Characterizing Different Modes of Interplay Between Rap1 and H3 Using Inducible H3-depletion Yeast
Issued Date
2023-12-15
Resource Type
ISSN
00222836
eISSN
10898638
Scopus ID
2-s2.0-85178314607
Pubmed ID
37935256
Journal Title
Journal of Molecular Biology
Volume
435
Issue
24
Rights Holder(s)
SCOPUS
Bibliographic Citation
Journal of Molecular Biology Vol.435 No.24 (2023)
Suggested Citation
Khamwachirapithak P., Guillaume-Schoepfer D., Chansongkrow P., Teichmann S.A., Wigge P.A., Charoensawan V. Characterizing Different Modes of Interplay Between Rap1 and H3 Using Inducible H3-depletion Yeast. Journal of Molecular Biology Vol.435 No.24 (2023). doi:10.1016/j.jmb.2023.168355 Retrieved from: https://repository.li.mahidol.ac.th/handle/20.500.14594/91383
Title
Characterizing Different Modes of Interplay Between Rap1 and H3 Using Inducible H3-depletion Yeast
Other Contributor(s)
Abstract
Histones and transcription factors (TFs) are two important DNA-binding proteins that interact, compete, and together regulate transcriptional processes in response to diverse internal and external stimuli. Condition-specific depletion of histones in Saccharomyces cerevisiae using a galactose-inducible H3 promoter provides a suitable framework for examining transcriptional alteration resulting from reduced nucleosome content. However, the effect on DNA binding activities of TFs is yet to be fully explored. In this work, we combine ChIP-seq of H3 with RNA-seq to elucidate the genome-scale relationships between H3 occupancy patterns and transcriptional dynamics before and after global H3 depletion. ChIP-seq of Rap1 is also conducted in the H3-depletion and control treatments, to investigate the interplay between this master regulator TF and nucleosomal H3, and to explore the impact on diverse transcriptional responses of different groups of target genes and functions. Ultimately, we propose a working model and testable hypotheses regarding the impact of global and local H3 depletion on transcriptional changes. We also demonstrate different potential modes of interaction between Rap1 and H3, which sheds light on the potential multifunctional regulatory capabilities of Rap1 and potentially other pioneer factors.