Small secreted proteins and exocytosis regulators: do they go along?

References

• Farvardin A, González-Hernández AI, Llorens E, García-Agustín P, Scalschi L, Vicedo B. The Apoplast: a Key Player in Plant Survival. Antioxidants (Basel). 2020;9(7):604. doi:10.3390/antiox9070604.
   PubMedGoogle Scholar
• Guerra-Guimarães L, Pinheiro C, Chaves I, Barros DR, Ricardo CP. Protein Dynamics in the Plant Extracellular Space. Proteomes. 2016;4(3):22. doi:10.3390/proteomes4030022.
   PubMed Web of Science ®Google Scholar
• Inada N, Ueda T. Membrane trafficking pathways and their roles in plant-microbe interactions. Plant Cell Physiol. 2014;55(4):672–7. doi:10.1093/pcp/pcu046.
   PubMed Web of Science ®Google Scholar
• Kim SJ, Brandizzi F. The plant secretory pathway: an essential factory for building the plant cell wall. Plant Cell Physiol. 2014;55(4):687–693. doi:10.1093/pcp/pct197.
   PubMed Web of Science ®Google Scholar
• Thiel G, Battey N. Exocytosis in plants. Plant Mol Biol. 1998 PMID: 9738963;38(1–2):111–125. doi:10.1023/A:1006038122009.
   PubMed Web of Science ®Google Scholar
• Martinière A, Moreau P. Complex roles of Rabs and SNAREs in the secretory pathway and plant development: a never-ending story. J Microsc. 2020;280(2):140–157. doi:10.1111/jmi.12952.
   PubMed Web of Science ®Google Scholar
• Yamaguchi YL, Ishida T, Sawa S. CLE Peptides and Their Signaling Pathways in Plant Development. Journal of Experimental Botany. 2016;67(16):4813–4826. doi:10.1093/jxb/erw208.
   PubMed Web of Science ®Google Scholar
• Jun JH, Fiume E, Roeder AH, Meng L, Sharma VK, Osmont KS,B, Baker C, Ha CM, Meyerowitz EM, Feldman LJ, et al. Comprehensive Analysis of CLE Polypeptide Signaling Gene Expression and Overexpression Activity in Arabidopsis. Plant Physiol. 2010;154(4):1721–1736. doi:10.1104/pp.110.163683.
   PubMed Web of Science ®Google Scholar
• Song XF, Hou XL, Liu CM. CLE Peptides: critical Regulators for Stem Cell Maintenance in Plants. Planta. 2022;255(1). doi:10.1007/s00425-021-03791-1.
   Web of Science ®Google Scholar
• Brand U, Fletcher JC, Hobe M, Meyerowitz EM, Simon R. Dependence of stem cell fate in Arabidopsis on a feedback loop regulated by CLV3 activity. Science. 2000 Jul 28;289(5479):617–619. doi:10.1126/science.289.5479.617.
   PubMed Web of Science ®Google Scholar
• Gregory EF, Dao TQ, Alexander MA, Miller MJ, Fletcher JC, Candela H. The Signaling Peptide-Encoding Genes CLE16, CLE17 and CLE27 Are Dispensable for Arabidopsis Shoot Apical Meristem Activity. PLoS ONE. 2018;13(8):8. doi:10.1371/journal.pone.0202595.
   Web of Science ®Google Scholar
• Rodriguez-Leal D, Xu C, Kwon CT, Soyars C, Demesa-Arevalo E, Man J, Liu L, Lemmon ZH, Jones DS, Van Eck J, et al. Evolution of buffering in a genetic circuit controlling plant stem cell proliferation. Nat Genet. 2019;51(5):786–792. doi:10.1038/s41588-019-0389-8.
   PubMed Web of Science ®Google Scholar
• Whitford R, Fernandez A, De Groodt R, Ortega E, Hilson P. Plant CLE Peptides from Two Distinct Functional Classes Synergistically Induce Division of Vascular Cells. Proceedings of the National Academy of Sciences of the United States of America. 2008;105(47):18625–18630. doi:10.1073/pnas.0809395105.
   PubMed Web of Science ®Google Scholar
• Ghorbani S, Hoogewijs K, Pečenková T, Fernandez A, Inzé A, Eeckhout D, Kawa D, De Jaeger G, Beeckman T, Madder A, et al. The SBT6.1 Subtilase Processes the GOLVEN1 Peptide Controlling Cell Elongation. Journal of Experimental Botany. 2016;67(16):4877–4887. doi:10.1093/jxb/erw241.
   PubMed Web of Science ®Google Scholar
• Stührwohldt N, Ehinger A, Thellmann K, Schaller A. Processing and Formation of Bioactive CLE40 Peptide Are Controlled by Posttranslational Proline Hydroxylation. Plant Physiology. 2020;184(3):1573–1584. doi:10.1104/pp.20.00528.
