Publication list – Jiri Friml Original research articles 1. Shi CL, von Wangenheim D, Herrmann U, Wildhagen M, Kulik I, Kopf A, Ishida T, Olsson V, Anker MK, Albert M, Butenko MA, Felix G, Sawa S, Claassen M, Friml J, Aalen RB. (2018): The dynamics of root cap sloughing in Arabidopsis is regulated by peptide signalling. Nat Plants. 4(8):596-604. Epub 2018 Jul 30 2. Kania U, Nodzynski T, Lu Q, Hicks GR, Nerinckx W, Mishev K, Peurois F, Cherfils J, De Rycke RM, Grones P, Robert S, Russinova E, Friml J. (2018): Endosidin 4 inhibitor targets the SEC7 domain-type ARF-GEFs and interferes with subcellular trafficking in eukaryotes. Plant Cell. 2018 Jul 17. [Epub ahead of print] 3. Robert HS, Park C, Gutièrrez CL, Wójcikowska B, Pěnčík A, Novák O, Chen J, Grunewald W, Dresselhaus T, Friml J, Laux T. (2018): Maternal auxin supply contributes to early embryo patterning in Arabidopsis. Nat Plants. 4(8):548-553. Epub 2018 Jul 16 4. Nishiyama T, Sakayama H, de Vries J, Buschmann H, Saint-Marcoux D, Ullrich KK, Haas FB, Vanderstraeten L, Becker D, Lang D, Vosolsobě S, Rombauts S, Wilhelmsson PKI, Janitza P, Kern R, Heyl A, Rümpler F, Villalobos LIAC, Clay JM, Skokan R, Toyoda A, Suzuki Y, Kagoshima H, Schijlen E, Tajeshwar N, Catarino B, Hetherington AJ, Saltykova A, Bonnot C, Breuninger H, Symeonidi A, Radhakrishnan GV, Van Nieuwerburgh F, Deforce D, Chang C, Karol KG, Hedrich R, Ulvskov P, Glöckner G, Delwiche CF, Petrášek J, Van de Peer Y, Friml J, Beilby M, Dolan L, Kohara Y, Sugano S, Fujiyama A, Delaux PM, Quint M, Theißen G, Hagemann M, Harholt J, Dunand C, Zachgo S, Langdale J, Maumus F, Van Der Straeten D, Gould SB, Rensing SA.(2018): The Chara Genome: Secondary Complexity and Implications for Plant Terrestrialization. Cell 174(2):448-464.e24. 5. Grones P, Abas M, Hajný J, Jones A, Waidmann S, Kleine-Vehn J, Friml J. (2018): PID/WAG- mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism. Sci Rep. 6;8(1):10279. 6. Fendrych M, Akhmanova M, Merrin J, Glanc M, Hagihara S, Takahashi K, Uchida N, Torii KU, Friml J. (2018): Rapid and reversible root growth inhibition by TIR1 auxin signalling. Nat Plants. 4(7):453-459. Epub 2018 Jun 25. 7. Abbas M, Hernández-García J, Pollmann S, Samodelov SL, Kolb M, Friml J, Hammes UZ, Zurbriggen MD, Blázquez MA, Alabadí D. (2018): Auxin methylation is required for differential growth in Arabidopsis. Proc Natl Acad Sci U S A. Jun 115(26):6864-6869. Epub 2018 Jun 13. 8. Moturu TR, Thula S, Singh RK, Nodzynski T, Svobodová Vareková R, Friml J, Simon S. (2018): Molecular Evolution and Diversification of SMAX-Like Gene Family. J Exp Bot. 69(9):2367-2378. 9. Adamowski M, Narasimhan M, Kania U, Glanc M, De Jaeger G, Friml J. (2018): A Functional Study of AUXILIN-LIKE1 and 2, Two Putative Clathrin Uncoating Factors in Arabidopsis. Plant Cell. 30(3):700-716. 1 Publication list – Jiri Friml 10. Salanenka Y, Verstraeten I, Löfke C, Tabata K, Naramoto S, Glanc M, Friml J. (2018): Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane. Proc Natl Acad Sci U S A. 115(14):3716-3721. 