Zelda Coordinates Early Gene Networks Figure 5. Pair-rule patterns are altered in zld2 embryos. Wild-type (wt; A, C, E, G) and zld2 (B, D, F, H) embryos were hybridized with RNA probes as indicated. Perinuclear transcripts are detectable as early as nc 10; refinement into the seven-stripe patterns occurs in nc 14 (A, C, E, G). In zld2, activation is delayed 1–2 cycles (B, D, F, H, top), and refinement is disrupted such that a few aberrant domains develop (B, D, F, H, bottom). (I–K) IGB views of the genomic regions indicated. The ftz region in the Antp complex is shown in Figure S7. Note extensive Zld binding over stripe enhancers and basal promoters. The eve stripe 2 enhancer is located in one of the highest-ranking Zld-bound regions (top 1%, see Figure S3C). doi:10.1371/journal.pgen.1002339.g005 PLoS Genetics | www.plosgenetics.org 8 October 2011 | Volume 7 | Issue 10 | e1002339