Proximal genomic localization of STAT1 binding and regulated transcriptional activity

Wormald, Samuel, Hilton, Douglas J., Smyth, Gordon K. and Speed, Terence P. (2006) Proximal genomic localization of STAT1 binding and regulated transcriptional activity. BMC Genomics, 7 254-1-254-13. doi:10.1186/1471-2164-7-254


Author Wormald, Samuel
Hilton, Douglas J.
Smyth, Gordon K.
Speed, Terence P.
Title Proximal genomic localization of STAT1 binding and regulated transcriptional activity
Journal name BMC Genomics   Check publisher's open access policy
ISSN 1471-2164
Publication date 2006-10-11
Sub-type Article (original research)
DOI 10.1186/1471-2164-7-254
Open Access Status DOI
Volume 7
Start page 254-1
End page 254-13
Total pages 13
Place of publication London, England
Publisher BioMed Central
Language eng
Subject 1004 Medical Biotechnology
1101 Medical Biochemistry and Metabolomics
Formatted abstract
Background
Signal transducer and activator of transcription (STAT) proteins are key regulators of gene expression in response to the interferon (IFN) family of anti-viral and anti-microbial cytokines. We have examined the genomic relationship between STAT1 binding and regulated transcription using multiple tiling microarray and chromatin immunoprecipitation microarray (ChIP-chip) experiments from public repositories.

Results
In response to IFN-γ, STAT1 bound proximally to regions of the genome that exhibit regulated transcriptional activity. This finding was consistent between different tiling microarray platforms, and between different measures of transcriptional activity, including differential binding of RNA polymerase II, and differential mRNA transcription. Re-analysis of tiling microarray data from a recent study of IFN-γ-induced STAT1 ChIP-chip and mRNA expression revealed that STAT1 binding is tightly associated with localized mRNA transcription in response to IFN-γ. Close relationships were also apparent between STAT1 binding, STAT2 binding, and mRNA transcription in response to IFN-α. Furthermore, we found that sites of STAT1 binding within the Encyclopedia of DNA Elements (ENCODE) region are precisely correlated with sites of either enhanced or diminished binding by the RNA polymerase II complex.

Conclusion
Together, our results indicate that STAT1 binds proximally to regions of the genome that exhibit regulated transcriptional activity. This finding establishes a generalized basis for the positioning of STAT1 binding sites within the genome, and supports a role for STAT1 in the direct recruitment of the RNA polymerase II complex to the promoters of IFN-γ-responsive genes. 
Keyword Gene expression
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Unknown
Additional Notes Article No. 254

Document type: Journal Article
Sub-type: Article (original research)
Collections: Excellence in Research Australia (ERA) - Collection
Institute for Molecular Bioscience - Publications
 
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Created: Fri, 19 Feb 2010, 19:20:12 EST by Ms Lynette Adams on behalf of Institute for Molecular Bioscience