Publications

If MorphoGraphX has made a substantial contribution to your work, please let us know about your publication, and we’ll add your article here.

  • 2022

    • Strauss S, Runions A, Lane B, Eschweiler D, Bajpai N, Trozzi N, Routier-Kierzkowska AL, Yoshida S, Rodrigues da Silveira S, Vijayan A, Tofanelli R, Majda M, Echevin E, Le Gloanec C, Bertrand-Rakusova H, Adibi M, Schneitz K, Bassel G, Kierzkowski D, Stegmaier J, Tsiantis M, Smith RS. (2022) Using positional information to provide context for biological image analysis with MorphoGraphX 2.0. https://elifesciences.org/articles/7260

  • 2021

    • Vijayan, A., Tofanelli, R., Strauss, S., Cerrone, L., Wolny, A., Strohmeier, J., Kreshuk, A., Hamprecht, F.A., Smith, R.S. and Schneitz, K., 2021. A digital 3D reference atlas reveals cellular growth patterns shaping the Arabidopsis ovule. Elife, 10, p.e63262. 10.7554/eLife.63262

  • 2020

    • Natonik-Białoń, S., Borowska-Wykręt, D., Mosca, G., Grelowski, M., Wrzalik, R., Smith, R.S. and Kwiatkowska, D., 2020. Deformation of a cell monolayer due to osmotic treatment: a case study of onion scale epidermis. Botany, 98(1), pp.21-36. https://doi.org/10.1139/cjb-2019-0027
    • Smith, S.J., Davidson, L.A., and Rebeiz, M, 2020. Evolutionary expansion of apical extracellular matrix is required for the elongation of cells in a novel structure. eLife 9:e55965. 10.7554/eLife.55965
    • Aryal, B., Jonsson, K., Baral, A., Sancho-Andres, G., Routier-Kierzkowska, A.L., Kierzkowski, D. and Bhalerao, R.P., 2020. Interplay between cell wall and auxin mediates the control of differential cell elongation during apical hook development. Current Biology, 30(9), pp.1733-1739.e3. https://doi.org/10.1016/j.cub.2020.02.055
    • Zhang, Z., Runions, A., Mentink, R.A., Kierzkowski, D., Karady, M., Hashemi, B., Huijser, P., Strauss, S., Gan, X., Ljung, K. and Tsiantis, M., 2020. A WOX/Auxin Biosynthesis Module Controls Growth to Shape Leaf Form. Current Biology. https://doi.org/10.1016/j.cub.2020.09.037
    • Dong, Y., Majda, M., Šimura, J., Horvath, R., Srivastava, A.K., Łangowski, Ł., Eldridge, T., Stacey, N., Slotte, T., Sadanandom, A., Smith, R.S. and Ljung, K., 2020. HEARTBREAK Controls Post-translational Modification of INDEHISCENT to Regulate Fruit Morphology in Capsella. Current Biology, 30(19), pp.3880-3888. https://doi.org/10.1016/j.cub.2020.07.055
    • Kinoshita, A., Vayssières, A., Richter, R., Sang, Q., Roggen, A., van Driel, A.D., Smith, R.S. and Coupland, G., 2020. Regulation of shoot meristem shape by photoperiodic signaling and phytohormones during floral induction of Arabidopsis. eLife, 9, p.e60661. 10.7554/eLife.60661

