Nucleic Acids Research Advance Access published online on April 8, 2008
Nucleic Acids Research, doi:10.1093/nar/gkn160
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The mRNA encoding the yeast ARE-binding protein Cth2 is generated by a novel 3' processing pathway
Wellcome Trust Centre for Cell Biology, University of Edinburgh, EH9 3JR, UK
*To whom correspondence should be addressed. Tel: +44 131 650 7092; Fax: +44 131 650 7040; Email: d.tollervey{at}ed.ac.uk Present address: Delphine Ciais, INSERM U878, iRTSV/LAPV, 17 rue des Martyrs, 38054 Grenoble, France
Received February 14, 2008. Revised March 20, 2008. Accepted March 20, 2008.
Microarray analyses of mRNAs over-expressed in strains lacking the nuclear exosome component Rrp6 identified the transcript encoding the ARE-binding protein Cth2, which functions in cytoplasmic mRNA stability. Subsequent northern analyses revealed that exosome mutants accumulate a 3'-extended transcript at the expense of the mature CTH2 mRNA. The 3' ends of the CTH2 mRNA were mapped to a [GU3–5]5 repeat, unlike any previously characterized polyadenylation site. CTH2 mRNA accumulation was not inhibited by mutations in 3'-cleavage and polyadenylation factors, Rna14, Rna15 and Pap1, which block accumulation of other mRNAs. The 3'-extended CTH2 pre-mRNA strongly accumulated in strains with mutations in the TRAMP4 polyadenylation complex or the Nrd1/Nab3/Sen1 complex, and contains multiple Nrd1 and Nab3 binding sites. CTH2 carries a consensus ARE element and levels of the pre-mRNA and mRNA were elevated by mutation of the ARE or inactivation of the nuclear 5'-exonuclease Rat1. We propose that CTH2 mRNA is processed from a 3'-extended primary transcript by the exosome, TRAMP and Nrd1/Nab3/Sen1 complexes. This unusual pathway may allow time for nuclear, ARE-mediated regulation of CTH2 levels involving Rat1.
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