Evidence map›Paper›PMID 26571098›Full record

ArticleNature biotechnology2015

Evolution of translation machinery in recoded bacteria enables multi-site incorporation of nonstandard amino acids.

Miriam Amiram, Adrian D Haimovich, Chenguang Fan, Yane-Shih Wang, Hans-Rudolf Aerni, Ioanna Ntai, Daniel W Moonan, Natalie J Ma, Alexis J Rovner, Seok Hoon Hong and 6 more

Abstract read
In one paragraph

Article in Nature biotechnology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 149 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
149citing papers in PubMed, 1 pooled it
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

149 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. Ribosome engineering enhances genetic code expansion inSynthetic and systems biotechnology · 2027
    Article
  3. Article
  4. Review
  5. Article
  6. Article
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  9. Article
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  12. Nonfouling Coatings from Synthetic Intrinsically Disordered Proteins.Small (Weinheim an der Bergstrasse, Germany) · 2025
    Article
  13. Detection of a large antigen through the masking and exposure of a fragment of split luciferase.Analytical sciences : the international journal of the Japan Society for Analytical Chemistry · 2025
    Article
  14. Article
  15. Review
  16. Article
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  20. Review

89 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

16 authors.

Miriam AmiramDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, USA.
Adrian D HaimovichDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, USA.
Chenguang FanDepartment of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, USA.
Yane-Shih WangDepartment of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, USA.ORCID http://orcid.org/0000-0003-2356-9577
Hans-Rudolf AerniSystems Biology Institute, Yale University, West Haven, Connecticut, USA.ORCID http://orcid.org/0000-0001-9477-2949
Ioanna NtaiDepartment of Chemistry, Northwestern University, Evanston, Illinois, USA.
Daniel W MoonanDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, USA.
Natalie J MaDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, USA.
Alexis J RovnerDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, USA.
Seok Hoon HongDepartment of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois, USA.ORCID http://orcid.org/0000-0003-2401-6368
Neil L KelleherDepartment of Chemistry, Northwestern University, Evanston, Illinois, USA.
Andrew L GoodmanDepartment of Microbial Pathogenesis and Microbial Sciences Institute, Yale University School of Medicine, New Haven, Connecticut, USA.
Michael C JewettDepartment of Chemical and Biological Engineering, Northwestern University, Evanston, Illinois, USA.
Dieter SöllDepartment of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, USA.
Jesse RinehartSystems Biology Institute, Yale University, West Haven, Connecticut, USA.ORCID http://orcid.org/0000-0003-4839-4005
Farren J IsaacsDepartment of Molecular, Cellular, and Developmental Biology, Yale University, New Haven, Connecticut, USA.

Funding

MEDICAL SCIENTIST TRAINING PROGRAMT32GM007205 · NIGMS · YALE UNIVERSITY · PI KAZMIERCZAK, BARBARA I · 1985 to 2019
$42.9M
Skill Development for Diverse Scientific Careers: A New Course Predoctoral Program in Cellular and Molecular BiologyT32GM007223 · NIGMS · YALE UNIVERSITY · PI BASERGA, SUSAN J · 1985 to 2019
$31.0M
TRANSFER RNAR01GM022854 · NIGMS · YALE UNIVERSITY · PI SOLL, DIETER · 1985 to 2016
$21.3M
Eukaryotic Post-Translational ModificationsR01GM067193 · NIGMS · UNIVERSITY OF ILLINOIS URBANA-CHAMPAIGN · PI KELLEHER, NEIL L · 2003 to 2015
$4.0M
TRANSFER RNAR37GM022854 · NIGMS · YALE UNIVERSITY · PI SOLL, DIETER G · 1991 to 2000
$786k
Development of Co-translational Phosphotyrosine Incorporation to Elucidate Mechanisms of Src ActivationF30CA196191 · NCI · YALE UNIVERSITY · PI HAIMOVICH, ADRIAN · 2015 to 2017
$105k
NCI NIH HHS F30 CA196191NIGMS NIH HHS R01 GM022854NIGMS NIH HHS R01 GM067193NIGMS NIH HHS R37 GM022854NIGMS NIH HHS T32 GM007205NIGMS NIH HHS T32 GM007223
6 · The paper itself

Abstract

Expansion of the genetic code with nonstandard amino acids (nsAAs) has enabled biosynthesis of proteins with diverse new chemistries. However, this technology has been largely restricted to proteins containing a single or few nsAA instances. Here we describe an in vivo evolution approach in a genomically recoded Escherichia coli strain for the selection of orthogonal translation systems capable of multi-site nsAA incorporation. We evolved chromosomal aminoacyl-tRNA synthetases (aaRSs) with up to 25-fold increased protein production for p-acetyl-L-phenylalanine and p-azido-L-phenylalanine (pAzF). We also evolved aaRSs with tunable specificities for 14 nsAAs, including an enzyme that efficiently charges pAzF while excluding 237 other nsAAs. These variants enabled production of elastin-like-polypeptides with 30 nsAA residues at high yields (∼50 mg/L) and high accuracy of incorporation (>95%). This approach to aaRS evolution should accelerate and expand our ability to produce functionalized proteins and sequence-defined polymers with diverse chemistries.

Identifiers

PMID26571098
PMCPMC4784704

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.