Project description:We developped a new oligo microarray platform to analyse flax transcriptome. Here, we validated this microarray on several tissues of flax, at different developmental stages. 30 chips study using total RNA from 9 different tissue samples of Flax (Leaf sample at green capsule stage, stem inner tissue at vegetavie stage, stem outter tissue at vegetative stage, stem inner tissue at green capsule stage, stem outter tissue at green capsule stage, roots, embryos of 10, 20 and 40 days after flowering) for an overall survey of microarry accuracy and total RNA from 6 stem tissue at green capsule stage (3 of the cultivar 'Belinka' and 3 of the cultivar 'Drakkar') for an analysis of biological replicates reproducibility.
Project description:We developped a new oligo microarray platform to analyse flax transcriptome. Here, we validated this microarray on several tissues of flax, at different developmental stages.
Project description:Proteomic analyses of four different flax organs/tissues (inner-stem, outer-stem, leaves and roots) enriched in proteins from 3 different sub-compartments (soluble-, membrane-, and cell wall-proteins) was combined with publically available data on flax seed and whole-stem proteins to generate a flax protein database containing 2996 non-redundant total proteins. Examination of the proteins present in different flax organs/tissues provided a detailed overview of cell wall metabolism and highlighted the importance of hemicellulose and pectin remodeling in stem tissues.
Project description:Cotton fiber were used for the expression analysis at different developmental stages Affymetrix Cotton Genome array were used for the global profiling of gene expression of cotton fiber at different developmental stages
Project description:One of the biggest challenges to a more widespread utilization of natural fibers from flax and other fiber plants is to obtain a better understanding of the different factors underlying the observed variability in fiber quality. To do this, we measured fiber morphometric parameters from seven different flax varieties (4 spring fiber, 2 winter fiber and 1 winter oil) and undertook Partial Least-Squares Discriminant Analysis (sPLS-DA) of transcriptomic data obtained from the same varieties in an attempt to identify high-information molecular markers. The calculation of Pearson correlation coefficients identified 5 putative gene-markers strongly correlated with morphometric features. Proteomic analysis on the two varieties showing the most discriminant and significant differences regarding to morphometrics identified an additional 4 protein-markers. The majority of the obtained markers are involved in lipid metabolism and the senescence process. Further comparative analysis of the obtained expression data with fiber mechanical measurements (strength, maximum force, area) obtained after field-retting for all 7 varieties allowed us to identify 4 highly-correlated putative molecular markers for the mechanical parameters. Three genes, connected directly or indirectly to cell wall metabolism (Expansin-related protein 3 precursor, beta-glucosidase and ascorbate peroxidase), and one gene coding an enzyme that catalyzes the oxidative decarboxylation of L-malate (NADP-malic enzyme 3). Based on our results, we hypothesize that a reduced number of RNA and protein functional markers can be used to more accurately monitor and/or predict fiber yield and quality properties in different flax varieties, thereby contributing to an Agriculture 4.0 for this economically-important species.
Project description:We used RNAseq to compare transcript expression patterns in two segments of the vegetative stem of 14d flax plants, from which all visible leaves had been removed. The segments were: (i) the apical region (AR) of the shoot apex, which contained the apical-most 0.5 mm of the stem, including the SAM and its immediate derivatives; and (ii) the basal region (BR), which contained the entire stem except for the apical-most 1 cm, and therefore represented all stem and vascular tissues at later stages of differentiation as compared to the AR. These data will help identify genes that contribute to specification of phloem fiber identity.
Project description:We used our previously described gene expression platform (Fenart et al., 2010) to assess gene expression along the stem of flax, both in inner and outer tissues. 32 chips study using total RNA from Internal and external part of Flax stem, sampled on whole stem or in different parts of the stem.
