Evidence map›Paper›PMID 30190458›Full record

ArticleNature communications2018

Jungle Express is a versatile repressor system for tight transcriptional control.

Thomas L Ruegg, Jose H Pereira, Joseph C Chen, Andy DeGiovanni, Pavel Novichkov, Vivek K Mutalik, Giovani P Tomaleri, Steven W Singer, Nathan J Hillson, Blake A Simmons and 2 more

Erratum issuedAbstract read
In one paragraph

Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 40 papers.

0numbers the graph read from it
0cells of the map it votes in
40citing 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

40 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Genetically Encoded Control ofACS synthetic biology · 2025
    Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
  15. Tools for genetic engineering and gene expression control inApplied and environmental microbiology · 2024
    Article
  16. Article
  17. Article
  18. Article
  19. Frontiers in genetics · 2024
    Review
  20. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

12 authors.

Thomas L RueggJoint BioEnergy Institute, Emeryville, CA, 94608, USA.
Jose H PereiraJoint BioEnergy Institute, Emeryville, CA, 94608, USA.
Joseph C ChenJoint BioEnergy Institute, Emeryville, CA, 94608, USA.
Andy DeGiovanniJoint BioEnergy Institute, Emeryville, CA, 94608, USA.
Pavel NovichkovEnvironmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Vivek K MutalikEnvironmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA.
Giovani P TomaleriJoint BioEnergy Institute, Emeryville, CA, 94608, USA.
Steven W SingerJoint BioEnergy Institute, Emeryville, CA, 94608, USA.ORCID http://orcid.org/0000-0002-4229-8314
Nathan J HillsonJoint BioEnergy Institute, Emeryville, CA, 94608, USA.ORCID http://orcid.org/0000-0002-9169-3978
Blake A SimmonsJoint BioEnergy Institute, Emeryville, CA, 94608, USA.ORCID http://orcid.org/0000-0002-1332-1810
Paul D AdamsJoint BioEnergy Institute, Emeryville, CA, 94608, USA.
Michael P ThelenJoint BioEnergy Institute, Emeryville, CA, 94608, USA. thelen1@llnl.gov.

Funding

Sinorhizobium meliloti factors that affect biofilm formation and symbiosis efficiencySC3GM096943 · NIGMS · SAN FRANCISCO STATE UNIVERSITY · PI CHEN, JOSEPH CHIUNG-CHU · 2012 to 2023
$1.4M
DOE | SC | Biological and Environmental Research (BER) DE-AC02-05CH11231NIGMS NIH HHS SC3 GM096943U.S. Department of Health & Human Services | National Institutes of Health (NIH) SC3GM096943
6 · The paper itself

Abstract

Tightly regulated promoters are essential for numerous biological applications, where strong inducibility, portability, and scalability are desirable. Current systems are often incompatible with large-scale fermentations due to high inducer costs and strict media requirements. Here, we describe the bottom-up engineering of 'Jungle Express', an expression system that enables efficient gene regulation in diverse proteobacteria. This system is guided by EilR, a multidrug-binding repressor with high affinity to its optimized operator and cationic dyes that act as powerful inducers at negligible costs. In E. coli, the engineered promoters exhibit minimal basal transcription and are inducible over four orders of magnitude by 1 µM crystal violet, reaching expression levels exceeding those of the strongest current bacterial systems. Further, we provide molecular insights into specific interactions of EilR with its operator and with two inducers. The versatility of Jungle Express opens the way for tightly controlled and efficient gene expression that is not restricted to host organism, substrate, or scale.

Indexed as

Operator Regions, GeneticBacterial ProteinsCrystallography, X-RayEscherichia coliGene Expression Regulation, BacterialGenetic EngineeringGentian VioletInverted Repeat SequencesPromoter Regions, GeneticProteobacteriaRepressor ProteinsRosaniline DyesTranscription FactorsTranscription, GeneticBacterial ProteinsGentian Violetmalachite greenRepressor ProteinsRosaniline DyesTranscription Factors

Identifiers

PMID30190458
PMCPMC6127294

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

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.