   PubMed Web of Science ®Google Scholar
• Stührwohldt N, Scholl S, Lang L, Katzenberger J, Schumacher K, Schaller A. The Biogenesis of Clel Peptides Involves Several Processing Events in Consecutive Compartments of the Secretory Pathway. ELife. 2020:9. doi:10.7554/eLife.55580.
   Web of Science ®Google Scholar
• Fukuda H, Hardtke CS. Peptide Signaling Pathways in Vascular Differentiation. Plant Physiol. 2020;182(4):1636–1644. doi:10.1104/pp.19.01259.
   PubMed Web of Science ®Google Scholar
• Breen S, Williams SJ, Outram M, Kobe B, Solomon PS. Emerging Insights into the Functions of Pathogenesis-Related Protein 1. Trends in Plant Science. 2017;22(10):871–879. doi:10.1016/j.tplants.2017.06.013.
   PubMed Web of Science ®Google Scholar
• Gibbs GM, Roelants K, O’Bryan MK. The CAP superfamily: cysteine-rich secretory proteins, antigen 5, and pathogenesis-related 1 proteins–roles in reproduction, cancer, and immune defense. Endocr Rev. 2008;29(7):865–897. doi:10.1210/er.2008-0032.
   PubMed Web of Science ®Google Scholar
• Agrios GN. How plants defend themselves against pathogens. In: Agrios GN editor. Plant Pathology. Amsterdam: Academic Press; 2005. p. 207–248.
   Google Scholar
• Gamir J, Darwiche R, Van’t Hof P, Choudhary V, Stumpe M, Schneiter R, Mauch F. The Sterol-Binding Activity of PATHOGENESIS-RELATED PROTEIN 1 Reveals the Mode of Action of an Antimicrobial Protein. Plant Journal. 2017;89(3):502–509. doi:10.1111/tpj.13398.
   PubMed Web of Science ®Google Scholar
• Chen YL, Lee CY, Cheng KT, Chang WH, Huang RN, Nam HG, Chen YR. Quantitative Peptidomics Study Reveals That a Wound-Induced Peptide from PR-1 Regulates Immune Signaling in Tomato. Plant Cell. 2014;26(10):4135–4148. doi:10.1105/tpc.114.131185.
   PubMed Web of Science ®Google Scholar
• Sung YC, Outram MA, Breen S, Wang C, Dagvadorj B, Winterberg B, Kobe B, Williams SJ, Solomon PS. PR1-Mediated Defence via C-Terminal Peptide Release Is Targeted by a Fungal Pathogen Effector. New Phytologist. 2021;229(6):3467–3480. doi:10.1111/nph.17128.
   PubMed Web of Science ®Google Scholar
• Betsuyaku S, Katou S, Takebayashi Y, Sakakibara H, Nomura N, Fukuda H. Salicylic Acid and Jasmonic Acid Pathways Are Activated in Spatially Different Domains around the Infection Site during Effector-Triggered Immunity in Arabidopsis Thaliana. Plant and Cell Physiology. 2018;59(1):8–16. doi:10.1093/pcp/pcx181.
   PubMed Web of Science ®Google Scholar
• Lincoln JE, Sanchez JP, Zumstein K, Gilchrist DG. Plant and Animal PR1 Family Members Inhibit Programmed Cell Death and Suppress Bacterial Pathogens in Plant Tissues. Molecular Plant Pathology. 2018;19(9):2111–2123. doi:10.1111/mpp.12685.
   PubMed Web of Science ®Google Scholar
• Pečenková T, Pejchar P, Moravec T, Drs M, Haluška S, Šantrůček J, Potocká A, Žárský V, Potocký M. Immunity functions of Arabidopsis pathogenesis-related 1 are coupled but not confined to its C-terminus processing and trafficking. Molecular Plant Pathology. 2022 February;23(5):664–678. doi:10.1111/mpp.13187.
   PubMed Web of Science ®Google Scholar
• van Loon LC, Rep M, Pieterse CM. Significance of Inducible Defense-Related Proteins in Infected Plants. Annual Review of Phytopathology. 2006. doi:10.1146/annurev.phyto.44.070505.143425.
   Google Scholar
• Baena G, Xia L, Waghmare S, Karnik R. SNARE SYP132 mediates divergent traffic of plasma membrane H+-ATPase AHA1 and antimicrobial PR1 during bacterial pathogenesis. Plant Physiol. 2022;189(3):1639–1661. doi:10.1093/plphys/kiac149.
   PubMed Web of Science ®Google Scholar
• Chung KP, Zeng Y, Li Y, Ji C, Xia Y, Jiang L. Signal motif-dependent ER export of the Qc-SNARE BET12 interacts with MEMB12 and affects PR1 trafficking in Arabidopsis. J Cell Sci. 2018;131(2):jcs202838. doi:10.1242/jcs.202838.
