E-MTAB-708 - RNA-Seq of yeast FBY107, FBY106 strains to investigate pre-mRNA degradation pathway

Status
Released on 10 February 2012, last updated on 8 May 2014
Organism
Schizosaccharomyces pombe
Samples (2)
Protocols (4)
Description
General discard pathways eliminate unprocessed and irregular pre-mRNAs to control the quality of gene expression. In contrast to such general pre-mRNA decay, we describe here a nuclear pre-mRNA degradation pathway that controls the expression of select intron-containing genes. We show that the fission yeast nuclear poly(A)-binding protein, Pab2, and the nuclear exosome subunit, Rrp6, are the main factors involved in this polyadenylation-dependent pre-mRNA degradation pathway. Transcriptome analysis and intron swapping experiments revealed that inefficient splicing is important to dictate susceptibility to Pab2-dependent pre-mRNA decay. We also show that negative splicing regulation can promote the poor splicing efficiency required for this pre-mRNA decay pathway, and in doing so identify a mechanism of cross-regulation between paralogous ribosomal proteins through nuclear pre-mRNA decay. Our findings unveil a layer of regulation in the nucleus in which the turnover of specific pre-mRNAs, besides the turnover of mature mRNAs, is used to control gene expression.
Experiment types
RNA-seq of coding RNA, co-expression, strain or line
Contacts
Citation
A pre-mRNA degradation pathway that selectively targets intron-containing genes requires the nuclear poly(A)-binding protein. Caroline Lemieux, Samuel Marguerat, Jennifer Lafontaine, Nicolas Barbezier, Jürg Bähler, and Francois Bachand.
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-MTAB-708.idf.txt
Sample and data relationshipE-MTAB-708.sdrf.txt
Links