Antisense-mediated repression of SAGA-dependent genes involves the HIR histone chaperone

Article Article scientifique Article Antisense-mediated repression of SAGA-dependent genes involves the HIR histone chaperone eng 2022-04-26 2022-05-06 author Soudet Julien 0000-0001-9210-201X Dept. of Molecular and Cellular Biology, University of Geneva, 1211 Geneva 4, Switzerland 824053 Département de biologie moléculaire et cellulaire (MOCEL) author Beyrouthy Nissrine Dept. of Molecular and Cellular Biology, University of Geneva, 1211 Geneva 4, Switzerland 662490 author Pastucha Anna Marta Dept. of Molecular and Cellular Biology, University of Geneva, 1211 Geneva 4, Switzerland 869969 author Maffioletti Andrea Dept. of Molecular and Cellular Biology, University of Geneva, 1211 Geneva 4, Switzerland 755263 author Menendez Rivera Dario Dept. of Molecular and Cellular Biology, University of Geneva, 1211 Geneva 4, Switzerland 746595 author Bakir Zahra 0000-0003-0485-9704 Dept. of Molecular and Cellular Biology, University of Geneva, 1211 Geneva 4, Switzerland 857737 author Stutz Françoise Dept. of Molecular and Cellular Biology, University of Geneva, 1211 Geneva 4, Switzerland 64881 Département de biologie moléculaire et cellulaire (MOCEL) 4515-4528 10.1093/nar/gkac264 35474134 0305-1048 PMC9071385 https://academic.oup.com/nar/article/50/8/4515/6574679 <p>Eukaryotic genomes are pervasively transcribed by RNA polymerase II (RNAPII), and transcription of long non-coding RNAs often overlaps with coding gene promoters. This might lead to coding gene repression in a process named Transcription Interference (TI). In Saccharomyces cerevisiae, TI is mainly driven by antisense non-coding transcription and occurs through re-shaping of promoter Nucleosome-Depleted Regions (NDRs). In this study, we developed a genetic screen to identify new players involved in Antisense-Mediated Transcription Interference (AMTI). Among the candidates, we found the HIR histone chaperone complex known to be involved in de novo histone deposition. Using genome-wide approaches, we reveal that HIR-dependent histone deposition represses the promoters of SAGA-dependent genes via antisense non-coding transcription. However, while antisense transcription is enriched at promoters of SAGA-dependent genes, this feature is not sufficient to define the mode of gene regulation. We further show that the balance between HIR-dependent nucleosome incorporation and transcription factor binding at promoters directs transcription into a SAGA- or TFIID-dependent regulation. This study sheds light on a new connection between antisense non-coding transcription and the nature of coding transcription initiation.</p> Dewey 570 Swiss National Science Foundation Effect of yeast pervasive transcription on gene regulation and replication, and link between nuclear organization, sumoylation and resolution of DNA-protein covalent complexes 182344 CH Projects Swiss National Science Foundation Role of antisense transcription in gene regulation and importance of ubiquitination and sumoylation in mRNA biogenesis and export during yeast cell cycle progression. 153331 CH Projects 7daed2ee-1311-4824-9df9-2e51260a966a Département de biologie moléculaire et cellulaire 16484 false 839 Groupe Stutz https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE175991 Nucleic acids research 50 8 1c6d9af1-97ad-464b-9728-9708a1848865 Article (Published version) Public Article-scientifique-from-crossref.pdf 2334365 application/pdf CC BY f5b145dc1781503e5867f2b3fc66e536c7ff168342ace0d6e91486e9beb562a7 Vignette Public ga1.PNG 81823 image/png openAccess Faculté des sciences / Section de biologie / Département de biologie moléculaire et cellulaire

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Antisense-mediated repression of SAGA-dependent genes involves the HIR histone chaperone	Nucleic acids research			2022	76	80

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