M. T. Allen, P. Prusinkiewicz, and T. M. Dejong, Using L-systems for modeling source-sink interactions, architecture and physiology of growing trees: the L-PEACH model, New Phytologist, vol.117, issue.3, 2005.
DOI : 10.1111/j.1469-8137.2005.01348.x

H. Bargel, C. Neinhuis, A. Tal, M. Keinan, S. Fishman et al., Tomato (Lycopersicon esculentum Mill.) fruit growth and ripening as related to the biomechanical properties of fruit skin and isolated cuticle Simulation of environmental effects on Ca content in pepper fruit, J. Exp. Bot. Acta Hortic, vol.56, issue.507, pp.253-262, 1999.

R. M. Belda and L. C. Ho, Salinity effects on the network of vascular bundles during tomato fruit development, Journal of Horticultural Science, vol.68, issue.4, pp.557-564, 1993.
DOI : 10.1080/00221589.1993.11516385

N. Bertin, P. Bussières, and M. Génard, ECOPHYSIOLOGICAL MODELS OF FRUIT QUALITY: A CHALLENGE FOR PEACH AND TOMATO, Acta Horticulturae, vol.718, issue.718, 2006.
DOI : 10.17660/ActaHortic.2006.718.74

F. Boudon, J. Chopard, O. Ali, B. Gilles, O. Hamant et al., A Computational Framework for 3D Mechanical Modeling of Plant Morphogenesis with Cellular Resolution, PLoS Computational Biology, vol.125, issue.1, 2015.
DOI : 10.1371/journal.pcbi.1003950.s021

URL : https://hal.archives-ouvertes.fr/hal-01142486

F. Boudon, C. Pradal, T. Cokelaer, P. Prusinkiewicz, and C. Godin, L-Py: An L-System Simulation Framework for Modeling Plant Architecture Development Based on a Dynamic Language, Frontiers in Plant Science, vol.3, 2012.
DOI : 10.3389/fpls.2012.00076

URL : https://hal.archives-ouvertes.fr/cirad-00703085

P. Bussières, Water Import Rate in Tomato Fruit: A Resistance Model, Annals of Botany, vol.73, issue.1, pp.75-82, 1009.
DOI : 10.1006/anbo.1994.1009

M. Causse, R. Stevens, B. B. Amor, M. Faurobert, M. et al., Breeding for fruit quality in tomato Vascular functioning and the water balance of ripening kiwifruit (Actinidia chinensis) berries, Breeding for Fruit Quality, pp.279-305, 2011.

F. Corson, O. Hamant, S. Bohn, J. Traas, A. Boudaoud et al., Turning a plant tissue into a living cell froth through isotropic growth, Proceedings of the National Academy of Sciences, vol.106, issue.21, pp.8453-8458, 2009.
DOI : 10.1073/pnas.0812493106

URL : https://hal.archives-ouvertes.fr/hal-00412929

H. Dale, A. Runions, D. Hobill, and P. Prusinkiewicz, Modelling biomechanics of bark patterning in grasstrees, Annals of Botany, vol.114, issue.4, pp.629-641, 2014.
DOI : 10.1093/aob/mcu156

S. T. De-freitas, K. A. Shackel, and E. J. Mitcham, Abscisic acid triggers whole-plant and fruit-specific mechanisms to increase fruit calcium uptake and prevent blossom end rot development in tomato fruit, Journal of Experimental Botany, vol.62, issue.8, pp.2645-2656, 2011.
DOI : 10.1093/jxb/erq430

S. W. Fanta, M. K. Abera, W. A. Aregawi, Q. T. Ho, P. Verboven et al., Microscale modeling of coupled water transport and mechanical deformation of fruit tissue during dehydration, Journal of Food Engineering, vol.124, pp.86-96, 2014.
DOI : 10.1016/j.jfoodeng.2013.10.007

P. Federl, P. Prusinkiewicz, S. Fishman, M. Génard, A. Geitmann et al., Finite element model of fracture formation on growing surfaces A biophysical model of fruit growth: simulation of seasonal and diurnal dynamics of mass Mechanics and modeling of plant cell growth, Comput. Sci. Plant Cell Environ. Trends Plant Sci, vol.3037, issue.14, pp.138-145, 1998.

C. Gibert, J. Chadoeuf, G. Vercambre, M. Génard, and F. Lescourret, Cuticular cracking on nectarine fruit surface: spatial distribution and development in relation to irrigation and thinning, J. Am. Soc. Hortic. Sci, vol.132, pp.583-591, 2007.

