Identification of FMR1-Regulated Molecular Networks in Human Neurodevelopment
Downloaded from genome.cshlp.org on October 6, 2021 - Published by Cold Spring Harbor Laboratory Press Research Identification of FMR1-regulated molecular networks in human neurodevelopment Meng Li,1,2,6 Junha Shin,3,6 Ryan D. Risgaard,1,2 Molly J. Parries,1,2 Jianyi Wang,1,2 Deborah Chasman,3,7 Shuang Liu,1 Sushmita Roy,3,4 Anita Bhattacharyya,1,5 and Xinyu Zhao1,2 1Waisman Center, University of Wisconsin–Madison, Madison, Wisconsin 53705, USA; 2Department of Neuroscience, School of Medicine and Public Health, University of Wisconsin–Madison, Madison, Wisconsin 53705, USA; 3Wisconsin Institute for Discovery, University of Wisconsin–Madison, Madison, Wisconsin 53705, USA; 4Department of Biostatistics and Medical Informatics, University of Wisconsin–Madison, Madison, Wisconsin 53705, USA; 5Department of Cell and Regenerative Biology, School of Medicine and Public Health, University of Wisconsin–Madison, Madison, Wisconsin 53705, USA RNA-binding proteins (RNA-BPs) play critical roles in development and disease to regulate gene expression. However, genome-wide identification of their targets in primary human cells has been challenging. Here, we applied a modified CLIP-seq strategy to identify genome-wide targets of the FMRP translational regulator 1 (FMR1), a brain-enriched RNA- BP, whose deficiency leads to Fragile X Syndrome (FXS), the most prevalent inherited intellectual disability. We identified FMR1 targets in human dorsal and ventral forebrain neural progenitors and excitatory and inhibitory neurons differentiated from human pluripotent stem cells. In parallel, we measured the transcriptomes of the same four cell types upon FMR1 gene deletion. We discovered that FMR1 preferentially binds long transcripts in human neural cells.
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