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Elife. 2015 Nov 2;4. pii: e10518. doi: 10.7554/eLife.10518.

Temporal transcriptomics suggest that twin-peaking genes reset the clock.

Author information

1
MRC Functional Genomics Unit, Department of Physiology Anatomy and Genetics, University of Oxford, Oxford, United Kingdom.

Abstract

The mammalian suprachiasmatic nucleus (SCN) drives daily rhythmic behavior and physiology, yet a detailed understanding of its coordinated transcriptional programmes is lacking. To reveal the finer details of circadian variation in the mammalian SCN transcriptome we combined laser-capture microdissection (LCM) and RNA-seq over a 24 hr light / dark cycle. We show that 7-times more genes exhibited a classic sinusoidal expression signature than previously observed in the SCN. Another group of 766 genes unexpectedly peaked twice, near both the start and end of the dark phase; this twin-peaking group is significantly enriched for synaptic transmission genes that are crucial for light-induced phase shifting of the circadian clock. 341 intergenic non-coding RNAs, together with novel exons of annotated protein-coding genes, including Cry1, also show specific circadian expression variation. Overall, our data provide an important chronobiological resource (www.wgpembroke.com/shiny/SCNseq/) and allow us to propose that transcriptional timing in the SCN is gating clock resetting mechanisms.

KEYWORDS:

circadian rhythm; evolutionary biology; genomics; mouse; neuroscience; non-coding RNA; transcriptomics

PMID:
26523393
PMCID:
PMC4718813
DOI:
10.7554/eLife.10518
[Indexed for MEDLINE]
Free PMC Article

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