11. Li L, Krens SFG, Fendrych M, Friml J. (2018): Real-time Analysis of Auxin Response, Cell Wall pH and Elongation in Arabidopsis thaliana Hypocotyls. Bio Protoc. 5;8(1):e2685 12. Prát T, Hajný J, Grunewald W, Vasileva M, Molnár G, Tejos R, Schmid M, Sauer M, Friml J. (2018): WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. PLoS Genet. 29;14(1):e1007177. 13. Fan L, Zhao L, Hu W, Li W, Novák O, Strnad M, Simon S, Friml J, Shen J, Jiang L, Qiu QS. (2018): NHX antiporters regulate the pH of endoplasmic reticulum and auxin-mediated development. Plant Cell Environ. 41(4):850-864. 14. Kitakura S, Adamowski M, Matsuura Y, Santuari L, Kouno H, Arima K, Hardtke CS, Friml J, Kakimoto T, Tanaka H. (2017): BEN3/BIG2 ARF GEF is Involved in Brefeldin A-sensitive Trafficking at the trans-Golgi Network / Early Endosome in Arabidopsis thaliana. Plant Cell Physiol. 1;58(10):1801-1811 15. Tejos R, Rodriguez-Furlan C, Adamowski M, Sauer M, Norambuena L, Friml J. (2017): PATELLINS are regulators of auxin-mediated PIN1 relocation and plant development in Arabidopsis thaliana. J Cell Sci. 29;131(2). 16. Von Wangenheim D, Hauschild R, Fendrych M, Barone V, Benková E, Friml J. (2017): Live tracking of moving samples in confocal microscopy for vertically grown roots. Elife 6 17. Von Wangenheim D, Hauschild R, Friml J. (2017): Light Sheet Fluorescence Microscopy of Plant Roots Growing on the Surface of a Gel. J Vis Exp. 119 18. Kuhn BM, Nodzyński T, Errafi S, Bucher R, Gupta S, Aryal B, Dobrev P, Bigler L, Geisler M, Zažímalová E, Friml J, Ringli C. (2017): Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity. Sci Rep. 7:41906. 19. Steenackers WJ, Klíma P, Quareshy M, Cesarino I, Kumpf RP, Corneillie S, Araújo P, Viaene T, Goeminne G, Nowack MK, Ljung K, Friml J, Blakeslee JJ, Novák O, Zažímalová E, Napier RM, Boerjan WA, Vanholme B. (2017): cis-cinnamic acid is a novel, natural auxin efflux inhibitor that promotes lateral root formation. Plant Physiol. 173(1):552-565 20. Simonini S, Deb J, Moubayidin L, Stephenson P, Valluru M, Freire-Rios A, Sorefan K, Weijers D, Friml J, Østergaard L. (2016): A noncanonical auxin-sensing mechanism is required for organ morphogenesis in Arabidopsis. Genes Dev.30(20):2286-2296. 21. Balla J, Medveďová Z, Kalousek P, Matiješčuková N, Friml J, Reinöhl V, Procházka S. (2016): Auxin flow-mediated competition between axillary buds to restore apical dominance. Sci Rep. 6:35955 2 Publication list – Jiri Friml 22. Rakusová H, Abbas M, Han H, Song S, Robert HS, Friml J. (2016): Termination of Shoot Gravitropic Responses by Auxin Feedback on PIN3 Polarity. Curr Biol. 26(22):3026-3032. 23. Žádníková P, Wabnik K, Abuzeineh A, Gallemí M, Van Der Straeten D, Smith RS, Inzé D, Friml J, Prusinkiewicz P, Benkova E. (2016): A Model of Differential Growth-Guided Apical Hook Formation in Plants. Plant Cell. 28(10):2464-2477 24. Ortiz-Morea FA, Savatin DV, Dejonghe W, Kumar R, Luo Y, Adamowski M, Van den Begin J, Dressano K, Pereira de Oliveira G, Zhao X, Lu Q, Madder A, Friml J, Scherer de Moura D, Russinova E. (2016): Danger-associated peptide signaling in Arabidopsis requires clathrin. Proc Natl Acad Sci U S A. 113(39):11028-33 25. Mazur E, Benková E, Friml J. (2016): Vascular cambium regeneration and vessel formation in wounded inflorescence stems of Arabidopsis. Sci Rep. 6:33754. 