Loss-of-function of RNA-binding protein PRRC2B causes translational defects and congenital cardiovascular malformation

Alternative splicing generates variant forms of proteins for a given gene and accounts for functional redundancy or diversification. A novel RNA-binding protein, Pro-rich Coiled-coil Containing Protein 2B (PRRC2B), has been reported by multiple laboratories to mediate uORF-dependent and independent regulation of translation initiation required for cell cycle progression and proliferation. We identified two alternative spliced isoforms in human and mouse hearts and HEK293T cells, full-length (FL) and exon 16-excluded isoform {Delta}E16. A congenital heart disease-associated human mutation-mimicry knock-in of the equivalent variant in the mouse genome leads to the depletion of the full-length Prrc2b mRNA but not the alternative spliced truncated form {Delta}E16, does not cause any apparent structural or functional disorders. In contrast, global genetic inactivation of the PRRC2B gene in the mouse genome, nullifying both mRNA isoforms, caused patent ductus arteriosus (PDA) and neonatal lethality in mice. Bulk and single nucleus transcriptome profiling analyses of embryonic mouse hearts demonstrated a significant overall downregulation of multiple smooth muscle-specific genes in Prrc2b mutant mice resulting from reduced smooth muscle cell number. Integrated analysis of proteomic changes in Prrc2b null mouse embryonic hearts and polysome-seq and RNA-seq multi-omics analysis in human HEK293T cells uncover conserved PRRC2B-regulated target mRNAs that encode essential factors required for cardiac and vascular development. Our findings reveal the connection between alternative splicing regulation of PRRC2B, PRRC2B-mediated translational control, and congenital cardiovascular development and disorder. This study may shed light on the significance of PRRC2B in human cardiovascular disease diagnosis and treatment. Discovery bullet pointsO_LIPRRC2B has two alternative splicing isoforms, full-length and exon 16-skipped ({Delta}E16) mRNAs in humans and mice. C_LIO_LIFull-length Prrc2b KO mice show no apparent cardiac phenotypes, while double KO of full-length and {Delta}E16 causes patent ductus arteriosus and neonatal lethality in mice. C_LIO_LIMulti-omics analyses of Prrc2b double KO mice suggest changes in SMC cell abundance and dysregulation of translation of specific proteins in E18.5 embryos. C_LIO_LICRISPR-Cas9-mediated KO of PRRC2B in human cells reduces the translation of heart and valve development-related mRNAs. C_LI