Supplementary Figure 4: C. elegans pregastrula origins are localized in open chromatin in transcriptional active regions.
From: The gastrula transition reorganizes replication-origin selection in Caenorhabditis elegans
(a) Distribution of the ChIP-Chip signals for the HTZ-1 histone variant and RNA pol II around ±2 kb from pre-gastrula replication origin summits (solid green line) or the centers of random regions (gray line; mean ± 2x s.d. for HTZ-1 and mean ± s.d. for RNA pol II) in chromosome arms (top panels) and centers (lower panels). Only autosomal chromosome were taken in account for HTZ-1 histone variant (b) Numbers of gap regions (left panels) or LEM-2 subdomains (right panels) inside chromosome arms that are overlapped by pre-gastrula origins versus random regions (number ± s.d.). The reverse correlations are also shown (bottom panels). *, P<0.05 (two-sided t-tests); n.s., non-significant differences with random expectation. (c) Mean distributions of pre-gastrula (green) and post-gastrula-specific (orange) origins in each chromosome (origin density/200 kb). Dashed black lines indicate the mean level of gene transcript (dcpm) at each chromosome. (d) Percentage of HOT regions associated with pre- (green) and post-gastrula-specific (orange) replication origins in chromosome arms and centers. * indicates P<10-15 (Chi-squared test); n.s., non-significant difference with random (mean ± s.d.). (e) Replication origin efficiency (total coverage of probes intensity; mean ± s.d.) relative to some genomic features. *, P<10-8; **, P<10-12 (two-sided t-tests) compared with the efficiency in all replication origins.
