Visualization of a global auxin‐response gradient in the root meristem

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Visualization of a global auxin‐response gradient in the root meristem. Visualization of a global auxin‐response gradient in the root meristem. (A) The fold‐change response to auxin treatment (ANOVA treatment P<0.01, 5097 genes) was plotted versus the expression ratio between the meristematic zone and maturation zone (t‐test P<0.01, 6850 genes; Supplementary Table S5; Birnbaum et al, 2003) for the genes that are both significantly responsive to auxin and significantly differentially expressed between meristematic and maturation zones (2437‐gene intersect). Pearson's correlation R=−0.58. (B) Heatmap of the spatial expression of auxin‐responsive genes (ANOVA treatment P<0.01, 5097 genes) in the 13‐slice longitudinal data set (root1; Brady et al, 2007). Genes were ordered by fold‐change response to auxin treatment; blue (low) to yellow (high) color code indicates standard deviations from the row mean. Upregulated and downregulated genes were further subdivided into groups 1–4 based on relative induction or repression and broad differences in longitudinal expression (red and green color coding). (C, D) Average normalized longitudinal expression patterns of auxin‐responsive genes, ±s.e.m. (groups 1–4 in B). The relative spatial separation of the 13‐slice data set (Brady et al, 2007) is represented on the x axis and the standard deviations from the row mean on the y axis. (C) Longitudinal expression of archetypal auxin‐responsive genes (groups 1 and 3 in B), consisting of the top 1000 induced and the first 1000 repressed genes. The quiescent center (QC), oscillation zone and first lateral root primordium (LRP) are indicated. (D) Longitudinal expression of graded auxin‐responsive genes (groups 2 and 4 in B), consisting of the remaining 1842 induced and 1255 repressed genes. Bastiaan O R Bargmann et al. Mol Syst Biol 2013;9:688 © as stated in the article, figure or figure legend