Dresselhaus, T., Balboni, M., Berg, L.,  Dolata, A.,  Hochholdinger, F., Huang, Y., Jiang, G.,  von Korff, M.,  Ku, J.-C., van der Linde, K.,  Maika, J., Mondragon, C.L., Raissig, M., Schnittger, A., Schnurbusch, T., Simon, R., Stahl, Y., Timmermans, M., Thirulogachandar, V., Zhao, S., Zhou, Y. (CSCS consortium) How meristems shape plant architecture in cereals. The Plant Cell (2025); 
https://doi.org/10.1093/plcell/koaf150

RECROP consortium (2025) Integrative approaches to enhance reproductive resilience of crops for climate-proof agriculture. Plant Stress, 100704;
https://doi.org/10.1016/j.stress.2024.100704

Strotmann, V.I., Garcia-Gómez, M.L., Stahl, Y.* (2025) Root stem cell homeostasis in Arabidopsis involves cell-type specific transcription factor complexes. EMBO reports https://doi.org/10.1038/s44319-025-00422-8

Strotmann, V.I., Garcia-Gómez, M.L., Stahl, Y.* (2025) data set “Root stem cell homeostasis in Arabidopsis involves cell type specific transcription factor complexes" at BioImage Archive doi: https://doi.org/10.6019/S-BIAD1636

Eljebbawi, A., Strotmann, V.I., Dolata, A., Weidtkamp-Peters, S., Stahl, Y.* (2025) From Principles to Practice: A Comprehensive Guide to FRET-FLIM in Plants. Methods of Microscopy https://doi.org/10.1515/mim-2024-0019

Alexander, R.D., Castillejo-Pons, P., Melzer, N., Alsaif, O., Strotmann, V.I., Stahl, Y., Seale, M., Morris, P.C. (2025) The Arabidopsis PM19L1 Protein Functions as a Regulator of Germination Under Osmotic Stress. Plant Direct, 19;9(5):e70059;
https://doi.org./10.1002/pld3.70059 

Eljebbawi, A., Dolata, A., Strotmann, V.I., Stahl, Y.* (2024) Stem Cell Quiescence and Dormancy in Plant Meristems. Journal of Experimental Botany, erae201.
https://doi.org/10.1093/jxb/erae201

Eljebbawi, A., Hutin, S., Zubieta, C., Stahl, Y.* (2024) Environmental signals driving liquid-liquid phase separation – a molecular memory in plants? Frontiers in Plant Science 15. https://doi.org/10.3389/fpls.2024.1391043

Trofimov, K., Gratz, R., Ivanov, R., Stahl, Y., Bauer, P., Brumbarova, T. (2024) FER-like iron deficiency-induced transcription factor (FIT) accumulates in nuclear condensates. Journal of Cell Biology 223, e202311048,
https://doi.org/10.1083/jcb.202311048

El Bahafid, M., Bradtmöller, I., Thies, A.M., Nguyen, T. T. O. N., Gutierrez, C., Desvoyes, B.,  Stahl, Y., Blilou, I., Simon, R. (2023) The Arabidopsis SHORTROOT network coordinates shoot apical meristem development with auxin dependent lateral organ initiation. Accepted for publication. eLife.
doi: https://doi.org/10.1101/2022.09.27.509828

Eljebbawi, A., Strotmann, V.I., Dolata, A., Stahl, Y.* (2023) Unlocking Nature's (Sub)Cellular Symphony: Phase Separation in Plant Meristems. Accepted for publication. Current Opinion in Plant Biology (^*corresponding author)

Hutin S., Kumita J.R., Strotmann V.I., Dolata A., Ling W.L., Louafi N., Popov A., Milhiet P.-E., Blackledge M., Nanao M.H., Wigge P.A., Stahl Y., Costa L., Tully M.D., Zubieta C. (2023) Phase separation and molecular ordering of the prion-like domain of the thermosensory protein EARLY FLOWERING 3. PNAS 120 (28) e2304714120. doi: https://doi.org/10.1073/pnas.2304714120

Maika JE, Strotmann VI, Krämer B, Wellmer, F., Weidtkamp-Peters, S., Stahl, Y.*, Simon, R.*  (2023) One Pattern Analysis (OPA) for the quantitative determination of protein interactions in plant cells. Plant Methods 19:73
doi: https://doi.org/10.1186/s13007-023-01049-3

Borst, J.W., Fransen, J., Weidtkamp-Peters, S. and Stahl, Y. (2022), Microspectroscopy: functional imaging of biological systems. FEBS Lett. 596: 2469-2471.
doi: https://doi.org/10.1002/1873-3468.14498

