Broad-specificity mRNA-rRNA complementarity in efficient protein translation.

Abstract:

:Studies of synthetic, well-defined biomolecular systems can elucidate inherent capabilities that may be difficult to uncover in a native biological context. Here, we used a minimal, reconstituted translation system from Escherichia coli to identify efficient ribosome binding sites (RBSs) in an unbiased, high-throughput manner. We applied ribosome display, a powerful in vitro selection method, to enrich only those mRNA sequences which could direct rapid protein translation. In addition to canonical Shine-Dalgarno (SD) motifs, we unexpectedly recovered highly efficient cytosine-rich (C-rich) sequences that exhibit unmistakable complementarity to the 16S rRNA of the small subunit of the ribosome, indicating that broad-specificity base-pairing may be an inherent, general mechanism for efficient translation. Furthermore, given the conservation of ribosomal structure and function across species, the broader relevance of C-rich RBS sequences identified through our in vitro evolution approach is supported by multiple, diverse examples in nature, including C-rich RBSs in several bacteriophage and plants, a poly-C consensus before the start codon in a lower eukaryote, and Kozak-like sequences in vertebrates.

journal_name

PLoS Genet

journal_title

PLoS genetics

authors

Barendt PA,Shah NA,Barendt GA,Sarkar CA

doi

10.1371/journal.pgen.1002598

subject

Has Abstract

pub_date

2012-01-01 00:00:00

pages

e1002598

issue

3

eissn

1553-7390

issn

1553-7404

pii

PGENETICS-D-11-02186

journal_volume

8

pub_type

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