Heatmaps of all DEGs in response to S. meliloti spot inoculation in WT clustered according to their expression patterns into 17 clusters, aligned with heatmaps of DEGs in WT (R108), lsh1, and lsh1/lsh2 at 24 and 72 hpi, and in response to combined ectopic expression of LSH1/LSH2 (pLjUBI:LSH1+LSH2) compared with empty vector in 3-week-old WT hairy roots. Expression levels are depicted as log2fold changes ±0.585 (raw fold change of 1.5), p < 0.05. Absolute numbers indicate the number of DEGs in each genotype. Dark green, light green, and gray coloring in the far right column depict confidence levels of LSH1 DNA-binding sites associated with DEGs detected in 3/4, 2/4, and 1/4 biological replicates comparing pull-downs of GFP-bound DNA fragments in pLjUBI:GFP-LSH1 compared with pLjUBI:NLS-GFP, respectively.
