Titre
Genome-wide RNA polymerase II profiles and RNA accumulation reveal kinetics of transcription and associated epigenetic changes during diurnal cycles.
Type
article
Institution
UNIL/CHUV/Unisanté + institutions partenaires
Périodique
Auteur(s)
Le Martelot, G.
Auteure/Auteur
Canella, D.
Auteure/Auteur
Symul, L.
Auteure/Auteur
Migliavacca, E.
Auteure/Auteur
Gilardi, F.
Auteure/Auteur
Liechti, R.
Auteure/Auteur
Martin, O.
Auteure/Auteur
Harshman, K.
Auteure/Auteur
Delorenzi, M.
Auteure/Auteur
Desvergne, B.
Auteure/Auteur
Herr, W.
Auteure/Auteur
Deplancke, B.
Auteure/Auteur
Schibler, U.
Auteure/Auteur
Rougemont, J.
Auteure/Auteur
Guex, N.
Auteure/Auteur
Hernandez, N.
Auteure/Auteur
Naef, F.
Auteure/Auteur
Contributrices/contributeurs
Hernandez, N.
Delorenzi, M.
Deplancke, B.
Desvergne, B.
Guex, N.
Herr, W.
Naef, F.
Rougemont, J.
Schibler, U.
Deplancke, B.
Guex, N.
Herr, W.
Guex, N.
Andersin, T.
Cousin, P.
Gilardi, F.
Gos, P.
Le Martelot, G.
Lammers, F.
Canella, D.
Gilardi, F.
Raghav, S.
Fabbretti, R.
Fortier, A.
Long, L.
Vlegel, V.
Xenarios, I.
Migliavacca, E.
Praz, V.
Guex, N.
Naef, F.
Rougemont, J.
David, F.
Jarosz, Y.
Kuznetsov, D.
Liechti, R.
Martin, O.
Delafontaine, J.
Sinclair, L.
Cajan, J.
Krier, I.
Leleu, M.
Migliavacca, E.
Molina, N.
Naldi, A.
Rey, G.
Symul, L.
Guex, N.
Naef, F.
Rougemont, J.
Bernasconi, D.
Delorenzi, M.
Groupes de travail
CycliX Consortium
Liens vers les unités
ISSN
1545-7885
Statut éditorial
Publié
Date de publication
2012
Volume
10
Numéro
11
Première page
e1001442
Peer-reviewed
Oui
Langue
anglais
Résumé
Interactions of cell-autonomous circadian oscillators with diurnal cycles govern the temporal compartmentalization of cell physiology in mammals. To understand the transcriptional and epigenetic basis of diurnal rhythms in mouse liver genome-wide, we generated temporal DNA occupancy profiles by RNA polymerase II (Pol II) as well as profiles of the histone modifications H3K4me3 and H3K36me3. We used these data to quantify the relationships of phases and amplitudes between different marks. We found that rhythmic Pol II recruitment at promoters rather than rhythmic transition from paused to productive elongation underlies diurnal gene transcription, a conclusion further supported by modeling. Moreover, Pol II occupancy preceded mRNA accumulation by 3 hours, consistent with mRNA half-lives. Both methylation marks showed that the epigenetic landscape is highly dynamic and globally remodeled during the 24-hour cycle. While promoters of transcribed genes had tri-methylated H3K4 even at their trough activity times, tri-methylation levels reached their peak, on average, 1 hour after Pol II. Meanwhile, rhythms in tri-methylation of H3K36 lagged transcription by 3 hours. Finally, modeling profiles of Pol II occupancy and mRNA accumulation identified three classes of genes: one showing rhythmicity both in transcriptional and mRNA accumulation, a second class with rhythmic transcription but flat mRNA levels, and a third with constant transcription but rhythmic mRNAs. The latter class emphasizes widespread temporally gated posttranscriptional regulation in the mouse liver.
Sujets
PID Serval
serval:BIB_ECE3D90701DA
PMID
Open Access
Oui
Date de création
2013-08-13T11:11:19.489Z
Date de création dans IRIS
2025-05-21T06:41:38Z
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Nom
BIB_ECE3D90701DA.P001.pdf
Version du manuscrit
published
Licence
https://creativecommons.org/licenses/by/4.0
Taille
1.78 MB
Format
Adobe PDF
PID Serval
serval:BIB_ECE3D90701DA.P001
URN
urn:nbn:ch:serval-BIB_ECE3D90701DA3
Somme de contrôle
(MD5):dd24ea0258ec2833bed4ae5e224fea8a