Erratum: A Computational Framework for 3D Mechanical Modeling of Plant Morphogenesis with Cellular Resolution (PLoS Comput Biol (2015) 11:1 (e1003950) DOI: 10.1371/journal.pcbi.1003950);A Computational Framework for 3D Mechanical Modeling of Plant Morphogenesis with Cellular Resolution

PLoS Computational Biology

Volumn 11, Issue 1, 2015, Pages

  Boudon, Frédéric ^a   Chopard, Jérôme ^a   Ali, Olivier ^a,b   Gilles, Benjamin ^c   Hamant, Olivier ^b   Boudaoud, Arezki ^b   Traas, Jan ^b   Godin, Christophe ^a  

^a UMR AGAP   (France)

^b UNIVERSITÉ LYON 1   (France)

^c LIRMM   (France)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMECHANICS; COMPLEX NETWORKS; CYTOLOGY; GENE EXPRESSION; MORPHOLOGY;

CELL WALLS; CELLULAR RESOLUTION; COMPUTATIONAL FRAMEWORK; GENETIC REGULATION; LATERAL ORGANS; MECHANICAL MODELING; MOLECULAR NETWORKS; MULTIPLE FEEDBACK; SHAPE CHANGE; TURGOR PRESSURE;

PLANTS (BOTANY);

ARTICLE; CELL GROWTH; CELL TURGOR; CELL WALL; CONCEPTUAL FRAMEWORK; ELASTICITY; FLOWER DEVELOPMENT; GENE ACTIVITY; GROWTH REGULATION; MERISTEM; MODEL; MORPHOGENESIS; NONHUMAN; ORGAN GROWTH; PLANT CELL; PLANT DEVELOPMENT; PLANT MORPHOGENESIS; PLANT TISSUE; THREE DIMENSIONAL IMAGING; TURGOR PRESSURE; ARABIDOPSIS; BIOLOGICAL MODEL; BIOLOGY; COMPUTER SIMULATION; CYTOLOGY; FLOWER; GROWTH, DEVELOPMENT AND AGING; PHYSIOLOGY; PROCEDURES;

ANIMALIA;

ARABIDOPSIS; COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; FLOWERS; MODELS, BIOLOGICAL; PLANT CELLS; PLANT DEVELOPMENT;

EID: 84922248938     PISSN: 1553734X     EISSN: 15537358     Source Type: Journal    
DOI: 10.1371/JOURNAL.PCBI.1005027     Document Type: Erratum

References (48)

