Zygotic activation of transposable elements during zebrafish early embryogenesis

Here we leverage high-quality long reads plus manual annotation to establish a high-resolution landscape of TE activation and transcription at the levels of locus, transcript, and allele over zebrafish early embryonic development. Moreover, we reveal a previously unknown temporal trajectory and subcellular distribution of zygotic TE activation (ZTA) in zebrafish, where extensive variation exists among TE families, subfamilies, loci, transcripts and alleles with respect to evolutionary age.