Evidence map›Paper›PMID 39384772›Full record

ArticleNature communications2024

Rewiring native post-transcriptional global regulators to achieve designer, multi-layered genetic circuits.

Trevor R Simmons, Gina Partipilo, Ryan Buchser, Anna C Stankes, Rashmi Srivastava, Darian Chiu, Benjamin K Keitz, Lydia M Contreras

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Nature communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing 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

4 citing papers in PubMed.

  1. Review
  2. Review
  3. Article
  4. Article
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

8 authors.

Trevor R SimmonsMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, 78712, USA.
Gina PartipiloMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, 78712, USA.ORCID 0000-0001-6353-3419
Ryan BuchserMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, 78712, USA.
Anna C StankesMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, 78712, USA.
Rashmi SrivastavaDepartment of Chemistry and Biochemistry, Baylor University, Waco, TX, 76706, USA.
Darian ChiuMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, 78712, USA.
Benjamin K KeitzMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, 78712, USA.ORCID 0000-0003-3314-0053
Lydia M ContrerasMcKetta Department of Chemical Engineering, The University of Texas at Austin, Austin, TX, 78712, USA. lcontrer@che.utexas.edu.ORCID 0000-0001-5010-5511

Funding

Harnessing Electroactive Bacteria for Microbial Redox CatalysisR35GM133640 · NIGMS · UNIVERSITY OF TEXAS AT AUSTIN · PI KEITZ, BENJAMIN KEITH · 2019 to 2023
$1.9M
National Science Foundation (NSF) MCB-1932780, DGE-1610403NIGMS NIH HHS R35 GM133640
6 · The paper itself

Abstract

As synthetic biology expands, creating "drag-and-drop" regulatory tools that can achieve diverse regulatory outcomes are paramount. Herein, we develop a approach for engineering complex post-transcriptional control by rewiring the Carbon Storage Regulatory (Csr) Network of Escherichia coli. We co-opt native interactions of the Csr Network to establish post-transcriptional logic gates and achieve complex bacterial regulation. First, we rationally engineer RNA-protein interactions to create a genetic toolbox of 12 BUFFER Gates that achieves a 15-fold range of expression. Subsequently, we develop a Csr-regulated NOT Gate by integrating a cognate 5' UTR that is natively Csr-activated into our platform. We then deploy the BUFFER and NOT gates to build a bi-directional regulator, two input Boolean Logic gates OR, NOR, AND and NAND and a pulse-generating circuit. Last, we port our Csr-regulated BUFFER Gate into three industrially relevant bacteria simply by leveraging the conserved Csr Network in each species.

Indexed as

Escherichia coliEscherichia coli ProteinsGene Expression Regulation, BacterialGene Regulatory NetworksSynthetic Biology5' Untranslated RegionsGenetic Engineering5' Untranslated RegionsEscherichia coli Proteins

Identifiers

PMID39384772
PMCPMC11479628

What OpenQuestion holds

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LicenceCC BY-NC-ND
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.