C. Gibert, M. Génard, G. Vercambre, and F. Lescourret, Quantification and modelling of the stomatal, cuticular and crack components of peach fruit surface conductance, Functional Plant Biology, vol.37, issue.3, pp.264-274, 2010.
DOI : 10.1071/FP09118

C. Godin, H. Sinoquet, J. D. Goeschl, C. E. Magnuson, D. W. Demichele et al., Functional-structural plant modelling, New Phytologist, vol.166, issue.3, pp.705-708, 1976.
DOI : 10.1111/j.1469-8137.2005.01445.x

URL : https://hal.archives-ouvertes.fr/hal-01190931

I. Grechi, N. Hilgert, M. Genard, and F. Lescourret, Assessing the peach fruit refractometric index at harvest with a simple model based on fruit growth, J. Am. Soc. Hortic. Sci, vol.133, pp.178-187, 2008.
URL : https://hal.archives-ouvertes.fr/hal-00857824

E. Herremans, P. Verboven, M. L. Hertog, D. Cantre, M. Van-dael et al., Spatial development of transport structures in apple (Malus x domestica Borkh.) fruit. Front, Plant Sci, vol.6, p.679, 2015.

A. C. Hindmarsh, ODEPACK, a systematized collection of ODE solvers, Scientific Computing, pp.55-64, 1983.

L. C. Ho and P. J. White, A Cellular Hypothesis for the Induction of Blossom-End Rot in Tomato Fruit, Annals of Botany, vol.95, issue.4, pp.571-581, 2005.
DOI : 10.1093/aob/mci065

Q. T. Ho, P. Verboven, A. Ambaw, B. E. Verlinden, and B. M. Nicolai, Transport properties of fermentation metabolites inside ???Conference??? pear fruit, Postharvest Biology and Technology, vol.117, pp.38-48, 2016.
DOI : 10.1016/j.postharvbio.2016.01.008

Q. T. Ho, P. Verboven, B. E. Verlinden, J. Lammertyn, S. Vandewalle et al., A Continuum Model for Metabolic Gas Exchange in Pear Fruit, PLoS Computational Biology, vol.23, issue.3, 2008.
DOI : 10.1371/journal.pcbi.1000023.s001

Q. T. Ho, P. Verboven, B. E. Verlinden, and B. M. Nicolai, A model for gas transport in pear fruit at multiple scales, Journal of Experimental Botany, vol.61, issue.8, pp.2071-2081, 2010.
DOI : 10.1093/jxb/erq026

P. T. Jancsok, L. Clijmans, B. M. Nicolai, D. Baerdemaeker, and J. , Investigation of the effect of shape on the acoustic response of ???conference??? pears by finite element modelling, Postharvest Biology and Technology, vol.23, issue.1, pp.1-12, 2001.
DOI : 10.1016/S0925-5214(01)00098-9

E. Jones, T. Oliphant, P. Peterson, K. Org-kanahama, T. Saito et al., SciPy: Open Source Scientific Tools for Python Available online at: http://www.scipy Floral leaf arrangement and vascular system in the fruits of tomato and pepper, J. Jpn. Soc. Hortic. Sci, vol.58, pp.945-950, 1990.

R. Kennaway, E. Coen, A. Green, and A. Bangham, Generation of Diverse Biological Forms through Combinatorial Interactions between Tissue Polarity and Growth, PLoS Computational Biology, vol.9, issue.6, 2011.
DOI : 10.1371/journal.pcbi.1002071.s009

M. Lechaudel, G. Vercambre, F. Lescourret, F. Normand, and M. Genard, An analysis of elastic and plastic fruit growth of mango in response to various assimilate supplies, Tree Physiology, vol.27, issue.2, pp.219-230, 2007.
DOI : 10.1093/treephys/27.2.219

F. Lescourret, M. Genard, R. Habib, and S. Fishman, Variation in surface conductance to water vapor diffusion in peach fruit and its effects on fruit growth assessed by a simulation model, Tree Physiology, vol.21, issue.11, pp.735-741, 2001.
DOI : 10.1093/treephys/21.11.735

S. H. Li, M. Génard, C. Bussi, J. G. Huguet, R. Habib et al., Fruit quality and leaf photosynthesis in response to microenvironment modification around individual fruit by covering the fruit with plastic in nectarine and peach trees, The Journal of Horticultural Science and Biotechnology, vol.76, issue.1, pp.61-69, 2001.
DOI : 10.1080/14620316.2001.11511328

