Abstracts
Recent studies demonstrated that endosomal transport played important roles in various plant functions. The RAB GTPase regulates the tethering and fusion steps of vesicle trafficking to target membranes in each trafficking pathway by acting as a molecular switch. RAB GTPase activation is catalyzed by specific guanine nucleotide exchange factors (GEFs) that promote the exchange of GDP on the RAB GTPase with GTP. RAB5 is a key regulator of endosomal trafficking and is uniquely diversified in plants; the plant-unique RAB5 group ARA6 was acquired in addition to conventional RAB5 during evolution. In Arabidopsis thaliana, conventional RAB5, ARA7 and RHA1 regulate the endosomal/vacuolar trafficking pathways, whereas ARA6 acts in the pathway from the endosome to the plasma membrane. Despite their distinct functions, all RAB5 members are activated by the common GEF VACUOLAR PROTEIN SORTING 9a (VPS9a). VPS9a consists of an N-terminal conserved domain and C-terminal region (CTR) with no similarity to known functional domains. In this study, we investigated the function of the CTR by generating truncated versions of VPS9a and found that it was specifically responsible for ARA6 regulation; moreover, the CTR was required for the oligomerization and correct localization of VPS9a. The oligomerization of VPS9a was mediated by a distinctive region consisting of 36 amino acids in the CTR that was conserved in plant RAB5 GEFs. Thus the VPS9a CTR plays an important role in the regulation of the two RAB5 groups in plants.
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References
Asaoka R, Uemura T, Ito J, Fujimoto M, Ito E, Ueda T, Nakano A (2013) Arabidopsis RABA1 GTPases are involved in transport between the trans-Golgi network and the plasma membrane, and are required for salinity stress tolerance. Plant J 73:240–249
Bolte S, Brown S, Satiat-Jeunemaitre B (2004) The N-myristoylated Rab-GTPase m-Rabmc is involved in post-Golgi trafficking events to the lytic vacuole in plant cells. J Cell Sci 117:943–954
Bottanelli F, Foresti O, Hanton S, Denecke J (2011) Vacuolar transport in tobacco leaf epidermis cells involves a single route for soluble cargo and multiple routes for membrane cargo. Plant Cell 23:3007–3025
Bravo-Sagua R, Torrealba N, Paredes F, Morales PE, Pennanen C, López-Crisosto C, Troncoso R, Criollo A, Chiong M, Hill JA, Simmen T, Quest AF, Lavandero S (2014) Organelle communication: signaling crossroads between homeostasis and disease. Int J Biochem Cell Biol 50:55–59
Burd CG, Mustol PA, Schu PV, Emr SD (1996) A yeast protein related to a mammalian Ras-binding protein, Vps9p, is required for localization of vacuolar proteins. Mol Cell Biol 16:2369–2377
Carney DS, Davies BA, Horazdovsky BF (2006) Vps9 domain-containing proteins: activators of Rab5 GTPases from yeast to neurons. Trends Cell Biol 16:27–35
Choi S, Tamaki T, Ebine K, Uemura T, Ueda T, Nakano A (2013) RABA members act in distinct steps of subcellular trafficking of the FLAGELLIN SENSING2 receptor. Plant Cell 25:1174–1187
Chow C-M, Neto H, Foucart C, Moore I (2008) Rab-A2 and Rab-A3 GTPases define a trans-Golgi endosomal membrane domain in Arabidopsis that contributes substantially to the cell plate. Plant Cell 20:101–123
Clough SJ, Bent AF (1998) Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J 16:735–743
Dacks JB, Field MC (2007) Evolution of the eukaryotic membrane-trafficking system: origin, tempo and mode. J Cell Sci 120:2977–2985
Dacks JB, Poon PP, Field MC (2008) Phylogeny of endocytic components yields insight into the process of nonendosymbiotic organelle evolution. Proc Natl Acad Sci USA 105:588–593
De Graaf BHJ, Cheung AY, Andreyeva T, Levasseur K, Kieliszewski M, Wu H (2005) Rab11 GTPase-regulated membrane trafficking is crucial for tip-focused pollen tube growth in tobacco. Plant Cell 17:2564–2579
Ebine K, Fujimoto M, Okatani Y, Nishiyama T, Goh T, Ito E, Dainobu T, Nishitani A, Uemura T, Sato MH, Thordal-Christensen H, Tsutsumi N, Nakano A, Ueda T (2011) A membrane trafficking pathway regulated by the plant-specific RAB GTPase ARA6. Nat Cell Biol 13:853–859
