Fig. 1

Transcriptomic assessment of Cdx paralogue function during Xenopus tropicalis development. a Duplication of the ancestral ParaHox cluster and subsequent gene loss in vertebrates resulting in three Cdx genes. b Experimental procedure: injection of eggs with morpholino oligonucleotides (MO) targeting specific Cdx copy, collection of stage 14 (early neurula) embryos for RNA extraction, and transcriptomic characterisation by RNA-seq. c Gene set overlap of the three Cdx MO targets inferred by differential expression analysis of RNA-seq data (see Methods). Venn diagram categories are specified for all genes (black), upregulated genes (red), and down-regulated genes (blue). d Gene set overlap for three Cdx MOs and co-injection of all three MOs (triple). e Gene expression and fold-change intensities across differential expression for all three Cdx MOs. Above scale fold-change values are noted as triangles. This representation reveals a strong quantitative extent of Cdx4 MO effect compared with Cdx1 and Cdx2 MOs