L. Ling, X. Hongzhen, S. Wenlin, and L. Gelin, Research on visualisation of fruits based on deformation, New Zealand Journal of Agricultural Research, vol.17, issue.11, pp.593-600, 2007.
DOI : 10.1145/15886.15903

H. F. Liu, M. Génard, S. Guichard, and N. Bertin, Model-assisted analysis of tomato fruit growth in relation to carbon and water fluxes, Journal of Experimental Botany, vol.58, issue.13, pp.3567-3580, 2007.
DOI : 10.1093/jxb/erm202

J. A. Lockhart, An analysis of irreversible plant cell elongation, Journal of Theoretical Biology, vol.8, issue.2, pp.264-275, 1965.
DOI : 10.1016/0022-5193(65)90077-9

P. Martre, N. Bertin, C. Salon, M. Génard, K. A. Mcculloh et al., Modelling the size and composition of fruit, grain and seed by process-based simulation models Water transport in plants obeys Murray's law A novel profile based model for virtual representation of quasi-symmetric plant organs, New Phytol. Nature Comput. Electron. Agric, vol.191, issue.75, pp.601-618, 2003.

H. K. Mebatsion, P. Verboven, A. M. Endalew, J. Billen, Q. T. Ho et al., A novel method for 3-D microstructure modeling of pome fruit tissue using synchrotron radiation tomography images, Journal of Food Engineering, vol.93, issue.2, pp.141-148, 2009.
DOI : 10.1016/j.jfoodeng.2009.01.008

R. M. Merks, M. Guravage, D. Inze, and G. T. Beemster, VirtualLeaf: An Open-Source Framework for Cell-Based Modeling of Plant Tissue Growth and Development, PLANT PHYSIOLOGY, vol.155, issue.2, pp.656-666, 2011.
DOI : 10.1104/pp.110.167619

Z. G. Mills, W. Mao, A. , and A. , Mesoscale modeling: solving complex flows in biology and biotechnology, Trends in Biotechnology, vol.31, issue.7, pp.426-434, 2013.
DOI : 10.1016/j.tibtech.2013.05.001

S. Moco, E. Capanoglu, Y. Tikunov, R. J. Bino, D. Boyacioglu et al., Tissue specialization at the metabolite level is perceived during the development of tomato fruit, Journal of Experimental Botany, vol.58, issue.15-16, pp.4131-4146, 2007.
DOI : 10.1093/jxb/erm271

C. D. Murray, A RELATIONSHIP BETWEEN CIRCUMFERENCE AND WEIGHT IN TREES AND ITS BEARING ON BRANCHING ANGLES, The Journal of General Physiology, vol.10, issue.5, pp.725-729, 1927.
DOI : 10.1085/jgp.10.5.725

T. A. Nguyen, T. Dresselaers, P. Verboven, G. D-'hallewin, N. Culeddu et al., Finite element modelling and MRI validation of 3D transient water profiles in pears during postharvest storage, Journal of the Science of Food and Agriculture, vol.15, issue.5, pp.745-756, 2006.
DOI : 10.1002/jsfa.2408

P. S. Nobel, Introduction to Biophysical Plant Physiology, 1974.

T. Nordey, M. Lechaudel, M. Saudreau, J. Joas, and M. Genard, Modelassisted analysis of spatial and temporal variations in fruit temperature and transpiration highlighting the role of fruit development, PLoS ONE, vol.9, 2014.
URL : https://hal.archives-ouvertes.fr/hal-01193198

J. K. Ortega, Augmented Growth Equation for Cell Wall Expansion, PLANT PHYSIOLOGY, vol.79, issue.1, pp.318-320, 1985.
DOI : 10.1104/pp.79.1.318

C. Pradal, F. Boudon, C. Nouguier, J. Chopard, and C. Godin, PlantGL: A Python-based geometric library for 3D plant modelling at different scales, Graphical Models, vol.71, issue.1, 2009.
DOI : 10.1016/j.gmod.2008.10.001

URL : https://hal.archives-ouvertes.fr/inria-00191126

P. Runions and A. , OpenAlea: a visual programming and component-based software platform for plant modelling Computational models of plant development and form, Funct. Plant Biol. New Phytol, vol.35, issue.193, pp.751-760, 2012.