26. Fendrych M, Leung J, Friml J. (2016): TIR1/AFB-Aux/IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls. Elife 5 27. Nodzyński T, Vanneste S, Zwiewka M, Pernisová M, Hejátko J, Friml J. (2016): Enquiry into the topology of plasma membrane localized PIN auxin transport components. Mol Plant. 9(11):1504-1519 28. Łangowski Ł, Wabnik K, Li H, Vanneste S, Naramoto S, Tanaka H, Friml J. (2016): Cellular mechanisms for cargo delivery and polarity maintenance at different polar domains in plant cells. Cell Discov. 2:16018 29. Ugalde JM, Rodriguez-Furlán C, Rycke RD, Norambuena L, Friml J, León G, Tejos R. (2016): Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the regulation of vacuole morphology during Arabidopsis thaliana pollen development. Plant Sci. 250:10-9. Epub 2016 May 19. 30. Molnár G, Fendrych M, Friml J. (2016): Plasma membrane: Negative attraction. Nat Plants. 2(7):16102 31. Pernisova M, Prat T, Grones P, Harustiakova D, Matonohova M, Spichal L, Nodzynski T, Friml J, Hejatko J. (2016): Cytokinins influence root gravitropism via differential regulation of auxin transporter expression and localization in Arabidopsis. New Phytol. 212(2):497-509 32. Dejonghe W, Kuenen S, Mylle E, Vasileva M, Keech O, Viotti C, Swerts J, Fendrych M, Ortiz- Morea FA, Mishev K, Delang S, Scholl S, Zarza X, Heilmann M, Kourelis J, Kasprowicz J, Nguyen le SL, Drozdzecki A, Van Houtte I, Szatmári AM, Majda M, Baisa G, Bednarek SY, Robert S, Audenaert D, Testerink C, Munnik T, Van Damme D, Heilmann I, Schumacher K, Winne J, Friml J, Verstreken P, Russinova E. (2016): Mitochondrial uncouplers inhibit clathrin- mediated endocytosis largely through cytoplasmic acidification. Nat Commun. 7:11710 33. Zemová, R., Zwiewka, M., Bielach, A., Robert, H.S., Friml, J. (2016): A Forward Genetic Screen for New Regulators of Auxin-mediated Degradation of Auxin Transport Proteins in Arabidopsis thaliana. Journal of Plant Growth Regulation 35 (2), 465-476 3 Publication list – Jiri Friml 34. Simon S, Skůpa P, Viaene T, Zwiewka M, Tejos R, Klíma P, Čarná M, Rolčík J, De Rycke R, Moreno I, Dobrev PI, Orellana A, Zažímalová E, Friml J. (2016): PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis. New Phytol. 211(1):65-74 35. Sancho-Andrés G, Soriano-Ortega E, Gao C, Bernabé-Orts JM, Narasimhan M, Müller A, Tejos R, Jiang L, Friml J, Aniento F, Marcote MJ. (2016): Sorting motifs involved in the trafficking and localization of the PIN1 auxin efflux carrier. Plant Physiol. 171(3):1965-82. 36. Zhu J, Bailly AL, Zwiewka M, Sovero V, di Donato M, Ge P, Oehri J, Aryal B, Hao P, Linnert M, Burgardt N, Lücke C, Weiwad M, Michel M, Weiergräber OH, Pollmann S, Azzarello E, Mancuso S, Ferro N, Fukao Y, Hoffmann C, Wedlich-Söldner R, Friml J, Thomas C, Geisler M.