Dexamethasone affects circadian clock in the fetal mouse suprachiasmatic nucleus at transcriptional level

Raw RNAseq counts, filtered RNAseq data, quality control report and Python script for analysis. Manuscript abstract Dexamethasone (DEX) is used in clinical practice as a life-saving therapy in threatened preterm birth; however, such treatment also represents a powerful signal that can reprogram fetal physiology, including circadian system. The effect of DEX on the fetal circadian clock in the suprachiasmatic nuclei (SCN) has been demonstrated, but the underlying mechanism has been unaddressed. The aim of this study was to provide insight into the DEX-induced transcriptional effects in the fetal SCN of mPer2Luc mice. We used triple-labeled immunofluorescence to localize glucocorticoid receptors (GR) in the fetal SCN, cultured ex vivo fetal SCN explants to monitor PER2-driven bioluminescence (PER2::LUC) rhythms, and RNA-seq and RT qPCR analyses to identify genes differentially expressed after DEX and vehicle treatments. We demonstrate that GRs are homogenously expressed in all cells (neuronal and glial nuclei and glial processes) of the fetal SCN. Monitoring PER::LUC in fetal SCN explants confirmed that most cells respond to DEX with improved rhythm quality, a shortened period and increased amplitude. The RNA-seq and RT-qPCR data revealed that DEX increases expression of GR-sensitive clock gene Per1 and changes the expression of other genes that may affect the clock (e.g., Hif3a, Klf9, Zbtb16, Mt1-3). The effects were more significant when the treatment timing matched the temporal window of highest sensitivity of the SCN clock to DEX. Our findings advance the largely unexplored field of chrono-ontogenesis and define the effects of DEX on the fetal brain transcriptional landscape, with specific implications for the circadian clock.