Fig. 2

a K-means clustering of differentially expressed genes at 4-8-cell stage. b Gene ontology: biological process (GO:BP) enrichment of cluster 5 from K-means clustering at 4-8-cell stage. RNA-seq of wt and MZ lof1 embryos show changes in hox gene expression at both 4-8-cell stage (c) and sphere stage (d). e hox genes show persistent upregulation at 11-somites. n = 3 biological samples, p values were calculated by 2-tailed unpaired Student’s t test. f hoxb2a shows expanded expression boundary at 10-somites (top) and hoxc10a shows anteriorly expanded expression at 17-somites (bottom). krox20 marks rhombomeres 3 and 5. g–h Adult fish show defects in axial skeletal patterning, including loss of a rib (arrow) and loss of a supraneural vertebra (arrowhead). Scale bar = 200 µm. P values were calculated by the Kruskal-Wallis test followed by Dunn’s Multiple Comparison Test. Bars without p values are not significant. All data are presented as mean values ± SD.