  • 2019

    • Kirchhelle, C., Garcia-Gonzalez, D., Irani, N.G., Jérusalem, A. and Moore, I., 2019. Two mechanisms regulate directional cell growth in Arabidopsis lateral roots. Elife, 8, p.e47988. 10.7554/eLife.47988
    • Jackson, M.D., Duran-Nebreda, S., Kierzkowski, D., Strauss, S., Xu, H., Landrein, B., Hamant, O., Smith, R.S., Johnston, I.G. and Bassel, G.W., 2019. Global topological order emerges through local mechanical control of cell divisions in the Arabidopsis shoot apical meristem. Cell systems, 8(1), pp.53-65. https://doi.org/10.1016/j.cels.2018.12.009
    • Yoshida, S., Van Der Schuren, A., Van Dop, M., Van Galen, L., Saiga, S., Adibi, M., Möller, B., Colette, A., Marhavy, P., Smith, R. and Friml, J., 2019. A SOSEKI-based coordinate system interprets global polarity cues in Arabidopsis. Nature plants, 5(2), pp.160-166. https://doi.org/10.1038/s41477-019-0363-6
    • Kierzkowski, D., Runions, A., Vuolo, F., Strauss, S., Lymbouridou, R., Routier-Kierzkowska, A.L., Wilson-Sánchez, D., Jenke, H., Galinha, C., Mosca, G., Zhang, Z. and Smith, R.S, 2019. A growth-based framework for leaf shape development and diversity. Cell, 177(6), pp.1405-1418. https://doi.org/10.1016/j.cell.2019.05.011

  • 2018

    • Chakrabortty, B., Blilou, I., Scheres, B. and Mulder, B.M., 2018. A computational framework for cortical microtubule dynamics in realistically shaped plant cells. PLoS computational biology, 14(2), p.e1005959. https://doi.org/10.1371/journal.pcbi.1005959
    • Feng, W., Kita, D., Peaucelle, A., Cartwright, H.N., Doan, V., Duan, Q., Liu, M.C., Maman, J., Steinhorst, L., Schmitz-Thom, I. and Yvon, R., 2018. The FERONIA receptor kinase maintains cell-wall integrity during salt stress through Ca2+ signaling. Current Biology, 28(5), pp.666-675. https://doi.org/10.1016/j.cub.2018.01.023

  • 2017

    • Kiss, A., Moreau, T., Mirabet, V., Calugaru, C.I., Boudaoud, A. and Das, P., 2017. Segmentation of 3D images of plant tissues at multiple scales using the level set method. Plant methods, 13(1), p.114. https://doi.org/10.1186/s13007-017-0264-5
    • Hervieux, N., Tsugawa, S., Fruleux, A., Dumond, M., Routier-Kierzkowska, A.L., Komatsuzaki, T., Boudaoud, A., Larkin, J.C., Smith, R.S., Li, C.B. and Hamant, O., 2017. Mechanical shielding of rapidly growing cells buffers growth heterogeneity and contributes to organ shape reproducibility. Current Biology, 27(22), pp.3468-3479. https://doi.org/10.1016/j.cub.2017.10.033
    • Tsugawa, S., Hervieux, N., Kierzkowski, D., Routier-Kierzkowska, A.L., Sapala, A., Hamant, O., Smith, R.S., Roeder, A.H., Boudaoud, A. and Li, C.B., 2017. Clones of cells switch from reduction to enhancement of size variability in Arabidopsis sepals. Development, 144(23), pp.4398-4405. https://doi.org/10.1242/dev.153999
    • Bringmann, M. and Bergmann, D.C., 2017. Tissue-wide mechanical forces influence the polarity of stomatal stem cells in Arabidopsis. Current Biology, 27(6), pp.877-883. https://doi.org/10.1016/j.cub.2017.01.059

