Extensive association of functionally and cytotopically related mRNAs with Puf family RNA-binding proteins in yeast.

Gerber, AP, Herschlag, D and Brown, PO (2004) Extensive association of functionally and cytotopically related mRNAs with Puf family RNA-binding proteins in yeast. PLoS Biol, 2 (3).

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Abstract

Genes encoding RNA-binding proteins are diverse and abundant in eukaryotic genomes. Although some have been shown to have roles in post-transcriptional regulation of the expression of specific genes, few of these proteins have been studied systematically. We have used an affinity tag to isolate each of the five members of the Puf family of RNA-binding proteins in Saccharomyces cerevisiae and DNA microarrays to comprehensively identify the associated mRNAs. Distinct groups of 40-220 different mRNAs with striking common themes in the functions and subcellular localization of the proteins they encode are associated with each of the five Puf proteins: Puf3p binds nearly exclusively to cytoplasmic mRNAs that encode mitochondrial proteins; Puf1p and Puf2p interact preferentially with mRNAs encoding membrane-associated proteins; Puf4p preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors; and Puf5p is associated with mRNAs encoding chromatin modifiers and components of the spindle pole body. We identified distinct sequence motifs in the 3'-untranslated regions of the mRNAs bound by Puf3p, Puf4p, and Puf5p. Three-hybrid assays confirmed the role of these motifs in specific RNA-protein interactions in vivo. The results suggest that combinatorial tagging of transcripts by specific RNA-binding proteins may be a general mechanism for coordinated control of the localization, translation, and decay of mRNAs and thus an integral part of the global gene expression program.

Item Type:	Article
Divisions :	Faculty of Health and Medical Sciences > School of Biosciences and Medicine > Department of Microbial and Cellular Sciences
Authors :	Name Email ORCID Gerber, AP Herschlag, D Brown, PO
Date :	March 2004
DOI :	10.1371/journal.pbio.0020079
Uncontrolled Keywords :	3' Untranslated Regions, Amino Acid Motifs, Animals, Cell Cycle Proteins, Chromatin, Cytoplasm, DNA Primers, Fungal Proteins, Gene Expression Profiling, Gene Expression Regulation, Fungal, Genes, Fungal, Membrane Proteins, Microscopy, Fluorescence, Mitochondria, Molecular Sequence Data, Nucleic Acid Hybridization, Oligonucleotide Array Sequence Analysis, Phenotype, Plasmids, RNA, RNA Processing, Post-Transcriptional, RNA, Messenger, RNA-Binding Proteins, Repressor Proteins, Saccharomyces cerevisiae, Saccharomyces cerevisiae Proteins, Two-Hybrid System Techniques
Additional Information :	Copyright 2004 Gerber et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Depositing User :	Symplectic Elements
Date Deposited :	16 Mar 2012 10:10
Last Modified :	31 Oct 2017 14:29
URI:	http://epubs.surrey.ac.uk/id/eprint/290304

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