Evidence map›Paper›PMID 37819512›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2024

Investigating Pseudomonas aeruginosa Gene Function During Pathogenesis Using Mobile-CRISPRi.

Michelle A Yu, Amy B Banta, Ryan D Ward, Neha K Prasad, Michael S Kwon, Oren S Rosenberg, Jason M Peters

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 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. Article
  3. UnderstandingMicroorganisms · 2026
    Review
  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

7 authors.

Michelle A YuDivision of Pulmonary, Critical Care, Allergy, and Sleep Medicine, Department of Medicine, University of California, San Francisco, CA, USA.
Amy B BantaPharmaceutical Sciences Division, School of Pharmacy, University of Wisconsin-Madison, Madison, WI, USA.
Ryan D WardPharmaceutical Sciences Division, School of Pharmacy, University of Wisconsin-Madison, Madison, WI, USA.
Neha K PrasadChan Zuckerberg Biohub, San Francisco, CA, USA.
Michael S KwonDivision of Pulmonary, Critical Care, Allergy, and Sleep Medicine, Department of Medicine, University of California, San Francisco, CA, USA.
Oren S RosenbergChan Zuckerberg Biohub, San Francisco, CA, USA.
Jason M PetersPharmaceutical Sciences Division, School of Pharmacy, University of Wisconsin-Madison, Madison, WI, USA. jason.peters@wisc.edu.

Funding

CRISPR-based Functional Genomics in Pathogenic BacteriaK22AI137122 · NIAID · UNIVERSITY OF WISCONSIN-MADISON · PI PETERS, JASON M. · 2018 to 2019
$269k
NIAID NIH HHS K22 AI137122
6 · The paper itself

Abstract

CRISPR interference (CRISPRi) is a robust gene silencing technique that is ideal for targeting essential and conditionally essential (CE) genes. CRISPRi is especially valuable for investigating gene function in pathogens such as P. aeruginosa where essential and CE genes underlie clinically important phenotypes such as antibiotic susceptibility and virulence. To facilitate the use of CRISPRi in diverse bacteria-including P. aeruginosa-we developed a suite of modular, mobilizable, and integrating vectors we call, "Mobile-CRISPRi." We further optimized Mobile-CRISPRi for use in P. aeruginosa mouse models of acute lung infection by expressing the CRISPRi machinery at low levels constitutively, enabling partial knockdown of essential and CE genes without the need for an exogenous inducer. Here, we describe protocols for creating Mobile-CRISPRi knockdown strains and testing their phenotypes in a mouse pneumonia model of P. aeruginosa infection. In addition, we provide comprehensive guide RNA designs to target genes in common laboratory strains of P. aeruginosa and other Pseudomonas species.

Indexed as

CRISPR-Cas SystemsPseudomonas aeruginosaAnimalsClustered Regularly Interspaced Short Palindromic RepeatsGene SilencingMicePhenotypeCRISPR-Cas9CRISPRiEssential genesMurine pneumonia modelPseudomonas putidaPseudomonas syringaeSystems biology

Identifiers

PMID37819512
PMCPMC11890080

What OpenQuestion holds

Textmetadata
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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.