Feraru E, Feraru MI, Asaoka R, Paciorek T, De Rycke R, Tanaka H, Nakano A, Friml J (2012) BEX5/RabA1b regulates trans-Golgi network-to-plasma membrane protein trafficking in Arabidopsis. Plant Cell 24:3074–3086
Field MC, Natesan SKA, Gabernet-Castello C, Lila Koumandou V (2007) Intracellular trafficking in the trypanosomatids. Traffic 8:629–639
Fukuda M, Wen L, Satoh-Cruz M, Kawagoe Y, Nagamura Y, Okita TW, Washida H, Sugino A, Ishino Y, Ishino S, Ogawa M, Sunada M, Ueda T, Kumamaru T (2013) A guanine nucleotide exchange factor for Rab5 proteins is essential for intracellular transport of the proglutelin from the Golgi apparatus to the protein storage vacuole in rice endosperm. Plant Physiol 162:663–674
Goh T, Uchida W, Arakawa S, Ito E, Dainobu T, Ebine K, Takeuchi M, Sato K, Ueda T, Nakano A (2007) VPS9a, the common activator for two distinct types of Rab5 GTPases, is essential for the development of Arabidopsis thaliana. Plant Cell 19:3504–3515
Grebe M, Xu J, Möbius W, Ueda T, Nakano A, Geuze HJ, Rook MB, Scheres B (2003) Arabidopsis sterol endocytosis involves actin-mediated trafficking via ARA6-positive early endosomes. Curr Biol 13:1378–1387
Green EG, Ramm E, Riley NM, Spiro DJ, Goldenring JR, Wessling-Resnick M (1997) Rab11 is associated with transferrin-containing recycling compartments in K562 cells. Biochem Biophys Res Commun 239:612–616
Grosshans BL, Ortiz D, Novick P (2006) Rabs and their effectors: achieving specificity in membrane traffic. Proc Natl Acad Sci USA 103:11821–11827
Haas TJ, Sliwinski MK, Martínez DE, Preuss M, Ebine K, Ueda T, Nielsen E, Odorizzi G, Otegui MS (2007) The Arabidopsis AAA ATPase SKD1 is involved in multivesicular endosome function and interacts with its positive regulator LYST-INTERACTING PROTEIN5. Plant Cell 19:1295–1312
Hama H, Tall GG, Horazdovsky BF (1999) Vps9p is a guanine nucleotide exchange factor involved in vesicle-mediated vacuolar protein transport. J Biol Chem 274:15284–15291
Hoepflinger MC, Geretschlaeger A, Sommer A, Hoeftberger M, Nishiyama T, Sakayama H, Hammerl P, Tenhaken R, Ueda T, Foissner I (2013) Molecular and biochemical analysis of the first ARA6 homologue, a RAB5 GTPase, from green algae. J Exp Bot 64:5553–5568
Hoepflinger MC, Geretschlaeger A, Sommer A, Hoeftberger M, Hametner C, Ueda T, Foissner I (2015) Molecular analysis and localization of CaARA7 a conventional RAB5 GTPase from characean algae. Traffic 16:534–554
Horiuchi H, Lippé R, McBride HM, Rubino M, Woodman P, Stenmark H, Rybin V, Wilm M, Ashman K, Mann M, Zerial M (1997) A novel Rab5 GDP/GTP exchange factor complexed to Rabaptin-5 links nucleotide exchange to effector recruitment and function. Cell 90:1149–1159
Ito E, Fujimoto M, Ebine K, Uemura T, Ueda T, Nakano A (2012) Dynamic behavior of clathrin in Arabidopsis thaliana unveiled by live imaging. Plant J 69:204–216
Jaillais Y, Fobis-Loisy I, Miège C, Gaude T (2008) Evidence for a sorting endosome in Arabidopsis root cells. Plant J 53:237–247
Kotzer AM, Brandizzi F, Neumann U, Paris N, Moore I, Hawes C (2004) AtRabF2b (Ara7) acts on the vacuolar trafficking pathway in tobacco leaf epidermal cells. J Cell Sci 117:6377–6389
Kunita R, Otomo A, Mizumura H, Suzuki K, Showguchi-Miyata J, Yanagisawa Y, Hadano S, Ikeda JE (2004) Homo-oligomerization of ALS2 through its unique carboxyl-terminal regions is essential for the ALS2-associated Rab5 guanine nucleotide exchange activity and its regulatory function on endosome trafficking. J Biol Chem 279:38626–38635
Lippé R, Miaczynska M, Rybin V, Runge A, Zerial M (2001) Functional synergy between Rab5 effector Rabaptin-5 and exchange factor Rabex-5 when physically associated in a complex. Mol Biol Cell 12:2219–2228
Mackiewicz P, Wyroba E (2009) Phylogeny and evolution of Rab7 and Rab9 proteins. BMC Evol Biol 9:101
Mattera R, Yien CT, Weissman AM, Bonifacino JS (2006) The Rab5 guanine nucleotide exchange factor Rabex-5 binds ubiquitin (Ub) and functions as a Ub ligase through an atypical Ub-interacting motif and a zinc finger domain. J Biol Chem 281:6874–6883
Murashige T, Skoog F (1962) A revised medium for rapid growth and bioassays with tobacco tissue cultures. Physiol Plant 15:473–497
