Evidence map›Paper›PMID 24185096›Full record

ArticleNature biotechnology2014

Directed evolution of genetic parts and circuits by compartmentalized partnered replication.

Jared W Ellefson, Adam J Meyer, Randall A Hughes, Joe R Cannon, Jennifer S Brodbelt, Andrew D Ellington

Abstract read
PubMed Publisher
In one paragraph

Article in Nature biotechnology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 85 papers.

0numbers the graph read from it
0cells of the map it votes in
85citing papers in PubMed
–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

85 citing papers in PubMed.

  1. Review
  2. Article
  3. Review
  4. In Vivo Biosynthesis and Direct Incorporation of Noncanonical Amino Acids into Proteins.Chembiochem : a European journal of chemical biology · 2025
    Review
  5. Article
  6. Gene circuit-based sensors.Fundamental research · 2025
    Review
  7. Article
  8. Article
  9. Review
  10. Article
  11. Review
  12. Review
  13. Article
  14. Article
  15. Directed evolution of the fluorescent protein CGP withApplied and environmental microbiology · 2024
    Article
  16. Review
  17. Article
  18. Review
  19. Article
  20. Tuning tRNAs for improved translation.Frontiers in genetics · 2024
    Review

25 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

6 authors.

Jared W Ellefson1] Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas, USA. [2].
Adam J Meyer1] Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas, USA. [2].
Randall A Hughes1] Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas, USA. [2] Applied Research Laboratories, University of Texas at Austin, Austin, Texas, USA.
Joe R CannonDepartment of Chemistry and Biochemistry, University of Texas at Austin, Austin, Texas, USA.
Jennifer S BrodbeltDepartment of Chemistry and Biochemistry, University of Texas at Austin, Austin, Texas, USA.
Andrew D Ellington1] Institute for Cellular and Molecular Biology, University of Texas at Austin, Austin, Texas, USA. [2] Applied Research Laboratories, University of Texas at Austin, Austin, Texas, USA. [3] Department of Chemistry and Biochemistry, University of Texas at Austin, Austin, Texas, USA. [4] Center for Systems & Synthetic Biology, University of Texas at Austin, Austin, Texas, USA.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Most existing directed evolution methods, both in vivo and in vitro, suffer from inadvertent selective pressures (i.e., altering organism fitness), resulting in the evolution of products with unintended or suboptimal function. To overcome these barriers, here we present compartmentalized partnered replication (CPR). In this approach, synthetic circuits are linked to the production of Taq DNA polymerase so that evolved circuits that most efficiently drive Taq DNA polymerase production are enriched by exponential amplification during a subsequent emulsion PCR step. We apply CPR to evolve a T7 RNA polymerase variant that recognizes an orthogonal promoter and to reengineer the tryptophanyl tRNA-synthetase:suppressor tRNA pair from Saccharomyces cerevisiae to efficiently and site-specifically incorporate an unnatural amino acid into proteins. In both cases, the CPR-evolved parts were more orthogonal and/or more active than variants evolved using other methods. CPR should be useful for evolving any genetic part or circuit that can be linked to Taq DNA polymerase expression.

Indexed as

Directed Molecular EvolutionBacteriophage T7DNA-Binding ProteinsDNA-Directed RNA PolymerasesDNA ReplicationEscherichia coliPromoter Regions, GeneticRNA, TransferSaccharomyces cerevisiaeTaq PolymeraseTryptophan-tRNA LigaseViral Proteinsbacteriophage T7 RNA polymeraseDNA-Binding ProteinsDNA-Directed RNA PolymerasesRNA, TransferTaq PolymeraseTryptophan-tRNA LigaseViral Proteins

Identifiers

PMID24185096

What OpenQuestion holds

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Registered trials

None linked

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.