We have identified a number of genes via genetic analysis and RNA interference gene inactivations that act as protein coding cofactors for the function of miRNAs and siRNAs in C. elegans. Some of these proteins were identified in genetic screens for decrease in miRNA function, some in genetic screens for decrease in siRNA function, and some in genetic screens for increase in siRNA function. We have also identified the target small RNAs that mediate these functions by deep RNA sequencing of selected mutant strains. We propose to dissect in detail how these proteins orchestrate the production, trafficking, and function of small RNAs in both mRNA degradation, mRNA translational control, and control of gene expression. We also propose to discern how the miRNA and siRNA and other small RNA pathways may compete with each other for common cofactors, thus leading to an increase in function in one pathway, when the other pathway is debilitated.
miRNAs and endogenous siRNAs are key biological regulators like transcription factors. As more and more miRNAs are discovered to be involved in diseases as diverse as heart disease and cancer, the mechanism by which they regulate target genes will become central to more fields. The genes identified in this study are likely to be key factors in the function of small RNAs in biology and thus their identification may enable more potent RNAi based drug development.
|Dowen, Robert H; Breen, Peter C; Tullius, Thomas et al. (2016) A microRNA program in the C. elegans hypodermis couples to intestinal mTORC2/PQM-1 signaling to modulate fat transport. Genes Dev 30:1515-28|
|Phillips, Carolyn M; Brown, Kristen C; Montgomery, Brooke E et al. (2015) piRNAs and piRNA-Dependent siRNAs Protect Conserved and Essential C. elegans Genes from Misrouting into the RNAi Pathway. Dev Cell 34:457-65|
|Phillips, Carolyn M; Montgomery, Brooke E; Breen, Peter C et al. (2014) MUT-14 and SMUT-1 DEAD box RNA helicases have overlapping roles in germline RNAi and endogenous siRNA formation. Curr Biol 24:839-44|
|Tabach, Yuval; Billi, Allison C; Hayes, Gabriel D et al. (2013) Identification of small RNA pathway genes using patterns of phylogenetic conservation and divergence. Nature 493:694-8|
|Shi, Zhen; Hayes, Gabriel; Ruvkun, Gary (2013) Dual regulation of the lin-14 target mRNA by the lin-4 miRNA. PLoS One 8:e75475|
|Shi, Zhen; Montgomery, Taiowa A; Qi, Yan et al. (2013) High-throughput sequencing reveals extraordinary fluidity of miRNA, piRNA, and siRNA pathways in nematodes. Genome Res 23:497-508|
|Tabach, Yuval; Golan, Tamar; Hernández-Hernández, Abrahan et al. (2013) Human disease locus discovery and mapping to molecular pathways through phylogenetic profiling. Mol Syst Biol 9:692|
|Fischer, Sylvia E J; Pan, Qi; Breen, Peter C et al. (2013) Multiple small RNA pathways regulate the silencing of repeated and foreign genes in C. elegans. Genes Dev 27:2678-95|
|Zhang, Chi; Montgomery, Taiowa A; Fischer, Sylvia E J et al. (2012) The Caenorhabditis elegans RDE-10/RDE-11 complex regulates RNAi by promoting secondary siRNA amplification. Curr Biol 22:881-90|
|Phillips, Carolyn M; Montgomery, Taiowa A; Breen, Peter C et al. (2012) MUT-16 promotes formation of perinuclear mutator foci required for RNA silencing in the C. elegans germline. Genes Dev 26:1433-44|
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