Nakagawa T, Kurose T, Hino T, Tanaka K, Kawamukai M, Niwa Y, Toyooka K, Matsuoka K, Jinbo T, Kimura T (2007) Development of series of gateway binary vectors, pGWBs, for realizing efficient construction of fusion genes for plant transformation. J Biosci Bioeng 104:34–41
Penengo L, Mapelli M, Murachelli AG, Confalonieri S, Magri L, Musacchio A, Di Fiore PP, Polo S, Schneider TR (2006) Crystal structure of the ubiquitin binding domains of Rabex-5 reveals two modes of interaction with ubiquitin. Cell 124:1183–1195
Pereira-Leal JB (2008) The Ypt/Rab family and the evolution of trafficking in fungi. Traffic 9:27–38
Platta HW, Stenmark H (2011) Endocytosis and signaling. Curr Opin Cell Biol 23:393–403
Prag G, Misra S, Jones EA, Ghirlando R, Davies BA, Horazdovsky BF, Hurley JH (2003) Mechanism of ubiquitin recognition by the CUE domain of Vps9p. Cell 113:609–620
Ren M, Xu G, Zeng J, De Lemos-Chiarandini C, Adesnik M, Sabatini DD (1998) Hydrolysis of GTP on rab11 is required for the direct delivery of transferrin from the pericentriolar recycling compartment to the cell surface but not from sorting endosomes. Proc Natl Acad Sci USA 95:6187–6192
Rutherford S, Moore I (2002) The Arabidopsis Rab GTPase family: another enigma variation. Curr Opin Plant Biol 5:518–528
Sato M, Sato K, Fonarev P, Huang C-J, Liou W, Grant BD (2005) Caenorhabditis elegans RME-6 is a novel regulator of RAB-5 at the clathrin-coated pit. Nat Cell Biol 7:559–569
Schwartz SL, Cao C, Pylypenko O, Rak A, Wandinger-Ness A (2007) Rab GTPases at a glance. J Cell Sci 120:3905–3910
Sohn EJ, Kim ES, Zhao M, Kim SJ, Kim H, Kim Y-W, Lee YJ, Hillmer S, Sohn U, Jiang L, Hwang I (2003) Rha1, an Arabidopsis Rab5 homolog, plays a critical role in the vacuolar trafficking of soluble cargo proteins. Plant Cell 15:1057–1070
Stenmark H (2009) Rab GTPases as coordinators of vesicle traffic. Nat Rev Mol Cell Biol 10:513–525
Stierhof YD, El Kasmi F (2010) Strategies to improve the antigenicity, ultrastructure preservation and visibility of trafficking compartments in Arabidopsis tissue. Eur J Cell Biol 89:285–297
Szumlanski AL, Nielsen E (2009) The Rab GTPase RabA4d regulates pollen tube tip growth in Arabidopsis thaliana. Plant Cell 21:526–544
Tall GG, Barbieri MA, Stahl PD, Horazdovsky BF (2001) Ras-activated endocytosis is mediated by the Rab5 guanine nucleotide exchange activity of RIN1. Dev Cell 1:73–82
Tian G-W, Mohanty A, Chary SN, Li S, Paap B, Drakakaki G, Kopec CD, Li J, Ehrhardt D, Jackson D, Rhee SY, Raikhel NV, Citovsky V (2004) High-throughput fluorescent tagging of full-length Arabidopsis gene products in planta. Plant Physiol 135:25–38
Ueda T, Yamaguchi M, Uchimiya H, Nakano A (2001) Ara6, a plant-unique novel type Rab GTPase, functions in the endocytic pathway of Arabidopsis thaliana. EMBO J 20:4730–4741
Ueda T, Uemura T, Sato MH, Nakano A (2004) Functional differentiation of endosomes in Arabidopsis cells. Plant J 40:783–789
Uejima T, Ihara K, Goh T, Ito E, Sunada M, Ueda T, Nakano A, Wakatsuki S (2010) GDP-bound and nucleotide-free intermediates of the guanine nucleotide exchange in the Rab5·Vps9 system. J Biol Chem 285:36689–36697
Ullrich O, Reinsch S, Urbé S, Zerial M, Parton RG (1996) Rab11 regulates recycling through the pericentriolar recycling endosome. J Cell Biol 135:913–924
Zhu H, Liang Z, Li G (2009) Rabex-5 is a Rab22 effector and mediates a Rab22–Rab5 signaling cascade in endocytosis. Mol Biol Cell 20:4072–4729
Acknowledgments
We thank Dr. T. Nakagawa (Shimane University), Dr. S. Shimizu (Tokyo Medical and Dental University) and Dr. T. Demura (NAIST) for sharing materials and Dr. K. Ebine and Dr. E. Ito (The University of Tokyo) for critical reading of the manuscript. This study was supported by the Ministry of Education, Culture, Sports, Science and Technology of Japan (A.N. and T.U.), JST, PRESTO (T.U.), and a Grant-in-Aid for JSPS Fellows (M.S.).
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Sunada, M., Goh, T., Ueda, T. et al. Functional analyses of the plant-specific C-terminal region of VPS9a: the activating factor for RAB5 in Arabidopsis thaliana . J Plant Res 129, 93–102 (2016). https://doi.org/10.1007/s10265-015-0760-5
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DOI: https://doi.org/10.1007/s10265-015-0760-5