Article Dans Une Revue Plant Physiology Année : 2019

Modeling Protein Destiny in Developing Fruit

Pierre Pétriacq
Sylvain Prigent
Camille Bénard
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Jean-Pierre Mazat
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Bertrand Beauvoit
Yves Gibon

Résumé

Protein synthesis and degradation are essential processes that regulate cell status. Because labeling in bulky organs, such as fruits, is difficult, we developed a modeling approach to study protein turnover at the global scale in developing tomato (Solanum lycopersicum) fruit. Quantitative data were collected for transcripts and proteins during fruit development. Clustering analysis showed smaller changes in protein abundance compared to mRNA abundance. Furthermore, protein and transcript abundance were poorly correlated, and the coefficient of correlation decreased during fruit development and ripening, with transcript levels decreasing more than protein levels. A mathematical model with one ordinary differential equation was used to estimate translation (kt) and degradation (kd) rate constants for almost 2,400 detected transcript-protein pairs and was satisfactorily fitted for over a thousand pairs. The model predicted median values of about 2 min for the translation of a protein, and a protein lifetime of approximately 11 days. The constants were validated and inspected for biological relevance. Proteins involved in protein synthesis had higher kt and kd values, indicating that the protein machinery is particularly flexible. Our model also predicts that protein concentration is more strongly affected by the rate of translation than that of degradation.

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Recherche Data Gouv

Cite 10.15454/95JUTK Jeu de données Bénard, Camille; Biais, Benoit; Ballias, Patricia; Beauvoit, Bertrand; Bernillon, Stéphane; Cabasson, Cécile; Colombié, Sophie; Deborde, Catherine; Gaillard, Pierre; Génard, Michel; Gibon, Yves; Jacob, Daniel; Maucourt, Mickael; Moing, Annick; Vercambre, Gilles, 2018, "FRIM - Fruit Integrative Modelling", https://doi.org/10.15454/95JUTK, Recherche Data Gouv, V6

HAL

Est complété par hal-02539392 Article Isma Belouah, Camille Bénard, Alisandra Denton, Melisande Blein-Nicolas, Thierry Balliau, et al.. Transcriptomic and proteomic data in developing tomato fruit. Data in Brief, 2020, 28, pp.1-8. ⟨10.1016/j.dib.2019.105015⟩. ⟨hal-02539392⟩

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hal-02327302 , version 1 (16-06-2025)

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Isma Belouah, Christine Nazaret, Pierre Pétriacq, Sylvain Prigent, Camille Bénard, et al.. Modeling Protein Destiny in Developing Fruit. Plant Physiology, 2019, 180 (3), pp.1709-1724. ⟨10.1104/pp.19.00086⟩. ⟨hal-02327302⟩
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