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Development and testing of a pipeline of analysis methods enabling an integrative analysis of the development from cell to shoot scale.

Abstract : This study is based on the observation of a lack of methods enabling the integrated analysis of the processes controlling the vegetative development in Arabidopsis thaliana during multiscale phenotypic studies. A preliminary leaf growth phenotyping of 91 genotypes enabled to select 3 mutants and different variables of interest for a more in depth analysis of the shoot development. We developed a pipeline of analysis methods combining image analysis techniques and statistical models to integrate the measurements made at the leaf and shoot scales. Semi-Markov switching models were built for each genotype, allowing a more thorough characterization of the studied mutants. These models validated the hypothesis that the rosette can be structured into successive developmental phases that could change depending on the genotype. They also highlighted the structuring role of the ‘abaxial trichomes' variable, although the developmental phases cannot be explained entirely by this trait. We developed a second pipeline of analysis methods combining a semi-automatic method for segmenting leaf epidermis images, and the analysis of the obtained cell areas using a gamma mixture model whose parameters of gamma components are tied by a scaling rule. This model allowed us to estimate the mean number of endocycles. We highlighted that this mean number of endocycles was function of the leaf rank. The multi-scale pipeline of analysis methods that we developed and tested during this PhD should be sufficiently generic to be applied to other plant species in various environmental conditions.
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  • HAL Id : tel-02794060, version 1
  • PRODINRA : 357012

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Maryline Lievre. Development and testing of a pipeline of analysis methods enabling an integrative analysis of the development from cell to shoot scale.. Morphogenesis. Institut National d'Etudes Supérieures Agronomiques de Montpellier, 2014. English. ⟨tel-02794060⟩

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