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PMID: 18214544 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Genome wide expression analysis of the CCR4-NOT complex indicates that it consists of three modules with the NOT module controlling SAGA-responsive genes.

Molecular genetics and genomics : MGG ·Vol. 279 ·No. 4 ·2008-04-00 ·Pages 323-37

Cui Y, Ramnarain DB, Chiang YC, Ding LH, McMahon JS, Denis CL

Abstract

Of the nine known members of the CCR4-NOT complex, CCR4/CAF1 are most important in mRNA deadenylation whereas the NOT1-5 proteins are most critical for transcriptional repression. Whole genome microarray analysis using deletions in seven of the CCR4-NOT genes was used to determine the overall mRNA expression patterns that are affected by members of the yeast CCR4-NOT complex. Under glucose conditions, ccr4 and caf1 displayed a high degree of similarity in the manner that they affected gene expression. In contrast, the not deletions were similar in the way they affected genes, but showed no correlation with that of ccr4/caf1. A number of groups of functionally related proteins were specifically controlled by the CCR4/CAF1 or NOT modules. Importantly, the NOT proteins preferentially affected SAGA-controlled gene expression. Also, both the CCR4/CAF1 and NOT group of proteins shared much greater similarities in their effects on gene expression during the stress of glucose deprivation. BTT1, a member of the nascent polypeptide association complex that binds the ribosome, was shown to be a tenth member of the CCR4-NOT complex, interacting through CAF130. Microarray analysis indicated that BTT1 and CAF130 correlate very highly in their control of gene expression and preferentially repress genes involved in ribosome biogenesis. These results indicate that distinct portions of the CCR4-NOT complex control a number of different cellular processes.

MeSH Terms
Gene Expression Profiling Gene Expression Regulation, Fungal Genome, Fungal Multiprotein Complexes Nuclear Proteins/chemistry,genetics,metabolism RNA, Fungal/genetics,metabolism RNA, Messenger/genetics,metabolism Ribonucleases/chemistry,genetics,metabolism Saccharomyces cerevisiae/genetics,metabolism Saccharomyces cerevisiae Proteins/chemistry,genetics,metabolism Trans-Activators/chemistry,genetics,metabolism Transcription Factors/chemistry,genetics,metabolism
Chemicals
Multiprotein Complexes Nuclear Proteins RNA, Fungal RNA, Messenger SAGA complex, S cerevisiae Saccharomyces cerevisiae Proteins Trans-Activators Transcription Factors transcription factor BTF3 CCR4 protein, S cerevisiae Ribonucleases POP2 protein, S cerevisiae
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Cui Yajun
Department of Biochemistry and Molecular Biology, Rudman Hall, University of New Hampshire, Durham, New Hampshire, 03824, USA. [email protected]
Ramnarain Deepti B
Chiang Yueh-Chin
Ding Liang-Hao
McMahon Jeffrey S
Denis Clyde L
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Article Info
Journal
Molecular genetics and genomics : MGG
Abbr.
Mol Genet Genomics
ISSN
1617-4615
DOI
10.1007/s00438-007-0314-1
Email
[email protected]
Published
2008-04-00
Epub
2008-00-23
Pages
323-37
Language
English
Region
Germany
NLM ID
101093320
Subset
IM
Grants
NIGMS NIH HHS · GM41215 · United States
External Links
PubMed source DOI: 10.1007/s00438-007-0314-1 View journal details
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