Exploring the role of transcriptional and post-transcriptional processes in mRNA co-expression.
gene regulation
intron seqFISH
mRNA co-expression
mRNA degradation
promoter toggling
Journal
BioEssays : news and reviews in molecular, cellular and developmental biology
ISSN: 1521-1878
Titre abrégé: Bioessays
Pays: United States
ID NLM: 8510851
Informations de publication
Date de publication:
Dec 2023
Dec 2023
Historique:
revised:
18
09
2023
received:
12
07
2023
accepted:
09
10
2023
medline:
22
11
2023
pubmed:
6
11
2023
entrez:
5
11
2023
Statut:
ppublish
Résumé
Co-expression of two or more genes at the single-cell level is usually associated with functional co-regulation. While mRNA co-expression-measured as the correlation in mRNA levels-can be influenced by both transcriptional and post-transcriptional events, transcriptional regulation is typically considered dominant. We review and connect the literature describing transcriptional and post-transcriptional regulation of co-expression. To enhance our understanding, we integrate four datasets spanning single-cell gene expression data, single-cell promoter activity data and individual transcript half-lives. Confirming expectations, we find that positive co-expression necessitates promoter coordination and similar mRNA half-lives. Surprisingly, negative co-expression is favored by differences in mRNA half-lives, contrary to initial predictions from stochastic simulations. Notably, this association manifests specifically within clusters of genes. We further observe a striking compensation between promoter coordination and mRNA half-lives, which additional stochastic simulations suggest might give rise to the observed co-expression patterns. These findings raise intriguing questions about the functional advantages conferred by this compensation between distal kinetic steps.
Identifiants
pubmed: 37926676
doi: 10.1002/bies.202300130
doi:
Substances chimiques
RNA, Messenger
0
Types de publication
Review
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
e2300130Subventions
Organisme : Aard- en Levenswetenschappen, Nederlandse Organisatie voor Wetenschappelijk Onderzoek
ID : OCENW.XS3.055
Informations de copyright
© 2023 The Authors. BioEssays published by Wiley Periodicals LLC.
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