Burkart R.C., Eljebbawi A, Stahl Y.* (2022) Come together now: Dynamic body-formation of key regulators integrates environmental cues in plant development. Frontiers in Plant Science. 14;13:1052107. 
doi: https://doi.org/10.3389/fpls.2022.105210

Burkart, R.C., Strotmann, V., Kirschner, G.K., Akinci, A., Czempik, L., Maizel, A., Weidtkamp-Peters, S. and Stahl, Y.* (2022) PLETHORA and WOX5 interaction and subnuclear localization regulates Arabidopsis root stem cell maintenance. EMBO Reports. 23: e54105.
doi: https://doi.org/10.15252/embr.202154105

Strotmann, V.I. and Stahl, Y.* (2022) Visualisation of in vivo protein-protein interactions in plants. Journal of Experimental Botany.  erac139,
doi: https://doi.org/10.1093/jxb/erac139

Weidtkamp-Peters, S.*, Rehwald S., Stahl, Y.* (2022) Homo-FRET Imaging to Study Protein-Protein Interaction and Complex Formation in Plants. Plant Synthetic Biology: Methods and Protocols 2379:197-208.
doi: https://doi.org/10.1007/978-1-0716-1791-5_12

Strotmann, V. I., Stahl, Y.* (2021) At the root of quiescence – Function and regulation of the quiescent center. Journal of Experimental Botany. 1(5):100028.
doi: https://doi.org/10.1093/jxb/erab275

Schlegel, J., Denay, G., Gustavo Pinto, K., Stahl, Y., Schmid, J., Blümke, P., Simon, R. (2021) Control of Arabidopsis shoot stem cell homeostasis by two antagonistic CLE peptide signalling pathways. eLife. 10:e70934.
doi: https://doi.org/10.7554/eLife.70934

Betegón-Putze I., Mercadal J., Bosch N., Planas-Riverola A., Marquès-Bueno M., Vilarrasa-Blasi J., Frigola D., Burkart R.C., Martínez C., Stahl Y., Prat S., Ibañes M., Caño-Delgado A.I. (2021) Precise transcriptional control of cellular quiescence by BRAVO/WOX5 complex in Arabidopsis roots. Molecular Systems Biology. 17(6):e9864. doi:  https://doi.org/10.15252/msb.20209864

Smith, S., Zhu, S., Joos, L., Roberts, I., Nikonorova, N., Dai Vu, L., Stes, E., Cho, H., Larrieu, A., Xuan, W., Goodall, B., van de Cotte, B., Waite, J.M., Rigal, A., Harborough, S.R.R., Persiau, G., Vanneste, S., Kirschner, G.K., Vandermarliere, E., Martens, L., Stahl, Y., Audenaert, D., Friml, J., Felix, G., Simon, R., Bennett, M.J., Bishopp, A., De Jaeger, G., Ljung, K., Kepinski, S., Robert, S., Nemhauser, J., Hwang, I., Gevaert, K., Beeckman, T. and De Smet, I. (2020) The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis. Molecluar & Cellular Proteomics. 19, 2-16.
doi: https://doi.org/10.1074/mcp.RA119.001826

Zhang, Y., Chen, M., Siemiatkowska, B., Toleco, M., R., Jing, Y., Strotmann, V., Zhang, J., Stahl, Y., Fernie, A. (2020) A Highly Efficient Agrobacterium-Mediated Method for Transient Gene Expression and Functional Studies in Multipe Plant Species. Plant Communications. 100028.
doi: https://doi.org/10.1016/j.xplc.2020.100028

Long, Y., Stahl, Y., Weidtkamp-Peters, S., Blilou, I. (2020) Visualizing Protein Associations in Living Arabidopsis Embryo. Methods in Molecular Biology. 2122:167-188,
doi: https://doi.org/10.1007/978-1-0716-0342-0_13

Berleth, M., Berleth, N., Minges, A., Hänsch, S., Burkart, R.C., Stork, B., Stahl, Y., Weidtkamp-Peters, S., Simon, R., Groth, G. (2019) Molecular Analysis of Protein Protein Interactions in the Ethylene Pathway in the Different Ethylene Receptor Subfamilies. Frontiers in Plant Science. 10:726.
doi: https://doi.org/10.3389/fpls.2019.00726

