Genome-wide correlation analysis to identify amplitude regulators of circadian transcriptome output

Simple item page
dc.contributor.authorLittleton, Evan S.en
dc.contributor.authorChildress, Madison L.en
dc.contributor.authorGosting, Michaela L.en
dc.contributor.authorJackson, Ayana N.en
dc.contributor.authorKojima, Shihokoen
dc.contributor.departmentBiological Sciencesen
dc.contributor.departmentFralin Life Sciences Instituteen
dc.date.accessioned2021-08-31T14:33:19Zen
dc.date.available2021-08-31T14:33:19Zen
dc.date.issued2020-12-14en
dc.date.updated2021-08-31T14:33:16Zen
dc.description.abstractCell-autonomous circadian system, consisting of core clock genes, generates near 24-h rhythms and regulates the downstream rhythmic gene expression. While it has become clear that the percentage of rhythmic genes varies among mouse tissues, it remains unclear how this variation can be generated, particularly when the clock machinery is nearly identical in all tissues. In this study, we sought to characterize circadian transcriptome datasets that are publicly available and identify the critical component(s) involved in creating this variation. We found that the relative amplitude of 13 genes and the average level of 197 genes correlated with the percentage of cycling genes. Of those, the correlation of Rorc in both relative amplitude and the average level was one of the strongest. In addition, the level of Per2AS, a novel non-coding transcript that is expressed at the Period 2 locus, was also linearly correlated, although with a much lesser degree compared to Rorc. Overall, our study provides insight into how the variation in the percentage of clock-controlled genes can be generated in mouse tissues and suggests that Rorc and potentially Per2AS are involved in regulating the amplitude of circadian transcriptome output.en
dc.description.versionPublished versionen
dc.format.extent13 page(s)en
dc.format.mimetypeapplication/pdfen
dc.identifierARTN 21839 (Article number)en
dc.identifier.doihttps://doi.org/10.1038/s41598-020-78851-9en
dc.identifier.eissn2045-2322en
dc.identifier.issn2045-2322en
dc.identifier.issue1en
dc.identifier.orcidKojima, Shihoko [0000-0001-9579-7830]en
dc.identifier.other10.1038/s41598-020-78851-9 (PII)en
dc.identifier.pmid33318596en
dc.identifier.urihttp://hdl.handle.net/10919/104878en
dc.identifier.volume10en
dc.language.isoenen
dc.publisherNature Researchen
dc.relation.urihttp://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000600104900006&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=930d57c9ac61a043676db62af60056c1en
dc.rightsCreative Commons Attribution 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.subjectLONG NONCODING RNASen
dc.subjectGENE-EXPRESSIONen
dc.subjectCLOCK GENESen
dc.subjectREV-ERBen
dc.subjectRHYTHMSen
dc.subjectBIOLOGYen
dc.subjectMOUSEen
dc.subjectLIVERen
dc.subjectIDENTIFICATIONen
dc.subjectARCHITECTUREen
dc.subject.meshAnimalsen
dc.subject.meshPapio anubisen
dc.subject.meshGene Expression Profilingen
dc.subject.meshGene Expression Regulationen
dc.subject.meshCircadian Rhythmen
dc.subject.meshDatabases, Nucleic Aciden
dc.subject.meshGenome-Wide Association Studyen
dc.subject.meshTranscriptomeen
dc.titleGenome-wide correlation analysis to identify amplitude regulators of circadian transcriptome outputen
dc.title.serialScientific Reportsen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten
dc.type.otherArticleen
dc.type.otherJournalen
dcterms.dateAccepted2020-11-20en
pubs.organisational-group/Virginia Techen
pubs.organisational-group/Virginia Tech/Scienceen
pubs.organisational-group/Virginia Tech/Science/Biological Sciencesen
pubs.organisational-group/Virginia Tech/Faculty of Health Sciencesen
pubs.organisational-group/Virginia Tech/All T&R Facultyen
pubs.organisational-group/Virginia Tech/Science/COS T&R Facultyen

Files

Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
Genome-wide correlation analysis to identify amplitude regulators of circadian transcriptome output.pdf
Size:
2.69 MB
Format:
Adobe Portable Document Format
Description:
Published version
Download

Collections

All Faculty Deposits
Scholarly Works, Biological Sciences
Scholarly Works, Fralin Life Sciences Institute