Genome-wide RNA polymerase II profiles and RNA accumulation reveal kinetics of transcription and associated epigenetic changes during diurnal cycles.

Détails

Ressource 1Télécharger: BIB_ECE3D90701DA.P001.pdf (1819.63 [Ko])
Etat: Serval
Version: de l'auteur
ID Serval
serval:BIB_ECE3D90701DA
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
Genome-wide RNA polymerase II profiles and RNA accumulation reveal kinetics of transcription and associated epigenetic changes during diurnal cycles.
Périodique
PLoS Biology
Auteur(s)
Le Martelot G., Canella D., Symul L., Migliavacca E., Gilardi F., Liechti R., Martin O., Harshman K., Delorenzi M., Desvergne B., Herr W., Deplancke B., Schibler U., Rougemont J., Guex N., Hernandez N., Naef F.
Collaborateur(s)
CycliX Consortium
Contributeur(s)
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.
ISSN
1545-7885 (Electronic)
ISSN-L
1544-9173
Statut éditorial
Publié
Date de publication
2012
Volume
10
Numéro
11
Pages
e1001442
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.
Mots-clé
Animals, Chromatin Assembly and Disassembly, Chromatin Immunoprecipitation, Circadian Rhythm, DNA Methylation, Epigenesis, Genetic, Half-Life, Histones/genetics, Histones/metabolism, Kinetics, Liver/cytology, Liver/metabolism, Male, Mice, Mice, Inbred C57BL, Models, Genetic, Promoter Regions, Genetic, RNA Polymerase II/genetics, RNA Polymerase II/metabolism, RNA Processing, Post-Transcriptional, RNA, Messenger/analysis, RNA, Messenger/metabolism, Reverse Transcriptase Polymerase Chain Reaction, Time Factors, Transcription Initiation Site, Transcription, Genetic, Transcriptome
Pubmed
Web of science
Open Access
Oui
Création de la notice
13/08/2013 13:11
Dernière modification de la notice
09/05/2019 3:04
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