Journal
DEVELOPMENTAL CELL
Volume 47, Issue 6, Pages 785-+Publisher
CELL PRESS
DOI: 10.1016/j.devcel.2018.10.005
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Funding
- Deutsche Forschungsgemeinschaft (DFG)
- DFG
- MDC
- Deutsches Epigenom Programm (DEEP)
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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/).
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