Mikulski, P., Hohenstatt, M.L., Farrona, S., Smaczniak, C.; Stahl, Y.; Kalyanikrishna; Kaufmann, K.; Angenent, G.; Schubert, D. (2019) The chromatin-associated protein PWO1 interacts with plant nuclear lamin-like components to regulate nuclear size. The Plant Cell.  (5):1141-1154. 
doi: https://doi.org/10.1105/tpc.18.00663

Long, Y., Stahl, Y., Weidtkamp-Peters, S., Smet, W., Du, Y., Gadella, T.W.J. Jr, Goedhart, J., Schere, B., Blilou, I, (2018) Optimizing FRET-FLIM labeling conditions to detect nuclear protein interactions at native expression level in living Arabidopsis roots. Frontiers in Plant Science. 9:639.  
doi: https://doi.org/10.3389/fpls.2018.00639

Kirschner, G. K., Stahl, Y., Imani, J., von Korff, M., Simon, R. (2018) Fluorescent reporter lines for auxin and cytokinin signalling in barley (Hordeum vulgare). PLOS ONE. 13(4):e0196086.
doi: https://doi.org/10.1371/journal.pone.0196086

Grossmann, G., Krebs, M., Maizel, A., Stahl, Y., Vermeer, J.E.M., Ott, T. (2017) Green light for quantitative live-cell imaging in plants. 131(2). Journal of Cell Science.
doi: https://doi.org/10.1242/jcs.209270

Long, Y., Stahl, Y., Weidtkamp-Peters, S., Postma, M., Zhou, W., Goedhart, J., Sánchez-Pérez, M.-I., Gadella, T.D.W. Jr, Simon, R., Scheres, B and Blilou, I. (2017) In vivo FRET-FLIM reveals cell type-specific protein interactions in Arabidopsis roots. Nature. 548:97–102.
doi: https://doi.org/10.1038/nature23317

Kirschner, G., Stahl, Y., von Korff, M., Simon, R., (2017) Unique and Conserved Features of the Barley Root Meristem. Frontiers in Plant Science. 8:1240. 
doi: https://doi.org/10.3389/fpls.2017.01240

Burkhart, R.C. and Stahl, Y.* (2017) Dynamic complexity: plant receptor complexes at the plasma membrane. Current Opinion in Plant Biology. 40:15-21.  
doi: https://doi.org/10.1016/j.pbi.2017.06.016

Weidtkamp-Peters, S.^*, Stahl, Y.* (2017) The use of FRET/FLIM to study proteins interacting with Plant Receptor Kinases. Methods in Molecular Biology. Plant Receptor Kinases edition. 1621:163-175.
doi: https://doi.org/doi:%2010.1007/978-1-4939-7063-6_16

Stahl, Y.* and Faulkner, C.* (2016) Receptor complex mediated regulation of symplastic traffic. Trends in Plant Science.  21(5): 450-459.
doi: https://doi.org/10.1016/j.tplants.2015.11.002

Somssich, M., Ma, Q., Weidtkamp-Peters, S., Stahl, Y., Felekyan, S., Bleckmann, A., Seidel, C.A.M., and Simon, R. (2015) Real-time dynamics of peptide ligand-dependent receptor complex formation in planta. Science Signaling. 4;8 (388): ra76.
doi: https://doi.org/10.1126/scisignal.aab0598

Czyzewicz, N., Wildhagen, M., Cattaneao, P., Stahl, Y., Gustavo Pinto, K., Aalen, R.B., Butenko, M., Simon, R., Hardtke, C., De Smet, I. (2015) Antagonistic peptide technology for functional dissection of CLE peptides revisited. Journal of Experimental Botany. 66 (17): 5367-5374. 
doi: https://doi.org/10.1093/jxb/erv284

Drisch, R.C. and Stahl, Y.* (2015) Function and regulation of transcription factors involved in root apical meristem and stem cell maintenance. Frontiers in Plant Sciences. 6;6: 505.
doi:  https://doi.org/10.3389/fpls.2015.00505

Stahl, Y.*, Grabowski, S., Bleckmann, A., Kühnemuth, R., Weidtkamp-Peters, S., Gustavo Pinto, K., Kirschner, G. K., Schmid, J. B., Wink, R. H., Hülsewede, A., Felekyan, S., Seidel, C. A. M., Simon, R. (2013) Moderation of root stemness by CLAVATA1 and ARABIDOPSIS CRINKLY4 receptor kinase complexes. Current Biology. 23: 362-371.
doi: https://doi.org/10.1016/j.cub.2013.01.045

Faculty of 1000: Recommended. This paper was featured in a dispatch by Williams, E.L., De Smet, I. (2013) Development: CLAVATA1 Joins the Club of Root Stem Cell Regulators. Current Biology. 23(6): R245-R247.

