Sequence Signatures and MRNA Concentration Can Explain Two-thirds of Protein Abundance Variation in a Human Cell Line

Overview

Journal Mol Syst Biol

Specialty Molecular Biology

Date 2010 Aug 27

PMID 20739923

Citations 328

Authors

Christine Vogel

Raquel de Sousa Abreu

Daijin Ko

Shu-Yun Le

Bruce A Shapiro

Suzanne C Burns

Devraj Sandhu

Daniel R Boutz

Edward M Marcotte

Luiz O Penalva

Affiliations

Soon will be listed here.

Abstract

Transcription, mRNA decay, translation and protein degradation are essential processes during eukaryotic gene expression, but their relative global contributions to steady-state protein concentrations in multi-cellular eukaryotes are largely unknown. Using measurements of absolute protein and mRNA abundances in cellular lysate from the human Daoy medulloblastoma cell line, we quantitatively evaluate the impact of mRNA concentration and sequence features implicated in translation and protein degradation on protein expression. Sequence features related to translation and protein degradation have an impact similar to that of mRNA abundance, and their combined contribution explains two-thirds of protein abundance variation. mRNA sequence lengths, amino-acid properties, upstream open reading frames and secondary structures in the 5' untranslated region (UTR) were the strongest individual correlates of protein concentrations. In a combined model, characteristics of the coding region and the 3'UTR explained a larger proportion of protein abundance variation than characteristics of the 5'UTR. The absolute protein and mRNA concentration measurements for >1000 human genes described here represent one of the largest datasets currently available, and reveal both general trends and specific examples of post-transcriptional regulation.

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