Project description:The gene nhr-6 encodes the sole C. elegans NR4A nuclear receptor homolog which has a critical role in organogenesis by regulating the development of the spermatheca organ. Here we utilized chromatin immunoprecipitation followed by next-generation sequencing (ChIP-seq) to identify NHR-6 binding sites during both the late L3/early L4 and mid L4 developmental stages. Our results revealed 30,745 enriched binding sites for NHR-6 with sites specific to each developmental stage and sites found in both stages. Additionally, ~70% of enriched sites were found within 3 kb upstream of a gene transcription start site. Binding sites for a cohort of candidate target genes with probable functions in spermatheca organogenesis were validated through qPCR. Reproductive and spermatheca phenotypes were also evaluated for these genes following a loss-of-function RNAi screen which revealed several genes with critical functions during spermatheca organogenesis. Our results uncovered a complex nuclear receptor regulatory network whereby NHR-6 regulates multiple cellular processes including proliferation, differentiation, and metabolism.
Project description:Identification of genes expressed in the germ line of C. elegans. This SuperSeries is composed of the following subsets: Direct comparison of fem-3(gf) vs fem-1(lf): GSE725: oocytes vs sperm Indirect comparisons between males and hermaphrodites with and without a germline: GSE715: glp-4 adults GSE716: glp-4 L2 GSE717: glp-4 L3 GSE718: glp-4 L4 GSE719: wt L2 GSE720: wt L3 GSE721: wt L4 GSE722: wt adults GSE723: adult males vs reference GSE724: no germline males vs reference Temporal analysis of wild-type larval and adult gene expression: GSE726: TP01 mid-L3 GSE727: TP02 late-L3 GSE728: TP03 late L3/early L4 GSE729: TP04 early L4 GSE730: TP05 late L4 GSE731: TP06 late L4/young adult GSE732: TP07 early young adult GSE733: TP08 late young adult GSE734: TP09 adult GSE735: TP10 adult with embs 1 GSE736: TP11 adult with emb 2 GSE737: TP12 adult with emb 3 Keywords: SuperSeries Refer to individual Series
Project description:We performed ChIP-seq analysis of LIN-42 from extracts obtained from staged late L4 hermaphrodites. We found 413 high confidence peaks that are predominately found at promoter regions and transcription start sites of mRNA and microRNA genes.
