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Section: Genomics
Topic: Genetics/Genomics, Cell biology

Expression of cell-wall related genes is highly variable and correlates with sepal morphology

Hartasánchez, Diego A.1, 2  ; Kiss, Annamaria1 ; Battu, Virginie1; Soraru, Charline1; Delgado-Vaquera, Abigail1; Massinon, Florian1; Brasó-Vives, Marina3, 4 ; Mollier, Corentin1; Martin-Magniette, Marie-Laure5, 6 ; Boudaoud, Arezki1, 7  ; Monéger, Françoise1 
1 Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, CNRS, INRAE, UCBL, Lyon, France
2 Department of Computational Biology, University of Lausanne, Lausanne, Switzerland
3 Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland
4 Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland
5 Université Paris-Saclay, CNRS, INRAE, Institute of Plant Sciences Paris-Saclay (IPS2), 91405 Orsay, France
6 Université Paris-Saclay, AgroParisTech, INRAE, UMR MIA-Paris, 75005 Paris, France
7 LadHyX, CNRS, École Polytechnique, Institut Polytechnique de Paris, Palaiseau Cedex 91128 France

10.24072/pcjournal.327 - Peer Community Journal, Volume 3 (2023), article no. e93.

Get full text PDF Peer reviewed and recommended by PCI

Control of organ morphology is a fundamental feature of living organisms. There is, however, observable variation in organ size and shape within a given genotype. Taking the sepal of Arabidopsis as a model, we investigated whether we can use variability of gene expression alongside variability of organ morphology to identify gene regulatory networks potentially involved in organ size and shape determination. We produced a dataset composed of morphological parameters and genome-wide transcriptome obtained from 27 individual sepals from wild-type plants with nearly identical genetic backgrounds, environment, and developmental stage. Sepals exhibited appreciable variability in both morphology and transcriptome, with response to stimulus genes and cell-wall related genes displaying high variability in expression. We additionally identified five modules of co-expressed genes which correlated significantly with morphology, revealing biologically relevant gene regulatory networks. Interestingly, cell-wall related genes were overrepresented in two of the top three modules. Overall, our work highlights the benefit of using coupled variation in gene expression and phenotype in wild-type plants to shed light on the mechanisms underlying organ size and shape determination. Although causality between gene expression and sepal morphology has not been established, our approach opens the way to informed analysis for mutant characterization and functional studies.

Published online:
DOI: 10.24072/pcjournal.327
Type: Research article
Keywords: Arabidopsis thaliana; sepal morphology; gene expression variability
Hartasánchez, Diego A. 1, 2; Kiss, Annamaria 1; Battu, Virginie 1; Soraru, Charline 1; Delgado-Vaquera, Abigail 1; Massinon, Florian 1; Brasó-Vives, Marina 3, 4; Mollier, Corentin 1; Martin-Magniette, Marie-Laure 5, 6; Boudaoud, Arezki 1, 7; Monéger, Françoise 1

1 Laboratoire Reproduction et Développement des Plantes, Université de Lyon, ENS de Lyon, CNRS, INRAE, UCBL, Lyon, France
2 Department of Computational Biology, University of Lausanne, Lausanne, Switzerland
3 Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland
4 Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland
5 Université Paris-Saclay, CNRS, INRAE, Institute of Plant Sciences Paris-Saclay (IPS2), 91405 Orsay, France
6 Université Paris-Saclay, AgroParisTech, INRAE, UMR MIA-Paris, 75005 Paris, France
7 LadHyX, CNRS, École Polytechnique, Institut Polytechnique de Paris, Palaiseau Cedex 91128 France
License: CC-BY 4.0
Copyrights: The authors retain unrestricted copyrights and publishing rights 
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     author = {Hartas\'anchez, Diego A. and Kiss, Annamaria and Battu, Virginie and Soraru, Charline and Delgado-Vaquera, Abigail and Massinon, Florian and Bras\'o-Vives, Marina and Mollier, Corentin and Martin-Magniette, Marie-Laure and Boudaoud, Arezki and Mon\'eger, Fran\c{c}oise},
     title = {Expression of cell-wall related genes is highly variable and correlates with sepal morphology},
     journal = {Peer Community Journal},
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Hartasánchez, Diego A.; Kiss, Annamaria; Battu, Virginie; Soraru, Charline; Delgado-Vaquera, Abigail; Massinon, Florian; Brasó-Vives, Marina; Mollier, Corentin; Martin-Magniette, Marie-Laure; Boudaoud, Arezki; Monéger, Françoise. Expression of cell-wall related genes is highly variable and correlates with sepal morphology. Peer Community Journal, Volume 3 (2023), article  no. e93. doi : 10.24072/pcjournal.327. https://peercommunityjournal.org/articles/10.24072/pcjournal.327/

Peer reviewed and recommended by PCI : 10.24072/pci.genomics.100243

Conflict of interest of the recommender and peer reviewers:
The recommender in charge of the evaluation of the article and the reviewers declared that they have no conflict of interest (as defined in the code of conduct of PCI) with the authors or with the content of the article.

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