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Figure 5 | BMC Plant Biology

Figure 5

From: A systems-wide comparison of red rice (Oryza longistaminata) tissues identifies rhizome specific genes and proteins that are targets for cultivated rice improvement

Figure 5

Workflow for identification of red rice rhizome-characteristic proteins and differential regulation between the apical tip and the elongation zone proteins. Proportional venn diagram representing the total number of proteins identified in each Oryza longistaminata rhizome tissues before and after spectral count quantitative analysis. A total of 1747 proteins were identified and considered reproducible (detected in at least 3 biological replicates) in the rhizome apical tip, rhizome elongation zone and roots tissues. From this amount, 74, 15 and 288 proteins were exclusively detected in the tip, zone and root tissues, respectively. Differential expression was determined using the TFold test at p value of 0.05. Identifications that satisfied both fold and statistical criteria were considered differently regulated. After statistical analysis, we obtained 87 and 52 proteins up-regulated in tip and zone compared to roots, respectively. Proteins found to be up-regulated in both apical tip and elongation zone were combined to create a non-redundant list of the up-regulated, characteristic proteins. Differences between tip and zone were determined after removal of those detected in the same or lower expression level than in the roots.

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