Original Research ARTICLE
Proteomic data integration highlights central actors involved in einkorn (Triticum monococcum ssp. monococcum) grain filling in relation to grain storage protein composition
- 1UMR 1095 GDEC, Centre de recherche INRA de Clermont-Ferrand - Theix - Lyon, France
- 2Department of Botany and Plant Sciences, University of California, Riverside, United States
- 3UMR GQE, INRA, Université Paris-Sud, CNRS, AgroParisTech, Centre de recherche de Gif-sur-Yvette, Université Paris Saclay, France
- 4UMR LEPSE, Institut National de la Recherche Agronomique Centre Montpellier, France
- 5UMR5219 Institut de mathématiques de Toulouse (IMT), France
Albumins and globulins (AGs) of wheat endosperm represent about 20% of total grain proteins. Some of these physiologically active proteins can influence the synthesis of storage proteins (SPs) (gliadins and glutenins) and consequently, rheological properties of wheat flour and processing. To identify such AGs, data, (published by Bonnot et al. (2017)) concerning abundance in 352 AGs and in the different seed SPs during grain filling and in response to different nitrogen (N) and sulphur (S) supply, were integrated with mixOmics R package. Relationships between AGs and SPs were first unraveled using the unsupervised method sparse Partial Least Square, also known as Projection to Latent Structure (sPLS). Then, data were integrated using a supervised approach taking into account the nutrition and the grain developmental stage. We used the block.splsda procedure also referred to as DIABLO (Data Integration Analysis for Biomarker discovery using Latent variable approaches for Omics studies). These approaches led to the identification of discriminant and highly correlated features from the two datasets (AGs and SPs) which are not necessarily differentially expressed during seed development or in response to N or S supply. Eighteen AGs were correlated with the quantity of storage proteins per grain. A statistical validation of these proteins by genetic association analysis confirmed that 5 out of this AG set were robust candidate proteins able to modulate the seed storage protein synthesis. In conclusion, this latter result confirmed that the integrative strategy is an adequate way to reduce the number of potentially relevant AGs for further functional validation.
Keywords: Albumins and globulins, data integration, Nitrogen, Sulfur, Storage proteins, wheat, Grain development, proteomic
Received: 15 Feb 2019;
Accepted: 07 Jun 2019.
Edited by:Antonio Masi, University of Padova, Italy
Reviewed by:Carlos A. Labate, University of São Paulo, Brazil
Venkatesh P. Thirumalaikumar, Max Planck Institute for Plant physiology
Copyright: © 2019 BANCEL, BONNOT, DAVANTURE, ALVAREZ, ZIVY, MARTRES, DEJEAN and RAVEL. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
* Correspondence: Dr. Emmanuelle BANCEL, Centre de recherche INRA de Clermont-Ferrand - Theix - Lyon, UMR 1095 GDEC, Clermont-Ferrand, Auvergne, France, email@example.com