title: Strategies to reconstruct 3DCoffea arabicaL. plant structure.
abstract: Accurate model of structural elements is necessary to model the foliage and fruit distributions in cultivated plants, both of them being key parameters for yield prediction. However, the level of details in architectural data collection could vary, simplifying the data collection when plants get older and because of the high time cost required. In the present study, we aimed at reconstructing and analyzing plant structure, berry distributions and yield inCoffea arabica(Arabica coffee), by using both detailed or partial morphological information and probabilistic functions. Different datasets of coffee plant architectures were available with different levels of detail depending on the tree age. Three scales of decomposition-plant, axes and metamers were used reconstruct the plant architectures. CoffePlant3D, a software which integrates a series of mathematical, computational and statistical methods organized in three newly developed modules, AmostraCafe3D, VirtualCafe3D and Cafe3D, was developed to accurately reconstruct coffee plants in 3D, whatever the level of details available. The number of metamers of the 2nd order axes was shown to be linearly proportional to that of the orthotropic trunk, and the number of berries per metamer was modeled as a Gaussian function within a specific zone along the plagiotropic axes. This ratio of metamer emission rhythm between the orthotropic trunk and plagiotropic axes represents the pillar of botanical events in theC.arabicadevelopment and was central in our modeling approach, especially to reconstruct missing data. The methodology proposed for reconstructing coffee plants under the CoffePlant3D was satisfactorily validated across dataset available and could be performed for any other Arabica coffee variety.
authors.affiliation: UEL, Rodovia Celso Garcia Cid, Pr 445 km 380, P.O.Box 10011, Londrina, PR 86057-970 Brazil.
authors.forename: Fabio Takeshi
authors.initials: FT
authors.lastname: Matsunaga
authors.affiliation: UEL, Rodovia Celso Garcia Cid, Pr 445 km 380, P.O.Box 10011, Londrina, PR 86057-970 Brazil.
authors.forename: Jonas Barbosa
authors.initials: JB
authors.lastname: Tosti
authors.affiliation: IAPAR, Rodovia Celso Garcia Cid, km 375, P.O.Box 481, Londrina, PR 86047-902 Brazil.
authors.forename: Armando
authors.initials: A
authors.lastname: Androcioli-Filho
authors.affiliation: UEL, Rodovia Celso Garcia Cid, Pr 445 km 380, P.O.Box 10011, Londrina, PR 86057-970 Brazil.
authors.forename: Jacques Duílio
authors.initials: JD
authors.lastname: Brancher
authors.affiliation: UMR AGAP Equipe Architecture et Fonctionnement des Espèces Fruitières, INRA, Avenue Agropolis, TA A-96/03, 34398 Montpellier, France.
authors.forename: Evelyne
authors.initials: E
authors.lastname: Costes
authors.affiliation: IAPAR, Rodovia Celso Garcia Cid, km 375, P.O.Box 481, Londrina, PR 86047-902 Brazil ; Institute of Biology, UNICAMP, Rua Monteiro Lobato, 255 - Cidade Universitária, Campinas, SP 13083-862 Brazil ; Embrapa Informática Agropecuária, Avenida André Tosello 209, P.O.Box 6041, Campinas, SP 13083-886 Brazil.
authors.forename: Miroslava
authors.initials: M
authors.lastname: Rakocevic
keywords: Berry distribution; Gaussian model; LAI; Metamer; Plant architecture; Python; Vertical profile