   PubMed Web of Science ®Google Scholar
• Du Y, Mpina MH, Birch PR, Bouwmeester K, Govers F Phytophthora infestans RXLR Effector AVR1 Interacts with Exocyst Component Sec5 to Manipulate Plant Immunity. Plant Physiol. 2015 Nov;169(3):1975–1990. doi: 10.1104/pp.15.01169.
   PubMed Web of Science ®Google Scholar
• Gu Y, Innes RW. The KEEP ON GOING protein of Arabidopsis regulates intracellular protein trafficking and is degraded during fungal infection. Plant Cell. 2012;24(11):4717–4730. doi:10.1105/tpc.112.105254.
   PubMed Web of Science ®Google Scholar
• Kalde M, Nühse TS, Findlay K, Peck SC. The Syntaxin SYP132 Contributes to Plant Resistance against Bacteria and Secretion of Pathogenesis-Related Protein 1. Proceedings of the National Academy of Sciences of the United States of America. 2007;104(28):11850–11855. doi:10.1073/pnas.0701083104.
   PubMed Web of Science ®Google Scholar
• Wang D, Weaver ND, Kesarwani M, Dong X. Induction of protein secretory pathway is required for systemic acquired resistance. Science. 2005;308(5724):1036–1040. doi:10.1126/science.
   PubMed Web of Science ®Google Scholar
• Pečenková T, Pleskot R, Žárský V. Subcellular Localization of Arabidopsis Pathogenesis-Related 1 (PR1) Protein. International Journal of Molecular Sciences. 2017;18(4):825. doi:10.3390/ijms18040825.
   PubMed Web of Science ®Google Scholar
• Laird J, Armengaud P, Giuntini P, Laval V, Milner JJ. Inappropriate annotation of a key defence marker in Arabidopsis: will the real PR-1 please stand up? Planta. 2004;219(6):1089–1092. doi:10.1007/s00425-004-1355-x.
   PubMed Web of Science ®Google Scholar
• Chien PS, Nam HG, Chen YR. A Salt-Regulated Peptide Derived from the CAP Superfamily Protein Negatively Regulates Salt-Stress Tolerance in Arabidopsis. Journal of Experimental Botany. 2015;66(17):5301–5313. doi:10.1093/jxb/erv263.
   PubMed Web of Science ®Google Scholar
• Santamaria M, Thomson CJ, Read ND, Loake GJ. The Promoter of a Basic PR1-like Gene, AtPRB1, from Arabidopsis Establishes an Organ-Specific Expression Pattern and Responsiveness to Ethylene and Methyl Jasmonate. Plant Molecular Biology. 2001;47(5):641–652.
   PubMed Web of Science ®Google Scholar
• Pratelli R, Sutter JU, Blatt MR. A new catch in the SNARE. Trends in Plant Science. 2004;9(4):187–195. doi:10.1016/j.tplants.2004.02.007. PMID: 15063869
   PubMed Web of Science ®Google Scholar
• Vernoud V, Horton AC, Yang Z, Nielsen E. Analysis of the small GTPase gene superfamily of Arabidopsis. Plant Physiology. 2003;131(3):1191–1208. doi:10.1104/pp.013052.
   PubMed Web of Science ®Google Scholar
• Žárský V, Sekereš J, Kubátová Z, Pečenková T, Cvrčková F. Three subfamilies of exocyst EXO70 family subunits in land plants: early divergence and ongoing functional specialization. J Exp Bot. 2020;71(1):49–62. doi:10.1093/jxb/erz423.
   PubMed Web of Science ®Google Scholar
• Gaudinier A, Rodriguez-Medina J, Zhang L, Olson A, Liseron-Monfils C, Bågman AM, Foret J, Abbitt S, Tang M, Li B, et al. Transcriptional regulation of nitrogen-associated metabolism and growth. Nature. 2018;563(7730):259–264. doi:10.1038/s41586-018-0656-3.
   PubMed Web of Science ®Google Scholar
• Rao X, Chen X, Shen H, Ma Q, Li G, Tang Y, Pena M, York W, Frazier TP, Lenaghan S, et al. Gene regulatory networks for lignin biosynthesis in switchgrass (Panicum virgatum). Plant Biotechnol J. 2019;17(3):580–593. doi:10.1111/pbi.13000.
   PubMed Web of Science ®Google Scholar
• Zhou Y, Sukul A, Mishler-Elmore JW, Faik A, Held MA. PlantNexus: a Gene Co-expression Network Database and Visualization Tool for Barley and Sorghum. Plant Cell Physiol. 2022;63(4):565–572. doi:10.1093/pcp/pcac007.