G. R. Rodriguez, S. Munos, C. Anderson, S. C. Sim, A. Michel et al., Distribution of SUN, OVATE, LC, and FAS in the Tomato Germplasm and the Relationship to Fruit Shape Diversity, PLANT PHYSIOLOGY, vol.156, issue.1, pp.275-285, 2011.
DOI : 10.1104/pp.110.167577

S. Rogge, T. Defraeye, E. Herremans, P. Verboven, and B. M. Nicolai, A 3D contour based geometrical model generator for complex-shaped horticultural products, Journal of Food Engineering, vol.157, pp.24-32, 2015.
DOI : 10.1016/j.jfoodeng.2015.02.006

S. Y. Rogiers, J. M. Hatfield, V. G. Jaudzems, R. G. White, and M. Keller, Grape Berry cv. shiraz epicuticular wax and transpiration during ripening and preharvest weight loss, Am. J. Enol. Vitic, vol.55, pp.121-127, 2004.

A. G. Rolland-lagan and P. Prusinkiewicz, Reviewing models of auxin canalization in the context of leaf vein pattern formation in Arabidopsis, The Plant Journal, vol.9, issue.3, pp.854-865, 2005.
DOI : 10.1111/j.1365-313X.2005.02581.x

A. Runions, B. Lane, and P. Prusinkiewicz, Modeling trees with a space colonization algorithm, Proceedings of the 2007 Eurographics Workshop on Natural Phenomena, pp.63-70, 2007.

M. Saladie, A. J. Matas, T. Isaacson, M. A. Jenks, S. M. Goodwin et al., A Reevaluation of the Key Factors That Influence Tomato Fruit Softening and Integrity, PLANT PHYSIOLOGY, vol.144, issue.2, pp.1012-1028, 2007.
DOI : 10.1104/pp.107.097477

M. Saudreau, H. Sinoquet, O. Santin, A. Marquier, B. Adam et al., A 3D model for simulating the spatial and temporal distribution of temperature within ellipsoidal fruit, Agricultural and Forest Meteorology, vol.147, issue.1-2, pp.1-15, 2007.
DOI : 10.1016/j.agrformet.2007.06.006

URL : https://hal.archives-ouvertes.fr/hal-01189271

K. Takayama, O. Sorkine, A. Nealen, and T. Igarashi, Volumetric modeling with diffusion surfaces, ACM Trans. Graph, 2010.
DOI : 10.1145/1882261.1866202

URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.221.7210

S. D. Tanksley, The Genetic, Developmental, and Molecular Bases of Fruit Size and Shape Variation in Tomato, THE PLANT CELL ONLINE, vol.16, issue.suppl_1, pp.181-189, 2004.
DOI : 10.1105/tpc.018119

C. A. Taylor, T. J. Hughes, and C. K. Zarins, Finite element modeling of blood flow in arteries, Computer Methods in Applied Mechanics and Engineering, vol.158, issue.1-2, pp.155-196, 1998.
DOI : 10.1016/S0045-7825(98)80008-X

T. G. Thorp, M. J. Clearwater, A. M. Barnett, P. J. Martin, P. J. Blattmann et al., 'HORT16A' FRUIT BEAK END SOFTENING AND SHRIVELLING IN CALIFORNIA, Acta Horticulturae, vol.753753, issue.753, pp.389-39649, 2007.
DOI : 10.17660/ActaHortic.2007.753.49

J. Vos, J. B. Evers, G. H. Buck-sorlin, B. Andrieu, M. Chelle et al., Functional-structural plant modelling: a new versatile tool in crop science, Journal of Experimental Botany, vol.61, issue.8, pp.2101-2115, 2010.
DOI : 10.1093/jxb/erp345

URL : https://hal.archives-ouvertes.fr/hal-01132296

B. H. Wu, M. Genard, J. Kervella, S. H. Li, L. et al., Relationship between skin speckle, soluble solids content and transpiration rate in nectarines, Eur. J. Hortic. Sci, vol.68, pp.83-85, 2003.

J. Zhang, Z. Liu, H. Ma, M. , and S. , PRELIMINARY EVALUATION OF IMPLANT VISIBLE IMPLANT FLUORESCENT ELASTOMER TAGS IN SIBERIAN STURGEON <I>ACIPENSER BAERII</I>, Acta Hydrobiologica Sinica, vol.36, issue.3, pp.639-646, 2009.
DOI : 10.3724/SP.J.1035.2010.00639