Temporal transcriptomics suggest that twin-peaking genes reset the clock
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 microdisse...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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eLife Sciences Publications Ltd
2015-11-01
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| Series: | eLife |
| Subjects: | |
| Online Access: | https://elifesciences.org/articles/10518 |
| _version_ | 1797997530441580544 |
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| author | William G Pembroke Arran Babbs Kay E Davies Chris P Ponting Peter L Oliver |
| author_facet | William G Pembroke Arran Babbs Kay E Davies Chris P Ponting Peter L Oliver |
| author_sort | William G Pembroke |
| collection | DOAJ |
| description | 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. |
| first_indexed | 2024-04-11T10:34:15Z |
| format | Article |
| id | doaj.art-07c7facde0d7412f85dbd8849869647f |
| institution | Directory Open Access Journal |
| issn | 2050-084X |
| language | English |
| last_indexed | 2024-04-11T10:34:15Z |
| publishDate | 2015-11-01 |
| publisher | eLife Sciences Publications Ltd |
| record_format | Article |
| series | eLife |
| spelling | doaj.art-07c7facde0d7412f85dbd8849869647f2022-12-22T04:29:20ZengeLife Sciences Publications LtdeLife2050-084X2015-11-01410.7554/eLife.10518Temporal transcriptomics suggest that twin-peaking genes reset the clockWilliam G Pembroke0Arran Babbs1Kay E Davies2Chris P Ponting3https://orcid.org/0000-0003-0202-7816Peter L Oliver4MRC Functional Genomics Unit, Department of Physiology Anatomy and Genetics, University of Oxford, Oxford, United KingdomMRC Functional Genomics Unit, Department of Physiology Anatomy and Genetics, University of Oxford, Oxford, United KingdomMRC Functional Genomics Unit, Department of Physiology Anatomy and Genetics, University of Oxford, Oxford, United KingdomMRC Functional Genomics Unit, Department of Physiology Anatomy and Genetics, University of Oxford, Oxford, United KingdomMRC Functional Genomics Unit, Department of Physiology Anatomy and Genetics, University of Oxford, Oxford, United KingdomThe 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.https://elifesciences.org/articles/10518circadian rhythmtranscriptomicnon-coding RNA |
| spellingShingle | William G Pembroke Arran Babbs Kay E Davies Chris P Ponting Peter L Oliver Temporal transcriptomics suggest that twin-peaking genes reset the clock eLife circadian rhythm transcriptomic non-coding RNA |
| title | Temporal transcriptomics suggest that twin-peaking genes reset the clock |
| title_full | Temporal transcriptomics suggest that twin-peaking genes reset the clock |
| title_fullStr | Temporal transcriptomics suggest that twin-peaking genes reset the clock |
| title_full_unstemmed | Temporal transcriptomics suggest that twin-peaking genes reset the clock |
| title_short | Temporal transcriptomics suggest that twin-peaking genes reset the clock |
| title_sort | temporal transcriptomics suggest that twin peaking genes reset the clock |
| topic | circadian rhythm transcriptomic non-coding RNA |
| url | https://elifesciences.org/articles/10518 |
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