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Spatiotemporal m(i)RNA architecture and 3' UTR regulation in the C. elegans germline

Item Type:Article
Title:Spatiotemporal m(i)RNA architecture and 3' UTR regulation in the C. elegans germline
Creators Name:Diag, A. and Schilling, M. and Klironomos, F. and Ayoub, S. and Rajewsky, N.
Abstract:In animal germlines, regulation of cell proliferation and differentiation is particularly important but poorly understood. Here, using a cryo-cut approach, we mapped RNA expression along the Caenorhabditis elegans germline and, using mutants, dissected gene regulatory mechanisms that control spatiotemporal expression. We detected, at near single-cell resolution, >10,000 mRNAs, >300 miRNAs, and numerous unannotated miRNAs. Most RNAs were organized in distinct spatial patterns. Germline-specific miRNAs and their targets were co-localized. Moreover, we observed differential 3' UTR isoform usage for hundreds of mRNAs. In tumorous gld-2 gld-1 mutants, gene expression was strongly perturbed. In particular, differential 3' UTR usage was significantly impaired. We propose that PIE-1, a transcriptional repressor, functions to maintain spatial gene expression. Our data also suggest that cpsf-4 and fipp-1 control differential 3' UTR usage for hundreds of genes. Finally, we constructed a "virtual gonad" enabling "virtual in situ hybridizations" and access to all data (https://shiny.mdc-berlin.de/spacegerm/).
Keywords:Germline Development, Tomo-Seq, Post-Transcriptional Gene Regulation, C. elegans, RNA Localization, miRNA, Alternative Polyadenylation, 3' UTR Isoform Usage, Virtual In Situ Hybridization, SPACEGERM, Animals, Caenorhabditis elegans
Source:Developmental Cell
Publisher:Cell Press
Page Range:785-800
Date:17 December 2018
Official Publication:https://doi.org/10.1016/j.devcel.2018.10.005
PubMed:View item in PubMed

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