Fig. 1

Experimental design and quality-control of Poly-Ribo-Seq data. aDrosophila melanogaster embryos were collected in three contiguous 8-h time-windows spanning the whole of embryogenesis. Two biological replicates (T and B) were collected for each window, for both Poly-Ribo-Seq and RNA-Seq. pro: procephalon; gb: germ band; df: dorsal fold; mg: presumptive midgut (modified from ref. [15]). b Percentage of 5′UTR, 3′UTR, and CDS-aligned reads for Poly-Ribo-Seq, across the annotated transcriptome of Drosophila melanogaster. c Reproducibility of RPKM values for canonical ORFs by Spearman correlation (r) across replicates T (x-axis) and B (y-axis), per stage, for both Poly-Ribo-Seq (top panels) and RNA-Seq (bottom panels). d Density of genome-aligned reads for all experiments, both Poly-Ribo-Seq (FPs) and RNA-Seq across the polycistronic tarsal-less (tal) transcript. As expected, FPs map to ORFs 1A, 2A, 3A, and AA (previously shown to be translated), see ref. [30] and Table S3A for details