  • 2016

    • Kirchhelle, C., Chow, C.M., Foucart, C., Neto, H., Stierhof, Y.D., Kalde, M., Walton, C., Fricker, M., Smith, R.S., Jérusalem, A. and Irani, N., 2016. The specification of geometric edges by a plant Rab GTPase is an essential cell-patterning principle during organogenesis in Arabidopsis. Developmental cell, 36(4), pp.386-400. https://doi.org/10.1016/j.devcel.2016.01.020
    • Hervieux, N., Dumond, M., Sapala, A., Routier-Kierzkowska, A.L., Kierzkowski, D., Roeder, A.H., Smith, R.S., Boudaoud, A. and Hamant, O., 2016. A mechanical feedback restricts sepal growth and shape in Arabidopsis. Current Biology, 26(8), pp.1019-1028. https://doi.org/10.1016/j.cub.2016.03.004
    • Louveaux, M., Julien, J.D., Mirabet, V., Boudaoud, A. and Hamant, O., 2016. Cell division plane orientation based on tensile stress in Arabidopsis thaliana. Proceedings of the National Academy of Sciences, 113(30), pp.E4294-E4303. https://doi.org/10.1073/pnas.1600677113
    • Hofhuis, H., Moulton, D., Lessinnes, T., Routier-Kierzkowska, A.L., Bomphrey, R.J., Mosca, G., Reinhardt, H., Sarchet, P., Gan, X., Tsiantis, M. and Ventikos, Y., 2016. Morphomechanical innovation drives explosive seed dispersal. Cell, 166(1), pp.222-233. https://doi.org/10.1016/j.cell.2016.05.002
    • Hong, L., Dumond, M., Tsugawa, S., Sapala, A., Routier-Kierzkowska, A.L., Zhou, Y., Chen, C., Kiss, A., Zhu, M., Hamant, O. and Smith, R.S., 2016. Variable cell growth yields reproducible organ development through spatiotemporal averaging. Developmental cell, 38(1), pp.15-32. https://doi.org/10.1016/j.devcel.2016.06.016
    • Scheuring, D., Löfke, C., Krüger, F., Kittelmann, M., Eisa, A., Hughes, L., Smith, R.S., Hawes, C., Schumacher, K. and Kleine-Vehn, J., 2016. Actin-dependent vacuolar occupancy of the cell determines auxin-induced growth repression. Proceedings of the National Academy of Sciences, 113(2), pp.452-457. https://doi.org/10.1073/pnas.1517445113

  • 2015

    • Barbier de Reuille, P., Routier-Kierzkowska, A.-L., Kierzkowski, D., Bassel, G.W., Schüpbach, T., Tauriello, G., Bajpai, N., Strauss, S., Weber, A., Kiss, A., Burian, A., Hofhuis, H., Sapala, A., Lipowczan, M., Heimlicher M.B., Robinson, S., Bayer, E.M., Basler, K., Koumoutsakos, P., Roeder, A.H.K., Aegerter-Wilmsen, T., Nakayama, N., Tsiantis, M., Hay, A., Kwiatkowska, D., Xenarios, I., Kuhlemeier, C. & Smith, R.S. (2015) MorphoGraphX: A platform for quantifying morphogenesis in 4D. eLife 4:e05864. http://dx.doi.org/10.7554/eLife.05864
    • Montenegro-Johnson, T. D., Stamm, P., Strauss, S., Topham, A. T., Tsagris, M., Wood, A. T., Smith, R.S. & Bassel, G. W. (2015). Digital Single-Cell Analysis of Plant Organ Development Using 3DCellAtlas. The Plant Cell 27(4), 1018-1033. http://dx.doi.org/10.1105/tpc.15.00175
    • Shapiro, B. E., Tobin, C., Mjolsness, E., & Meyerowitz, E. M. (2015). Analysis of cell division patterns in the Arabidopsis shoot apical meristem. PNAS, 112(15), 4815-4820. http://dx.doi.org/10.1073/pnas.1502588112

