Figure 6. Identification of deeply conserved auxin-responsive genes.

(A) Auxin-dependence of six well-known angiosperm auxin-responsive gene families (top) surveyed from de novo assembly-based transcriptomes in six species. Each circle indicates a gene copy of each gene family. Red, blue and grey circle indicate up-, down- and non-regulated genes in response to auxin. #: no homologues were identified in our transcriptome possibly due to low expression, or they might be lost during evolution. (B) qPCR analysis of conserved auxin-responsive genes. Auxin treatment was performed in the same condition with RNA-seq experiment (10 μM 2,4-D for 1 hr). Relative expression values are normalized by the expression of EF1α in Marchantia polymorpha or the amount of total RNA in Anthoceros agrestis and Ceratopteris richardii. Each bar indicates average of expression with SD (biological replicates ≥3). *: p<0.01 (t-test).

Figure 6—figure supplement 1. Network of up-regulated genes shared between different species upon auxin treatment.

Nodes represent the genes and edges represent the presence of BLAST similarity. Colors indicate the species in the legend above. Note that two edges connect nodes if the genes are bi-directional BLAST hits. See also Supplementary file 4.

Figure 6—figure supplement 2. Network of down-regulated genes shared between different species upon auxin treatment.

Nodes represent the genes and edges represent the presence of BLAST similarity. Note that two edges connect nodes if the genes are bi-directional BLAST hits. Colors indicate the species in the legend above. See also Supplementary file 5.