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Genome-wide chromosomal association of Upf1 is linked to Pol II transcription in Schizosaccharomyces pombe

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De, Sandip, Edwards, David M., Dwivedi, Vibha, Wang, Jianming, Varsally, Wazeer, Dixon, Hannah L., Singh, Anand K., Owuamalam, Precious O., Wright, Matthew T., Summers, Reece P. et al.
(2022) Genome-wide chromosomal association of Upf1 is linked to Pol II transcription in Schizosaccharomyces pombe. Nucleic Acids Research, 50 (1). pp. 350-367. gkab1249. doi:10.1093/nar/gkab1249

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Official URL: https://doi.org/10.1093/nar/gkab1249

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Abstract

Although the RNA helicase Upf1 has hitherto been examined mostly in relation to its cytoplasmic role in nonsense mediated mRNA decay (NMD), here we report high-throughput ChIP data indicating genome-wide association of Upf1 with active genes in Schizosaccharomyces pombe. This association is RNase sensitive, correlates with Pol II transcription and mRNA expression levels. Changes in Pol II occupancy were detected in a Upf1 deficient (upf1∆) strain, prevalently at genes showing a high Upf1 relative to Pol II association in wild-type. Additionally, an increased Ser2 Pol II signal was detected at all highly transcribed genes examined by ChIP-qPCR. Furthermore, upf1cells are hypersensitive to the transcription elongation inhibitor 6-azauracil. A significant proportion of the genes associated with Upf1 in wild-type conditions are also mis-regulated in upf1. These data envisage that by operating on the nascent transcript, Upf1 might influence Pol II phosphorylation and transcription.

Item Type: Journal Article
Subjects: Q Science > QH Natural history
Q Science > QK Botany
Q Science > QP Physiology
Divisions: Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- )
Library of Congress Subject Headings (LCSH): Schizosaccharomyces pombe -- Research, DNA helicases, Genomes, Messenger RNA, Eukaryotic cells -- Genetics
Journal or Publication Title: Nucleic Acids Research
Publisher: Oxford University Press
ISSN: 0305-1048
Official Date: 11 January 2022
Dates:
DateEvent
11 January 2022Published
20 December 2021Available
6 December 2021Accepted
Volume: 50
Number: 1
Page Range: pp. 350-367
Article Number: gkab1249
DOI: 10.1093/nar/gkab1249
Status: Peer Reviewed
Publication Status: Published
Access rights to Published version: Open Access
RIOXX Funder/Project Grant:
Project/Grant IDRIOXX Funder NameFunder ID
9340/Z/09/ZWellcome Trusthttp://dx.doi.org/10.13039/100010269
202115/Z/16/ZWellcome Trusthttp://dx.doi.org/10.13039/100010269
RG170246Royal Societyhttp://dx.doi.org/10.13039/501100000288
BB/M022757/1[BBSRC] Biotechnology and Biological Sciences Research Councilhttp://dx.doi.org/10.13039/501100000268
BB/S017984/1[BBSRC] Biotechnology and Biological Sciences Research Councilhttp://dx.doi.org/10.13039/501100000268
BBSRC BB/M[BBSRC] Biotechnology and Biological Sciences Research Councilhttp://dx.doi.org/10.13039/501100000268
Ramalingaswami grant: BT/RHD/35/02/2006Department of Biotechnology , Ministry of Science and Technologyhttp://dx.doi.org/10.13039/501100001407
UNSPECIFIEDBangabandhu Science and Technology Fellowship Trusthttp://www.bstft.gov.bd/
Open Access chargeFellowship TrustUNSPECIFIED
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