Fig. 5: Comparison of stress-responsive transcription factors in Marchantia to Arabidopsis orthologs.

a The function of Arabidopsis thaliana orthologs, inferred from the literature (green, obtained from NCBI, Arabidopsis.org) and gene expression responses (blue, eFP browser). Each row contains one Arabidopsis TF, and the rows are grouped and color-coded according to the stress response in Marchantia. The columns indicate the stresses observed in Arabidopsis. b Ratio of evidence from the literature for Arabidopsis TFs grouped according to the stress specificity observed in Marchantia (x-axis). c Ratio of evidence by observation of change in expression in Arabidopsis TFs based on expression data (source eFP browser). High light, dark, and nitrogen deficiency are omitted due to the lack of data. ‘No specific response’ comprises transcription factors that were not robustly responding to a stress in Marchantia. d Similarity in differential gene expression between Marchantia and Arabidopsis homologs belonging to the same gene family. The black points indicate the observed JI capturing the similarity of the differentially expressed gene families. The violin plots indicate the JI where the gene-gene family assignments have been shuffled 1000 times. The black asterisk shows cases where the observed JI is significantly higher (p-value < 0.05). The center of the boxplot indicates the median. The upper and lower bounds of the box indicate 75th and 25th percentile, respectively. The whiskers indicate the 1.5x interquartile range, while the minima and maxima indicate the minimum and maximum Jaccard Index. The p-values were calculated using hypergeometric test with 1000 permutations.