Plant 151(1): 3-12.

  9. Pietra, S., Gustavsson, A., Kiefer, C., Kalmbach, L., Horstedt, P., Ikeda, Y., Stepanova, A. N., Alonso, J. M. and Grebe, M. (2013). Arabidopsis SABRE and CLASP interact to stabilize cell division plane orientation and planar polarity. Nat Commun 4: 2779.

  10. Robert, H. S., Grones, P., Stepanova, A. N., Robles, L. M., Lokerse, A. S., Alonso, J. M., Weijers, D. and Friml, J. (2013). Local auxin sources orient the apical-basal axis in Arabidopsis embryos. Curr Biol 23(24): 2506-2512.

  11. Merchante, C., Alonso, J. M. and Stepanova, A. N. (2013). Ethylene signaling: simple ligand, complex regulation. Curr Opin Plant Biol 16(5): 554-560.

  12. Robles, L., Stepanova, A. and Alonso, J. (2013). Molecular mechanisms of ethylene-auxin interaction. Mol Plant 6(6): 1734-1737.

  13. Kopycki, J., Wieduwild, E., Kohlschmidt, J., Brandt, W., Stepanova, A. N., Alonso, J. M., Pedras, M. S., Abel, S. and Grubb, C. D. (2013). Kinetic analysis of Arabidopsis glucosyltransferase UGT74B1 illustrates a general mechanism by which enzymes can escape product inhibition. Biochem J 450(1): 37-46.

  14. Stepanova, A. N., Yun, J., Robles, L. M., Novak, O., He, W., Guo, H., Ljung, K. and Alonso, J. M. (2011). The Arabidopsis YUCCA1 flavin monooxygenase functions in the indole-3-pyruvic acid branch of auxin biosynthesis. Plant Cell 23(11): 3961-3973.

  15. He, W., Brumos, J., Li, H., Ji, Y., Ke, M., Gong, X., Zeng, Q., Li, W., Zhang, X., An, F., Wen, X., Li, P., Chu, J., Sun, X., Yan, C., Yan, N., Xie, D. Y., Raikhel, N., Yang, Z., Stepanova, A. N., Alonso, J. M. and Guo, H. (2011). A small-molecule screen identifies L-kynurenine as a competitive inhibitor of TAA1/TAR activity in ethylene-directed auxin biosynthesis and root growth in Arabidopsis. Plant Cell 23(11): 3944-3960.

  16. Stepanova, A. N. and Alonso, J. M. (2011). Bypassing transcription: a shortcut in cytokinin-auxin interactions. Dev Cell 21(4): 608-610.

  17. Zhou, R., Benavente, L. M., Stepanova, A. N. and Alonso, J. M. (2011). A recombineering-based gene tagging system for Arabidopsis. Plant J 66(4): 712-723.

  18. Stepanova, A. N. and Alonso, J. M. (2009). Ethylene signaling and response: where different regulatory modules meet. Curr Opin Plant Biol 12(5): 548-555.

  19. Ikeda, Y., Men, S., Fischer, U., Stepanova, A. N., Alonso, J. M., Ljung, K. and Grebe, M. (2009). Local auxin biosynthesis modulates gradient-directed planar polarity in Arabidopsis. Nat Cell Biol 11(6): 731-738.

  20. Stepanova, A. N., Robertson-Hoyt, J., Yun, J., Benavente, L. M., Xie, D. Y., Dolezal, K., Schlereth, A., Jurgens, G. and Alonso, J. M. (2008). TAA1-mediated auxin biosynthesis is essential for hormone crosstalk and plant development. Cell 133(1): 177-191.

  21. Stepanova, A. N., Yun, J., Likhacheva, A. V. and Alonso, J. M. (2007). Multilevel interactions between ethylene and auxin in Arabidopsis roots. Plant Cell 19(7): 2169-2185.

  22. Stepanova, A. N. and Alonso, J. M. (2006). PCR-based screening for insertional mutants. Methods Mol Biol 323: 163-172.

  23. Stepanova, A. N., Hoyt, J. M., Hamilton, A. A. and Alonso, J. M. (2005). A Link between ethylene and auxin uncovered by the characterization of two root-specific ethylene-insensitive mutants in Arabidopsis. Plant Cell 17(8): 2230-2242.

  24. Stepanova, A. N. and Alonso, J. M. (2005). Ethylene signaling and response pathway: A unique signaling cascade with a multitude of inputs and outputs. Physiol Plant 123(2):195-206.

  25. Stepanova, A. N. and Alonso, J. M. (2005). Ethylene signaling pathway. Sci STKE: 2005(276):cm3.

  26. Stepanova, A. N. and Alonso, J. M. (2005). Arabidopsis ethylene signaling pathway. Sci STKE 2005(276): cm4.

1 Protocol published
A Ribosome Footprinting Protocol for Plants
Authors:  Catharina Merchante, Qiwen Hu, Steffen Heber, Jose Alonso and Anna N. Stepanova, date: 11/05/2016, view: 3749, Q&A: 0
Ribosome footprinting, or Ribo-seq, has revolutionized the studies of translation. It was originally developed for yeast and mammalian cells in culture (Ingolia et al., 2009). Herein, we describe a plant-optimized hands-on ribosome ...