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. 2013 Sep 5;4(10):771–781. doi: 10.1007/s13238-013-3053-6

Identification and functional analysis of phosphorylation residues of the Arabidopsis BOTRYTIS-INDUCED KINASE1

Jinhua Xu 1,2, Xiaochao Wei 1,2, Limin Yan 3, Dan Liu 1,2, Yuanyuan Ma 3, Yu Guo 2,4, Chune Peng 1,2, Honggang Zhou 2,4, Cheng Yang 2,4, Zhiyong Lou 3,, Wenqing Shui 1,2,
PMCID: PMC4875430  PMID: 24104392

Abstract

Arabidopsis BOTRYTIS-INDUCED KINASE1 (BIK1) is a receptor-like cytoplasmic kinase acting early in multiple signaling pathways important for plant growth and innate immunity. It is known to form a signaling complex with a cell-surface receptor FLS2 and a co-receptor kinase BAK1 to transduce signals upon perception of pathogen-associated molecular patterns (PAMPs). Although site-specific phosphorylation is speculated to mediate the activation and function of BIK1, few studies have been devoted to complete profiling of BIK1 phosphorylation residues. Here, we identified nineteen in vitro autophosphorylation sites of BIK1 including three phosphotyrosine sites, thereby proving BIK1 is a dual-specificity kinase for the first time. The kinase activity of BIK1 substitution mutants were explicitly assessed using quantitative mass spectrometry (MS). Thr-237, Thr-242 and Tyr-250 were found to most significantly affect BIK1 activity in autophosphorylation and phosphorylation of BAK1 in vitro. A structural model of BIK1 was built to further illustrate the molecular functions of specific phosphorylation residues. We also mapped new sites of FLS2 phosphorylation by BIK1, which are different from those by BAK1. These in vitro results could provide new hypotheses for more in-depth in vivo studies leading to deeper understanding of how phosphorylation contributes to BIK1 activation and mediates downstream signaling specificity.

Electronic Supplementary Material

Supplementary material is available for this article at 10.1007/s13238-013-3053-6 and is accessible for authorized users.

Keywords: phosphorylation, BIK1, receptor-like cytoplasmic kinase, quantitative mass spectrometry

Electronic supplementary material

13238_2013_3053_MOESM1_ESM.pdf (841.7KB, pdf)

Supplementary material, approximately 841 KB.

13238_2013_3053_MOESM2_ESM.pdf (38KB, pdf)

Supplementary material, approximately 38 KB.

Footnotes

These authors contributed equally to the work.

Electronic Supplementary Material

Supplementary material is available for this article at 10.1007/s13238-013-3053-6 and is accessible for authorized users.

Contributor Information

Zhiyong Lou, Email: louzy@xtal.tsinghua.edu.cn.

Wenqing Shui, Email: angelshui@nankai.edu.cn.

