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Genomic and proteomic analysis of transcription factor TFII-I reveals insight into the response to cellular stress

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Alex Xiucheng Fan, Giorgio L Papadopoulos, Mir A Hossain, I-Ju Lin, Jianhong Hu, Tommy Ming Tang, Michael S Kilberg, Rolf Renne, John Strouboulis, Jörg Bungert

Original languageEnglish
Pages (from-to)7625-7641
Number of pages17
JournalNucleic Acids Research
Volume42
Issue number12
Early online date28 May 2014
DOIs
Accepted/In press12 May 2014
E-pub ahead of print28 May 2014
Published8 Jul 2014

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Abstract

The ubiquitously expressed transcription factor TFII-I exerts both positive and negative effects on transcription. Using biotinylation tagging technology and high-throughput sequencing, we determined sites of chromatin interactions for TFII-I in the human erythroleukemia cell line K562. This analysis revealed that TFII-I binds upstream of the transcription start site of expressed genes, both upstream and downstream of the transcription start site of repressed genes, and downstream of RNA polymerase II peaks at the ATF3 and other stress responsive genes. At the ATF3 gene, TFII-I binds immediately downstream of a Pol II peak located 5 kb upstream of exon 1. Induction of ATF3 expression increases transcription throughout the ATF3 gene locus which requires TFII-I and correlates with increased association of Pol II and Elongin A. Pull-down assays demonstrated that TFII-I interacts with Elongin A. Partial depletion of TFII-I expression caused a reduction in the association of Elongin A with and transcription of the DNMT1 and EFR3A genes without a decrease in Pol II recruitment. The data reveal different interaction patterns of TFII-I at active, repressed, or inducible genes, identify novel TFII-I interacting proteins, implicate TFII-I in the regulation of transcription elongation and provide insight into the role of TFII-I during the response to cellular stress.

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