Evidence map›Paper›PMID 39031590›Full record

ArticleG3 (Bethesda, Md.)2024

Characterization of mycobacteriophage Adephagia cytotoxic proteins.

Krista G Freeman, Michael J Lauer, Danny Jiang, Jennifer Roscher, Sterling Sandler, Nicholas Mercado, Robert Fryberger, Julia Kovalski, Abigail R Lutz, Lee E Hughes and 2 more

Abstract read
In one paragraph

Article in G3 (Bethesda, Md.), 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. Article
  2. Article
  3. Article
  4. Review
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

12 authors.

Krista G FreemanDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.ORCID 0000-0002-2944-5076
Michael J LauerDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.ORCID 0009-0001-6118-1429
Danny JiangDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.ORCID 0009-0008-0273-2447
Jennifer RoscherDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.
Sterling SandlerDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.
Nicholas MercadoDepartment of Biological Sciences, University of North Texas, Denton, TX 76203, USA.
Robert FrybergerDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.
Julia KovalskiDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.
Abigail R LutzDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.
Lee E HughesDepartment of Biological Sciences, University of North Texas, Denton, TX 76203, USA.
Andrew P VanDemarkDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.ORCID 0000-0003-3424-4831
Graham F HatfullDepartment of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.ORCID 0000-0002-6705-6821

Funding

Bacteriophage diversity, dynamics, function, and exploitationR35GM131729 · NIGMS · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Graham F. Hatfull · 2019 to 2026
$3.6M
G-RISE at the University of North TexasT32GM136501 · NIGMS · UNIVERSITY OF NORTH TEXAS · PI BURGGREN, WARREN, HUGHES, LEE · 2021 to 2024
$1.8M
Improving phage-based medicine with immunoengineeringK99AI173544 · NIAID · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI FREEMAN, KRISTA GABRIELLE · 2023 to 2024
$200k
Howard Hughes Medical Institute GT2053NIAID NIH HHS K99 AI173544NIGMS NIH HHS R35 GM131729NIGMS NIH HHS T32 GM136501NIH HHS GM131729
6 · The paper itself

Abstract

Mycobacterium phage Adephagia is a cluster K phage that infects Mycobacterium smegmatis and some strains of Mycobacterium pathogens. Adephagia has a siphoviral virion morphology and is temperate. Its genome is 59,646 bp long and codes for one tRNA gene and 94 predicted protein-coding genes; most genes not associated with virion structure and assembly are functionally ill-defined. Here, we determined the Adephagia gene expression patterns in lytic and lysogenic growth and used structural predictions to assign additional gene functions. We characterized 66 nonstructural genes for their toxic phenotypes when expressed in M. smegmatis, and we show that 25 of these (38%) are either toxic or strongly inhibit growth, resulting in either reduced viability or small colony sizes. Some of these genes are predicted to be involved in DNA metabolism or regulation, but others are of unknown function. We also characterize the HicAB-like toxin-antitoxin (TA) system encoded by Adephagia (gp91 and gp90, respectively) and show that the gp90 antitoxin is lysogenically expressed, abrogates gp91 toxicity, and is required for normal lytic and lysogenic growth.

Indexed as

MycobacteriophagesMycobacterium smegmatisViral ProteinsGene Expression Regulation, ViralGenome, ViralLysogenyToxin-Antitoxin SystemsViral Proteinscytotoxic genesmycobacteriophagetoxin–antitoxin

Identifiers

PMID39031590
PMCPMC11373665

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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.