Predictable tuning of protein expression in bacteria

Mads T Bonde; Margit Pedersen; Michael S Klausen; Sheila I Jensen; Tune Wulff; Scott Harrison; Alex T Nielsen; Markus J Herrgård; Morten O A Sommer

doi:10.1038/nmeth.3727

Predictable tuning of protein expression in bacteria

Nat Methods. 2016 Mar;13(3):233-6. doi: 10.1038/nmeth.3727. Epub 2016 Jan 11.

Authors

Mads T Bonde¹, Margit Pedersen¹, Michael S Klausen¹, Sheila I Jensen¹, Tune Wulff¹, Scott Harrison¹, Alex T Nielsen¹, Markus J Herrgård¹, Morten O A Sommer¹

Affiliation

¹ Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Hørsholm, Denmark.

PMID: 26752768
DOI: 10.1038/nmeth.3727

Abstract

We comprehensively assessed the contribution of the Shine-Dalgarno sequence to protein expression and used the data to develop EMOPEC (Empirical Model and Oligos for Protein Expression Changes; http://emopec.biosustain.dtu.dk). EMOPEC is a free tool that makes it possible to modulate the expression level of any Escherichia coli gene by changing only a few bases. Measured protein levels for 91% of our designed sequences were within twofold of the desired target level.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Algorithms
Cloning, Molecular
Escherichia coli / genetics*
Escherichia coli Proteins / genetics*
Peptide Chain Initiation, Translational / genetics*
Promoter Regions, Genetic / genetics
Protein Engineering / methods*
RNA, Bacterial / genetics*
RNA, Messenger / genetics
RNA, Ribosomal, 16S / genetics
Sequence Homology, Nucleic Acid
Software*

Substances

Escherichia coli Proteins
RNA, Bacterial
RNA, Messenger
RNA, Ribosomal, 16S