   PubMed Web of Science ®Google Scholar
• Gaudinier A, Brady SM. Mapping Transcriptional Networks in Plants: data-Driven Discovery of Novel Biological Mechanisms.”. Annu Rev Plant Biol. 2016;67(1):575–594. doi:10.1146/annurev-arplant-043015-112205.
   PubMedGoogle Scholar
• Liu ZP. Reverse Engineering of Genome-wide Gene Regulatory Networks from Gene Expression Data. Curr Genomics. 2015;16(1):3–22. doi:10.2174/1389202915666141110210634.
   PubMed Web of Science ®Google Scholar
• Chen X, Pan Y, Yan M, Bao G, Sun X. Identification of potential crucial genes and molecular mechanisms in glioblastoma multiforme by bioinformatics analysis. Mol Med Rep. 2020;22(2):859–869. doi:10.3892/mmr.2020.11160.
   PubMed Web of Science ®Google Scholar
• Quan W, Li J, Jin X, Liu L, Zhang Q, Qin Y, Pei X, Chen J. Identification of Potential Core Genes in Parkinson’s Disease Using Bioinformatics Analysis. Parkinsons Dis. 2021;2021:1690341. doi:10.1155/2021/1690341.
   PubMed Web of Science ®Google Scholar
• Coninck B, De Smet I. Plant Peptides - Taking Them to the next Level. Journal of Experimental Botany. 2016;67(16):4791–4795. doi:10.1093/jxb/erw309.
   PubMed Web of Science ®Google Scholar
• Nakamura S, Suzuki T, Kawamukai M, Nakagawa T. Expression Analysis of Arabidopsis Thaliana Small Secreted Protein Genes. Bioscience, Biotechnology and Biochemistry. 2012;76(3):436–446. doi:10.1271/bbb.110649.
   PubMed Web of Science ®Google Scholar
• Couto D, Zipfel C. Regulation of Pattern Recognition Receptor Signalling in Plants. Nature Reviews Immunology. 2016;16(9):537–552. doi:10.1038/nri.2016.77.
   PubMed Web of Science ®Google Scholar
• Szklarczyk D, Gable AL, Lyon D, Junge A, Wyder S, Huerta-Cepas J, Simonovic M, Doncheva NT, Morris JH, Bork P, et al. (2019) STRING v11: protein-protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets. Nucleic Acids Res. 2019;47(D1):D607–D613. doi:10.1093/nar/gky1131.
   PubMed Web of Science ®Google Scholar
• Obayashi T, Aoki Y, Tadaka S, Kagaya Y, Kinoshita K. ATTED-II in 2018: a Plant Coexpression Database Based on Investigation of the Statistical Property of the Mutual Rank Index. Plant Cell Physiol. 2018;59(1):e3. doi:10.1093/pcp/pcx191.
   PubMed Web of Science ®Google Scholar
• Obayashi T, Hibara H, Kagaya Y, Aoki Y, Kinoshita K. ATTED-II v11: A Plant Gene Coexpression Database Using a Sample Balancing Technique by Subagging of Principal Components. Plant Cell Physiol. 2022 Jun 15;63(6):869–881. doi:10.1093/pcp/pcac041. PMID: 35353884.
   Google Scholar
• Hruz T, Laule O, Szabo G, Wessendorp F, Bleuler S, Oertle L, Widmayer P, Gruissem W, Zimmermann P. Genevestigator V3: a Reference Expression Database for the Meta-Analysis of Transcriptomes. Advances in Bioinformatics. 2008;2008:1–5. doi:10.1155/2008/420747.
   Google Scholar
• Mergner J, Frejno M, List M, Papacek M, Chen X, Chaudhary A, Samaras P, Richter S, Shikata H, Messerer M, et al. Mass-spectrometry-based draft of the Arabidopsis proteome. Nature. 2020;579(7799):409–414. doi:10.1038/s41586-020-2094-2.
   PubMed Web of Science ®Google Scholar
• Salomon D Historical Notes. In: Gries D F.B S., editors The Computer Graphics Manual. Springer; London, UK: 2011. pp. 9–27.
   Google Scholar
• Pečenková T, Potocká A, Ortmannová, M, Drs M, J, Janková Drdová, E, Pejchar, P, Synek, L, Soukupová, H, Žárský, V, Cvrčková, F, et al. Redundant and Diversified Roles Among Selected Arabidopsis thaliana EXO70 Paralogs During Biotic Stress Responses. Frontiers in Plant Science. 2020;11:11. doi:10.3389/fpls.2020.00960.
   PubMed Web of Science ®Google Scholar
• Benschop JJ, Mohammed S, O’Flaherty M, Heck AJ, Slijper M, Menke FL. Quantitative Phosphoproteomics of Early Elicitor Signaling in Arabidopsis. Molecular and Cellular Proteomics. 2007;6(7):1198–1214. doi:10.1074/mcp.M600429-MCP200.
   PubMed Web of Science ®Google Scholar