Evidence map›Paper›PMID 38111822›Full record

ArticlePNAS nexus2023

Rapid assessment of changes in phage bioactivity using dynamic light scattering.

Tejas Dharmaraj, Michael J Kratochvil, Julie D Pourtois, Qingquan Chen, Maryam Hajfathalian, Aviv Hargil, Yung-Hao Lin, Zoe Evans, Agnès Oromí-Bosch, Joel D Berry and 10 more

Erratum issuedOpen access · goldAbstract read
In one paragraph

Article in PNAS nexus, 2023. 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 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing papers in PubMed
5.0field-weighted citation impact, top 5% of its field
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

13 citing papers in PubMed, 20 citations in OpenAlex.

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4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

20 authors at 5 institutions in 3 countries.

Tejas DharmarajDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.ORCID https://orcid.org/0000-0002-5305-9968
Michael J KratochvilDepartment of Materials Science and Engineering, Stanford University, Stanford, CA 94305, USA.ORCID https://orcid.org/0000-0002-8845-2524
Julie D PourtoisDepartment of Biology, Hopkins Marine Station, Stanford University, Pacific Grove, CA 93950, USA.ORCID https://orcid.org/0000-0002-6939-2909
Qingquan ChenDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.
Maryam HajfathalianDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.
Aviv HargilDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.
Yung-Hao LinDepartment of Chemical Engineering, Stanford University, Stanford, CA 94305, USA.ORCID https://orcid.org/0009-0005-5318-6851
Zoe EvansDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.ORCID https://orcid.org/0009-0001-3390-7851
Agnès Oromí-BoschFelix Biotechnology, South SanFrancisco, CA 94080, USA.
Joel D BerryFelix Biotechnology, South SanFrancisco, CA 94080, USA.
Robert McBrideFelix Biotechnology, South SanFrancisco, CA 94080, USA.
Naomi L HaddockDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.
Derek R HolmanDivision of Gastroenterology and Hepatology, Department of Medicine, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID https://orcid.org/0000-0002-3482-832X
Jonas D van BelleghemDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.ORCID https://orcid.org/0000-0003-0002-024X
Tony H ChangDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.ORCID https://orcid.org/0000-0003-4227-6163
Jeremy J BarrSchool of Biological Sciences, Monash University, Clayton, VIC 3800, Australia.ORCID https://orcid.org/0000-0001-5603-5294
Rob LavigneDepartment of Biosystems, KU Leuven, Leuven 3001, Belgium.ORCID https://orcid.org/0000-0001-7377-1314
Sarah C HeilshornDepartment of Materials Science and Engineering, Stanford University, Stanford, CA 94305, USA.ORCID https://orcid.org/0000-0002-9801-6304
Francis G BlankenbergDivision of Pediatric Radiology and Nuclear Medicine, Department of Radiology, Lucile Packard Children's Hospital, Stanford, CA 94305, USA.
Paul L BollykyDivision of Infectious Diseases and Geographic Medicine, Department of Medicine, Stanford University School of Medicine, Beckman Center for Molecular and Genetic Medicine, Stanford, CA 94305, USA.ORCID https://orcid.org/0000-0003-2499-9448
Stanford University · USKU Leuven · BELucile Packard Children's Hospital · USMonash University · AUPacific University · US

Funding

MEDICAL SCIENTIST TRAINING PROGRAMT32GM007365 · NIGMS · STANFORD UNIVERSITY · PI CHUA, KATRIN F · 1985 to 2021
$33.8M
The role of macrophages in chronic suppurative otitis media associated sensory hearing lossR01DC019965 · NIDCD · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI Peter Luke Santa Maria · 2022 to 2026
$3.6M
Stanford ChEM-H Chemistry/Biology Interface Predoctoral Training ProgramT32GM139791 · NIGMS · STANFORD UNIVERSITY · PI Carolyn Bertozzi, Christine Jacobs-Wagner · 2021 to 2026
$2.4M
Pathogenesis of Pf Bacteriophages in Pseudomonas Cystic Fibrosis lung InfectionsR01HL148184 · NHLBI · STANFORD UNIVERSITY · PI MILLA, CARLOS · 2019 to 2022
$1.7M
Studies on bacteriophages in respiratory diseasesK24AI166718 · NIAID · STANFORD UNIVERSITY · PI Paul L Bollyky · 2022 to 2026
$815k
Biofilms and Bacteriophages in Chronic Wound InfectionsR21AI133370 · NIAID · STANFORD UNIVERSITY · PI BOLLYKY, PAUL L · 2017 to 2017
$319k
NHLBI NIH HHS R01 HL148184NIAID NIH HHS K24 AI166718NIAID NIH HHS R21 AI133370NIDCD NIH HHS R01 DC019965NIGMS NIH HHS T32 GM007365NIGMS NIH HHS T32 GM139791
6 · The paper itself

Abstract

Extensive efforts are underway to develop bacteriophages as therapies against antibiotic-resistant bacteria. However, these efforts are confounded by the instability of phage preparations and a lack of suitable tools to assess active phage concentrations over time. In this study, we use dynamic light scattering (DLS) to measure changes in phage physical state in response to environmental factors and time, finding that phages tend to decay and form aggregates and that the degree of aggregation can be used to predict phage bioactivity. We then use DLS to optimize phage storage conditions for phages from human clinical trials, predict bioactivity in 50-y-old archival stocks, and evaluate phage samples for use in a phage therapy/wound infection model. We also provide a web application (Phage-Estimator of Lytic Function) to facilitate DLS studies of phages. We conclude that DLS provides a rapid, convenient, and nondestructive tool for quality control of phage preparations in academic and commercial settings.

Indexed as

aggregationbacteriophage decaybacteriophage therapydynamic light scattering

Identifiers

PMID38111822
PMCPMC10726995
OpenAlexW4389037374

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.