Stahl, Y.* and Simon, R.* (2013) Gated communities: apoplastic and symplastic signals converge at plasmodesmata to control cell fates. Journal of Experimental Botany. 64 (17): 5237-5241.  
doi: https://doi.org/10.1093/jxb/ert245

Stahl, Y. and Simon, R. (2012) Peptides and receptors controlling root development. Philosophical transactions of the Royal Society of London. Series B, Biological Sciences. 367: 1453-1460. 
doi: https://doi.org/10.1098/rstb.2011.0235

Stahl, Y. and Simon, R. (2012) Receptor kinases in plant meristem development. In Receptor-like kinases in plants: from development to defense. Springer Verlag GmbH. Editors: Tax, F., Kemmerling, B. ISBN 978-3-642-23044-8.

Marshall, A., Aalen, R. B., Audenaert, D., Beeckman, T., Broadley, M. R., Butenko, M. A., Caño-Delgado, A. I., de Vries, S., Dresselhaus, T., Felix, G., Graham, N. S., Foulkes, J., Granier, C., Greb, T., Grossniklaus, U., Hammond, J. P., Heidstra, R., Hodgman, C., Hothorn, M., Inzé, D., Østergaard, L.,  Russinova, E., Simon, R., Skirycz, A., Stahl, Y., Zipfel, C. and De Smet, I. (2012) Tackling Drought Stress: RECEPTOR-LIKE KINASES Present New Approaches. The Plant Cell. 24(6): 2262–2278. 
doi: https://doi.org/10.1105/tpc.112.096677

Stahl, Y., Göhre, V., Brüx, A. (2011) Measurement of Reactive Oxygen Species (ROS) in Arabidopsis and N. benthamiana plants. Application Note. Berthold Technologies.

Stahl, Y. and Simon, R. (2010) mRNA detection by whole mount in situ hybridization (WISH) or sectioned tissue in situ hybridization (SISH) in Arabidopsis in Plant Developmental Biology: Methods and Protocols. Springer Verlag GmbH. Editors: Henning, L., Köhler, C. ISBN 978-1-60761-764-8. 
doi: https://doi.org/10.1007/978-1-60761-765-5_16

Kinoshita, A., Betsuyaku, S., Osakabe, Y., Mizuno, S., Nagawa, S., Stahl, Y., Simon, R., Yamaguchi-Shinozaki, K., Fukuda, H., Sawa, S. (2010) RPK2 is an essential receptor-like kinase that transmits the CLV3 signal in Arabidopsis. Development. 137: 3911-3920. 
doi: https://doi.org/10.1242/dev.048199

Schatlowski N., Stahl Y., Hohenstatt M.L., Goodrich J., Schubert D. (2010) The CURLY LEAF interacting protein BLISTER controls expression of polycomb-group target genes and cellular differentiation of Arabidopsis thaliana. The Plant Cell. 22: 2291-2305.  doi:  https://doi.org/10.1105/tpc.109.073403

Stahl, Y. and Simon, R. (2009) Is the Arabidopsis root niche protected by sequestration of the CLE40 signal by its putative receptor ACR4? Plant Signaling and Behavior. 4: 634-635.
doi: https://doi.org/10.4161/psb.4.7.8970

Stahl,Y. Wink, R.H., Ingram, G.C. and Simon, R. (2009) A signaling module controlling the stem cell niche in Arabidopsis root meristems. Current Biology. 19: 909-914.
doi: https://doi.org/10.1016/j.cub.2009.03.060
This paper was featured in a dispatch by Dolan, L. (2009) Meristems: The root of stem cell regulation. Current Biology. 19: R459-R460.

Stahl Y., Alexander R.D., Coates S., Bryce J.H., Jenkinson H.R., Morris, P.C. (2007) The barley limit dextrinase inhibitor: Gene expression, protein location and interaction with 14-3-3 protein. Plant Science. 172: 452–461.
doi: https://doi.org/10.1016/j.plantsci.2006.10.008

Simon, R. and Stahl, Y. (2006) Botany. Plant cells CLEave their way to differentiation. Science. 313: 773-774.  
doi: https://doi.org/10.1126/science.1131833

Stahl, Y., Coates, S., Bryce, J.H. and Morris, P.C. (2004) Antisense downregulation of the barley limit dextrinase inhibitor modulates starch granule size distribution, starch composition and amylopectin structure. Plant Journal. 39: 599-611.
doi: https://doi.org/10.1111/j.1365-313X.2004.02159.x