1. Jaeger J, Irons D, Monk N, (2008) Regulative feedback in pattern formation: towards a general relativistic theory of positional information. Development 135: 3175–3183.
2. Shraiman BI, (2005) Mechanical feedback as a possible regulator of tissue growth. Proceedings of the National Academy of Sciences of the United States of America 102: 3318–3323.
3. Hamant O, Heisler MG, Jönsson H, Krupinski P, Uyttewaal M, et al. (2008) Developmental Patterning by Mechanical Signals in Arabidopsis. Science (New York, NY) 322: 1650–1655.
4. Kutschera U (1991) Regulation of cell expansion. In: Lloyd CW, editor, The Cytoskeletal basis of plant growth and form, Academic Press, Inc. pp. 149–158.
5. Hamant O, Traas J, (2010) The mechanics behind plant development. The New phytologist 185: 369–385.
6. Cosgrove DJ, (1993) Wall extensibility: its nature, measurement and relationship to plant cell growth. The New phytologist 124: 1–23.
7. Lockhart JA, (1965) An analysis of irreversible plant cell elongation. Journal of Theoretical Biology 8: 264–275.
8. Dumais J, Shaw SL, Steele CR, Long SR, Ray PM, (2006) An anisotropic-viscoplastic model of plant cell morphogenesis by tip growth. Int J Dev Biol 50: 209–222.
9. Yant L, Mathieu J, Dinh TT, Ott F, Lanz C, et al. (2010) Orchestration of the Floral Transition and Floral Development in Arabidopsis by the Bifunctional Transcription Factor APETALA2. The Plant cell 22: 2156–2170.
10. Schlereth A, Möller B, Liu W, Kientz M, Flipse J, et al. (2010) MONOPTEROS controls embryonic root initiation by regulating a mobile transcription factor. Nature 464: 913–916.
11. Gomez-Mena C, (2005) Transcriptional program controlled by the floral homeotic gene AGAMOUS during early organogenesis. Development 132: 429–438.
12. Coen E, Rolland-Lagan AG, Matthews M, Bangham JA, Prusinkiewicz P, (2004) The genetics of geometry. Proceedings of the National Academy of Sciences 101: 4728–4735.
13. Green AA, Kennaway JR, Hanna AI, Bangham JA, Coen E, (2010) Genetic Control of Organ Shape and Tissue Polarity. PLoS Biol 8: e1000537.
14. Kennaway R, Coen E, Green A, Bangham A, (2011) Generation of diverse biological forms through combinatorial interactions between tissue polarity and growth. PLoS computational biology 7: e1002071.
15. Dupuy L, Mackenzie JP, Haseloff JP (2006) A biomechanical model for the study of plant morphogenesis: Coleocheate orbicularis, a 2D study species. In: Proceedings of the 5th Plant Biomechanics Conference, Stockholm, Sweden.
16. Dupuy L, Mackenzie J, Rudge T, Haseloff J, (2008) A system for modelling cell-cell interactions during plant morphogenesis. Annals of botany 101: 1255–1265.
17. Merks RMH, Guravage M, Inz e D, Beemster GTS, (2011) VirtualLeaf: An Open-Source Framework for Cell-Based Modeling of Plant Tissue Growth and Development. Plant physiology 155: 656–666.
18. Fozard JA, Lucas M, King JR, Jensen OE, (2013) Vertex-element models for anisotropic growth of elongated plant organs. Frontiers in plant science 4: 233.
19. Fernandez R, Das P, Mirabet V, Moscardi E, Traas J, et al. (2010) Imaging plant growth in 4D: robust tissue reconstruction and lineaging at cell resolution. Nature methods 7: 547–553.
20. Peaucelle A, Braybrook SA, Le Guillou L, Bron E, Kuhlemeier C, et al. (2011) Pectin-Induced Changes in Cell Wall Mechanics Underlie Organ Initiation in Arabidopsis. Current biology 21: 1720–1726.
21. Milani P, Braybrook SA, Boudaoud A, (2013) Shrinking the hammer: micromechanical approaches to morphogenesis. Journal of experimental botany 64: 4651–4662.
22. Rodriguez EK, Hoger A, McCulloch AD, (1994) Stress-dependent finite growth in soft elastic tissues. Journal of biomechanics 27: 455–467.
23. Goriely A, Ben Amar M, (2007) On the definition and modeling of incremental, cumulative, and continuous growth laws in morphoelasticity. Biomech Model Mechanobiol 6: 289–296.
24. Menzel A, Kuhl E, (2012) Frontiers in growth and remodeling. Mechanics Research Communications 42: 1–14.
25. Mandel J, (1973) Equations constitutives et directeurs dans les milieux plastiques et viscoplastiques. International Journal of Solids and Structures 9: 725–740.