References

  1. Antolin-Llovera M, Ried MK, Binder A, Parniske M. Receptor kinase signaling pathways in plant-microbe interactions. Annu Rev Phytopathol. 2012;50:451–473. doi: 10.1146/annurev-phyto-081211-173002. [DOI] [PubMed] [Google Scholar]
  2. Boersema PJ, Foong LY, Ding VM, Lemeer S, van Breukelen B, Philp R, Boekhorst J, Snel B, den Hertog J, Choo AB, et al. In-depth qualitative and quantitative profiling of tyrosine phosphorylation using a combination of phosphopeptide immunoaffinity purification and stable isotope dimethyl labeling. Mol Cell Proteomics. 2010;9:84–99. doi: 10.1074/mcp.M900291-MCP200. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Boller T, Felix G. A renaissance of elicitors: perception of microbe-associated molecular patterns and danger signals by pattern-recognition receptors. Annu Rev Plant Biol. 2009;60:379–406. doi: 10.1146/annurev.arplant.57.032905.105346. [DOI] [PubMed] [Google Scholar]
  4. Boller T, He SY. Innate immunity in plants: an arms race between pattern recognition receptors in plants and effectors in microbial pathogens. Science. 2009;324:742–744. doi: 10.1126/science.1171647. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Chinchilla D, Zipfel C, Robatzek S, Kemmerling B, Nurnberger T, Jones JD, Felix G, Boller T. A flagellin-induced complex of the receptor FLS2 and BAK1 initiates plant defence. Nature. 2007;448:497–500. doi: 10.1038/nature05999. [DOI] [PubMed] [Google Scholar]
  6. Greeff C, Roux M, Mundy J, Petersen M. Rec eptorlike kinase complexes in plant innate immunity. Front Plant Sci. 2012;3:209. doi: 10.3389/fpls.2012.00209. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Gunawardena HP, Huang Y, Kenjale R, Wang H, Xie L, Chen X. Unambiguous characterization of site-specific phosphorylation of leucine-rich repeat Fli-I-interacting protein 2 (LRRFIP2) in Toll-like receptor 4 (TLR4)-mediated signaling. J Biol Chem. 2011;286:10897–10910. doi: 10.1074/jbc.M110.168179. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Hoppe E, Berne PF, Stock D, Rasmussen JS, Moller NP, Ullrich A, Huber R. Expression, purification and crystallization of human phosphotyrosine phosphatase 1B. Eur J Biochem. 1994;223:1069–1077. doi: 10.1111/j.1432-1033.1994.tb19085.x. [DOI] [PubMed] [Google Scholar]
  9. Johnson LN, Noble ME, Owen DJ. Active and inactive protein kinases: structural basis for regulation. Cell. 1996;85:149–158. doi: 10.1016/S0092-8674(00)81092-2. [DOI] [PubMed] [Google Scholar]
  10. Kim DS, Hwang BK. The pepper receptor-like cytoplasmic protein kinase CaPIK1 is involved in plant signaling of defense and cell-death responses. Plant J. 2011;66:642–655. doi: 10.1111/j.1365-313X.2011.04525.x. [DOI] [PubMed] [Google Scholar]
  11. Laluk K, Luo H, Chai M, Dhawan R, Lai Z, Mengiste T. Biochemical and genetic requirements for function of the immune response regulator BOTRYTIS-INDUCED KINASE1 in plant growth, ethylene signaling, and PAMP-triggered immunity in Arabidopsis. Plant Cell. 2011;23:2831–2849. doi: 10.1105/tpc.111.087122. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Lowe ED, Noble ME, Skamnaki VT, Oikonomakos NG, Owen DJ, Johnson LN. The crystal structure of a phosphorylase kinase peptide substrate complex: kinase substrate recognition. EMBO J. 1997;16:6646–6658. doi: 10.1093/emboj/16.22.6646. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Lu D, Wu S, Gao X, Zhang Y, Shan L, He P. A receptor-like cytoplasmic kinase, BIK1, associates with a flagellin receptor complex to initiate plant innate immunity. Proc Natl Acad Sci U S A. 2010;107:496–501. doi: 10.1073/pnas.0909705107. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Lu, D., Wu, S., He, P., and Shan, L. (2010b). Phosphorylation of receptor-like cytoplasmic kinases by bacterial flagellin. Plant Signal Behav 5. [DOI] [PMC free article] [PubMed]
  15. Nolen B, Taylor S, Ghosh G. Regulation of protein kinases; controlling activity through activation segment conformation. Mol Cell. 2004;15:661–675. doi: 10.1016/j.molcel.2004.08.024. [DOI] [PubMed] [Google Scholar]