  • 2014

    • De Rybel, B., Adibi, M., Breda, A. S., Wendrich, J. R., Smit, M. E., Novák, O., Yamaguchi, N., Yoshida, S., Van Isterdael, G., Palovaara, J., Nijsse, B.,Boekschoten, M.V.,Hooiveld, G., Beeckman, T., Wagner, D., Ljung, K., Fleck, C.  & Weijers, D. (2014). Integration of growth and patterning during vascular tissue formation in Arabidopsis. Science, 345(6197), 1255215. http://dx.doi.org/10.1126/science.1255215
    • Bassel, G. W., Stamm, P., Mosca, G., Barbier de Reuille, P., Gibbs, D. J., Winter, R., Janka, Holdsworth, M. J. & Smith, R. S. (2014). Mechanical constraints imposed by 3D cellular geometry and arrangement modulate growth patterns in the Arabidopsis embryo. PNAS, 201404616. http://dx.doi.org/10.1073/pnas.1404616111
    • Yoshida, S., Barbier de Reuille, P., Lane, B., Bassel, G. W., Prusinkiewicz, P., Smith, R. S., & Weijers, D. (2014). Genetic Control of Plant Development by Overriding a Geometric Division Rule. Developmental cell, 29(1), 75-87. http://dx.doi.org/10.1016/j.devcel.2014.02.002
    • Sampathkumar, A., Krupinski, P., Wightman, R., Milani, P., Berquand, A., Boudaoud, A., Hamant, O., Jonsonn, E., & Meyerowitz, E. M. (2014). Subcellular and supracellular mechanical stress prescribes cytoskeleton behavior in Arabidopsis cotyledon pavement cells. ELife, 3. http://dx.doi.org/10.7554/eLife.01967
    • Vlad, D., Kierzkowski, D., Rast, M. I., Vuolo, F., Ioio, R. D., Galinha, C., Gan X., Hajheidari M., Hay A., Smith R. S., Huijser P., Bailey C. D., & Tsiantis, M. (2014). Leaf Shape Evolution Through Duplication, Regulatory Diversification, and Loss of a Homeobox Gene. Science, 343(6172), 780-783. http://dx.doi.org/10.1126/science.1248384
    • Barbier de Reuille, P., Robinson, S., & Smith, R. S. (2014). Quantifying Cell Shape and Gene Expression in the Shoot Apical Meristem Using MorphoGraphX. In Plant Cell Morphogenesis (pp. 121-134). Humana Press. http://dx.doi.org/10.1007/978-1-62703-643-6_10

  • 2013

    • Bert De Rybel B; Möller B; Yoshida S; Grabowicz I; Barbier de Reuille P; Boeren S, Smith RS; Borst JW; Weijers D (2013). A bHLH Complex Controls Embryonic Vascular Tissue Establishment and Indeterminate Growth in Arabidopsis. Developmental Cell. 24(4): 426-437. http://dx.doi.org/10.1016/j.devcel.2012.12.013
    • Wabnik, K., Robert, H. S., Smith, R. S., & Friml, J. (2013). Modeling framework for the establishment of the apical-basal embryonic axis in plants. Current Biology, 23(24), 2513-2518. http://dx.doi.org/10.1016/j.cub.2013.10.038

  • 2012

    • Nakayama, N., Smith, R. S., Mandel, T., Robinson, S., Kimura, S., Boudaoud, A., & Kuhlemeier, C. (2012). Mechanical regulation of auxin-mediated growth. Current Biology, 22(16), 1468-1476. http://dx.doi.org/10.1016/j.cub.2012.06.050
    • Kierzkowski, D., Nakayama, N., Routier-Kierzkowska, A. L., Weber, A., Bayer, E., Schorderet, M., Reinhardt, D., Kuhlemeier, C. & Smith, R. S. (2012). Elastic domains regulate growth and organogenesis in the plant shoot apical meristem. Science, 335(6072), 1096-1099. http://dx.doi.org/10.1126/science.1213100
    • Aegerter-Wilmsen, T., Heimlicher, M. B., Smith, A. C., de Reuille, P. B., Smith, R. S., Aegerter, C. M., & Basler, K. (2012). Integrating force-sensing and signaling pathways in a model for the regulation of wing imaginal disc size. Development, 139(17), 3221-3231. http://dx.doi.org/10.1242/dev.082800
    • Chitwood, D. H., Headland, L. R., Ranjan, A., Martinez, C. C., Braybrook, S. A., Koenig, D. P., Kuhlemeier, C., Smith, R. S. & Sinha, N. R. (2012). Leaf asymmetry as a developmental constraint imposed by auxin-dependent phyllotactic patterning. The Plant Cell Online, 24(6), 2318-2327. http://dx.doi.org/10.1105/tpc.112.098798

  • 2011

    • Santuari, L., Scacchi, E., Rodriguez-Villalon, A., Salinas, P., Dohmann, E., Brunoud, G., Vernoux, T., Smith, R.S. & Hardtke, C. S. (2011). Positional Information by Differential Endocytosis Splits Auxin Response to Drive Arabidopsis Root Meristem Growth. Current Biology, 21(22), 1918-1923. http://dx.doi.org/10.1016/j.cub.2011.10.002

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