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

Sandip De | Zendy; David M. Edwards | Zendy; Vibha Dwivedi | Zendy; Jianming Wang | Zendy; Wazeer Varsally | Zendy; Hannah L Dixon | Zendy; Anand Kumar Singh | Zendy; Precious O Owuamalam | Zendy; Matthew Wright | Zendy; R. Summers | Zendy; Md Nazmul Hossain | Zendy; Emily M Price | Zendy; Marcin W. Wojewodzic | Zendy; Francesco Falciani | Zendy; Nikolas J. Hodges | Zendy; Marco Saponaro | Zendy; Kayoko Tanaka | Zendy; Claus M. Azzalin | Zendy; Peter Baumann | Zendy; Daniel Hebenstreit | Zendy; Saverio Brogna | Zendy

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

Author(s) -

Sandip De,

David M. Edwards,

Vibha Dwivedi,

Jianming Wang,

Wazeer Varsally,

Hannah L Dixon,

Anand Kumar Singh,

Precious O Owuamalam,

Matthew Wright,

R. Summers,

Md Nazmul Hossain,

Emily M Price,

Marcin W. Wojewodzic,

Francesco Falciani,

Nikolas J. Hodges,

Marco Saponaro,

Kayoko Tanaka,

Claus M. Azzalin,

Peter Baumann,

Daniel Hebenstreit,

Saverio Brogna

Publication year - 2021

Publication title -

nucleic acids research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.008

H-Index - 537

eISSN - 1362-4954

pISSN - 0305-1048

DOI - 10.1093/nar/gkab1249

Subject(s) - biology , schizosaccharomyces pombe , schizosaccharomyces , rna polymerase ii , transcription (linguistics) , gene , helicase , nonsense mediated decay , genetics , microbiology and biotechnology , transcriptional regulation , gene expression , rna helicase a , rna , promoter , saccharomyces cerevisiae , rna splicing , linguistics , philosophy

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 (upf1Δ) 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, upf1Δ cells 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 upf1Δ. These data envisage that by operating on the nascent transcript, Upf1 might influence Pol II phosphorylation and transcription.

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