26. Baskin TI, (2005) Anisotropic expansion of the plant cell wall. Annual review of cell and developmental biology 21: 203–222.
27. La Rota C, Chopard J, Das P, Paindavoine S, Rozier F, et al. (2011) A data-driven integrative model of sepal primordium polarity in Arabidopsis. The Plant cell 23: 4318–4333.
28. Reinhardt D, Pesce ERR, Stieger P, Mandel T, Baltensperger K, et al. (2003) Regulation of phyllotaxis by polar auxin transport. Nature 426: 255–260.
29. Barbier de Reuille P, Bohn-Courseau I, Ljung K, Morin H, Carraro N, et al. (2006) Computer simulations reveal properties of the cell-cell signaling network at the shoot apex in Arabidopsis. Proceedings of the National Academy of Sciences 103: 1627–1632.
30. Paque S, Mouille G, Grandont L, Alabadi D, Gaertner C, et al. (2014) AUXIN BINDING PROTEIN1 Links Cell Wall Remodeling, Auxin Signaling, and Cell Expansion in Arabidopsis. The Plant cell 26: 280–295.
31. Braybrook SA, Peaucelle A, (2013) Mechano-Chemical Aspects of Organ Formation in Arabidopsis thaliana: The Relationship between Auxin and Pectin. PloS one 8: e57813.
32. Aida M, Ishida T, Fukaki H, Fujisawa H, Tasaka M, (1997) Genes involved in organ separation in Arabidopsis: an analysis of the cup-shaped cotyledon mutant. The Plant cell 9: 841–857.
33. Aida M, Tasaka M, (2006) Morphogenesis and Patterning at the Organ Boundaries in the Higher Plant Shoot Apex. Plant Molecular Biology 60: 915–928.
34. Long J, Barton MK, (2000) Initiation of Axillary and Floral Meristems in Arabidopsis. Developmental biology 218: 341–353.
35. Heisler MG, Ohno C, Das P, Sieber P, Reddy GV, et al. (2005) Patterns of Auxin Transport and Gene Expression during Primordium Development Revealed by Live Imaging of the Arabidopsis Inflorescence Meristem. Current biology 15: 1899–1911.
36. Sawa S, Watanabe K, Goto K, Liu YG, Shibata D, et al. (1999) FILAMENTOUS FLOWER, a meristem and organ identity gene of Arabidopsis, encodes a protein with a zinc finger and HMG-related domains. Genes & development 13: 1079–1088.
37. van Mourik S, Kaufmann K, van Dijk ADJ, Angenent GC, Merks RMH, et al. (2012) Simulation of organ patterning on the floral meristem using a polar auxin transport model. PloS one 7: e28762.
38. Pradal C, Boudon F, Nouguier C, Chopard J, Godin C, (2009) PlantGL: a Python-based geometric library for 3D plant modelling at different scales. Graphical Models 71: 1–21.
39. Faure F, Duriez C, Delingette H, Allard J, Gilles B, et al. (2012) SOFA: A Multi-Model Framework for Interactive Physical Simulation. Soft Tissue Biomechanical Modeling for Computer Assisted Surgery: 283–321.
40. Barbier de Reuille P, Robinson S, Smith RS, (2014) Quantifying cell shape and gene expression in the shoot apical meristem using MorphoGraphX. Methods in molecular biology (Clifton, NJ) 1080: 121–134.
41. Sahlin P, Jönsson H, (2010) A Modeling Study on How Cell Division Affects Properties of Epithelial Tissues Under Isotropic Growth. PloS one 5: e11750.
42. Besson S, Dumais J, (2011) Universal rule for the symmetric division of plant cells. Proceedings of the National Academy of Sciences 108: 6294–6299.
43. Heisler MG, Hamant O, Krupinski P, Uyttewaal M, Ohno C, et al. (2010) Alignment between PIN1 polarity and microtubule orientation in the shoot apical meristem reveals a tight coupling between morphogenesis and auxin transport. PLoS Biol 8: e1000516.
44. Uyttewaal M, Burian A, Alim K, Landrein Bit, Borowska-Wykrę D, et al. (2012) Mechanical stress acts via katanin to amplify differences in growth rate between adjacent cells in Arabidopsis. Cell 149: 439–451.
45. Bozorg B, Krupinski P, Jönsson H, (2014) Stress and strain provide positional and directional cues in development. PLoS computational biology 10: e1003410.
46. Wahl V, Brand L, Guo YL, Schmid M, (2010) The fantastic four proteins influence shoot meristem size in arabidopsis thaliana. BMC Plant Biology 10: 285.
47. Peters WS, Hagemann W, Tomos AD, (2000) What makes plants different? principles of extracellular matrix function in ‘soft’ plant tissues. Comparative Biochemistry and Physiology Part A: Molecular & Integrative Physiology 125: 151–167.
48. Moore T (1857) The ferns of Great Britain and Ireland. Bradbury, Henry.