Figure 6.

Differential Enrichment of pCREs in UNNN Cluster Genes from Two Tomato Species.

(A) Dendrogram showing the distances between the pCREs identified from UNNN cluster genes and enriched in S. lycopersicum only (blue), S. pennellii only (orange), or both species (black). The dotted line indicates the threshold distance defined based on the 95th percentile distances between binding motifs of TFs from distinct families and defines multiple pCRE subgroups (numbered) where each subgroup contains pCREs likely bound by TFs of the same family (distance threshold = 0.39). Single-species subgroups with pCREs from only one species are labeled with asterisks. Note that some pCRE duplicates were due to their identification from both S. lycopersicum and S. pennellii.

(B) Degrees of pCRE site enrichment in S. lycopersicum (blue) and S. pennellii (orange) UNNN genes. Adjusted P value: multiple testing corrected P value. Dashed line, adjusted P < 0.05. Yellow box: pCREs similar to the W-box element.