  16. Oh MH, Clouse SD, Huber SC. Tyr osine phosphorylation of the BRI1 receptor kinase occurs via a post-translational modification and is activated by the juxtamembrane domain. Front Plant Sci. 2012;3:175. doi: 10.3389/fpls.2012.00175. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Oh MH, Wang X, Kota U, Goshe MB, Clouse SD, Huber SC. Tyrosine phosphorylation of the BRI1 receptor kinase emerges as a component of brassinosteroid signaling in Arabidopsis. Proc Natl Acad Sci U S A. 2009;106:658–663. doi: 10.1073/pnas.0810249106. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Oh MH, Wang X, Wu X, Zhao Y, Clouse SD, Huber SC. Autophosphorylation of Tyr-610 in the receptor kinase BAK1 plays a role in brassinosteroid signaling and basal defense gene expression. Proc Natl Acad Sci U S A. 2010;107:17827–17832. doi: 10.1073/pnas.0915064107. [DOI] [PMC free article] [PubMed] [Google Scholar] [Retracted]
  19. Schwessinger B, Roux M, Kadota Y, Ntoukakis V, Sklenar J, Jones A, Zipfel C. Phosphorylation-dependent differential regulation of plant growth, cell death, and innate immunity by the regulatory receptor-like kinase BAK1. PLoS Genet. 2011;7:e1002046. doi: 10.1371/journal.pgen.1002046. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Shiu SH, Bleecker AB. Receptor-like kinases from Arabidopsis form a monophyletic gene family related to animal receptor kinases. Proc Natl Acad Sci U S A. 2001;98:10763–10768. doi: 10.1073/pnas.181141598. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Shiu SH, Bleecker AB. Expansion of the receptor-like kinase/Pelle gene family and receptor-like proteins in Arabidopsis. Plant Physiol. 2003;132:530–543. doi: 10.1104/pp.103.021964. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Soderblom EJ, Philipp M, Thompson JW, Caron MG, Moseley MA. Quantitative label-free phosphoproteomics strategy for multifaceted experimental designs. Anal Chem. 2011;83:3758–3764. doi: 10.1021/ac200213b. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Veronese P, Nakagami H, Bluhm B, Abuqamar S, Chen X, Salmeron J, Dietrich RA, Hirt H, Mengiste T. The membrane-anchored BOTRYTIS-INDUCED KINASE1 plays distinct roles in Arabidopsis resistance to necrotrophic and biotrophic pathogens. Plant Cell. 2006;18:257–273. doi: 10.1105/tpc.105.035576. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Voolstra O, Beck K, Oberegelsbacher C, Pfannstiel J, Huber A. Light-dependent phosphorylation of the drosophila transient receptor potential ion channel. J Biol Chem. 2010;285:14275–14284. doi: 10.1074/jbc.M110.102053. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Wang X, Goshe MB, Soderblom EJ, Phinney BS, Kuchar JA, Li J, Asami T, Yoshida S, Huber SC, Clouse SD. Ide ntification and functional analysis of in vivo phosphorylation sites of the Arabidopsis BRASSINOSTEROID-INSENSITIVE1 receptor kinase. Plant Cell. 2005;17:1685–1703. doi: 10.1105/tpc.105.031393. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Wang X, Kota U, He K, Blackburn K, Li J, Goshe MB, Huber SC, Clouse SD. Sequential transphosphorylation of the BRI1/BAK1 receptor kinase complex impacts early events in brassinosteroid signaling. Dev Cell. 2008;15:220–235. doi: 10.1016/j.devcel.2008.06.011. [DOI] [PubMed] [Google Scholar]
  27. Wang Z, Liu J, Sudom A, Ayres M, Li S, Wesche H, Powers JP, Walker NP. Crystal structures of IRAK-4 kinase in complex with inhibitors: a serine/threonine kinase with tyrosine as a gatekeeper. Structure. 2006;14:1835–1844. doi: 10.1016/j.str.2006.11.001. [DOI] [PubMed] [Google Scholar]
  28. Yan L, Ma Y, Liu D, Wei X, Sun Y, Chen X, Zhao H, Zhou J, Wang Z, Shui W, et al. Structural basis for the impact of phosphorylation on the activation of plant receptor-like kinase BAK1. Cell Res. 2012;22:1304–1308. doi: 10.1038/cr.2012.74. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Zhang J, Li W, Xiang T, Liu Z, Laluk K, Ding X, Zou Y, Gao M, Zhang X, Chen S, et al. Receptor-like cytoplasmic kinases integrate signaling from multiple plant immune receptors and are targeted by a Pseudomonas syringae effector. Cell Host Microbe. 2010;7:290–301. doi: 10.1016/j.chom.2010.03.007. [DOI] [PubMed] [Google Scholar]
  30. Zhang J, Zhou JM. Plant immunity triggered by microbial molecular signatures. Mol Plant. 2010;3:783–793. doi: 10.1093/mp/ssq035. [DOI] [PubMed] [Google Scholar]

Associated Data

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Supplementary Materials

13238_2013_3053_MOESM1_ESM.pdf (841.7KB, pdf)

Supplementary material, approximately 841 KB.

13238_2013_3053_MOESM2_ESM.pdf (38KB, pdf)

Supplementary material, approximately 38 KB.


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