Figure 4.

Time-lapse RNA-seq analysis of candidate genes in adventitious root organogenesis.

(A–F) Candidate genes activated in the wounded region of Col-0 leaf explants (the mock without NPA treatment) cultured on B5 medium within 5 d after detachment, as determined from RNA-seq data (TPM < 2 at t₀; log₂[fold change] > 2 and FDR < 0.05 at any time point compared with that at t₀). Candidate genes were grouped into six gene clusters (7–12) on the basis of changes in transcription patterns. Lines indicate average values.

(G) GO analysis of gene clusters 7 to 12. See Supplemental Table 4 for the full list of GO terms.

(H) Selected candidate genes identified in gene clusters 7 to 12. Genetic and molecular regulations are shown based on published data and this study. ^LValidated in lateral rooting by previous studies; ^Avalidated in adventitious rooting from hypocotyls and/or DNRR by previous studies; ^A?predicted or indicated in adventitious rooting in cuttings by previous studies; ^?involved in regeneration but not yet validated in DNRR; ^Vvalidated in DNRR in this study. Rhombus indicates protein interactions.