Evidence map›Paper›PMID 40700354›Full record

ArticleThe Journal of clinical investigation2025

Prophage-encoded methyltransferase drives adaptation of community-acquired methicillin-resistant Staphylococcus aureus.

Robert J Ulrich, Magdalena Podkowik, Rebecca Tierce, Irnov Irnov, Gregory Putzel, Nora M Samhadaneh, Keenan A Lacey, Daiane Boff, Sabrina M Morales, Sohei Makita and 9 more

Abstract read
In one paragraph

Article in The Journal of clinical investigation, 2025. 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. Prophages in Skin Pathogens: From Virulence to Therapy.Pathogens (Basel, Switzerland) · 2026
    Review
  3. Article
  4. Review
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

19 authors.

Robert J UlrichDepartment of Medicine and.
Magdalena PodkowikDepartment of Medicine and.
Rebecca TierceDivision of Comparative Medicine, NYU Langone Health, New York, New York, USA.
Irnov IrnovDepartment of Microbiology.
Gregory PutzelAntimicrobial-Resistant Pathogens Program, New York University (NYU) Grossman School of Medicine, New York, New York, USA.
Nora M SamhadanehAntimicrobial-Resistant Pathogens Program, New York University (NYU) Grossman School of Medicine, New York, New York, USA.
Keenan A LaceyDepartment of Microbiology.
Daiane BoffDepartment of Microbiology.
Sabrina M MoralesDepartment of Medicine and.
Sohei MakitaDepartment of Pathology, and.
Theodora K KaragounisRonald O. Perelman Department of Dermatology, NYU Grossman School of Medicine, New York, New York, USA.
Erin E ZwackDepartment of Microbiology.
Chunyi ZhouDepartment of Microbiology.
Randie H KimRonald O. Perelman Department of Dermatology, NYU Grossman School of Medicine, New York, New York, USA.
Karl DrlicaDepartment of Microbiology, Biochemistry & Molecular Genetics, New Jersey Medical School, Rutgers University, Newark, New Jersey, USA.
Alejandro PirontiAntimicrobial-Resistant Pathogens Program, New York University (NYU) Grossman School of Medicine, New York, New York, USA.
Harm van BakelDepartment of Genetics and Genomic Sciences.
Victor J TorresAntimicrobial-Resistant Pathogens Program, New York University (NYU) Grossman School of Medicine, New York, New York, USA.
Bo ShopsinDepartment of Medicine and.

Funding

Vaccine FacilityP30CA016087 · NCI · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI MARK Reid PHILIPS · 1985 to 2026
$83.1M
Conduits: Mount Sinai Health System Translational Science HubUL1TR004419 · NCATS · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI Rosalind J Wright · 2022 to 2026
$46.4M
NRSA Training CoreTL1TR001447 · NCATS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI MICOLI, KEITH J. · 2015 to 2025
$5.9M
Mechanisms of MRSA intestinal colonizationR01AI140754 · NIAID · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI SHOPSIN, BO · 2020 to 2024
$3.5M
Host-pathogen interactions during hospital adaptation of MRSAR01AI137336 · NIAID · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI SHOPSIN, BO, YANAI, ITAI · 2019 to 2022
$3.3M
Cutaneous Biology and Skin Disease Training ProgramT32AR064184 · NIAMS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI ORLOW, SETH J. · 2014 to 2024
$2.1M
COVID and Translational Science supercomputer (CATS)S10OD030463 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI KOVATCH, PATRICIA · 2021 to 2021
$2.0M
Big Omics Data Engine 2 SupercomputerS10OD026880 · OD · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI KOVATCH, PATRICIA · 2019 to 2019
$2.0M
Scanning Electron Microscope with 3ViewS10OD019974 · OD · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI LIANG, FENGXIA · 2016 to 2016
$1.1M
Mechanisms of Prophage-Mediated Virulence Driving Community-Acquired MRSA ContagionK08AI163457 · NIAID · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI ULRICH, ROBERT JAMES · 2021 to 2025
$989k
Acquisition of an Orbitrap Elite Mass Spectrometer with ETDS10OD010582 · OD · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI UEBERHEIDE, BEATRIX MAGDALENA · 2013 to 2013
$600k
Contributions of gastrointestinal Staphylococcus aureus and other gut microbiota to pediatric atopic dermatitisK08AR084045 · NIAMS · NEW YORK UNIVERSITY SCHOOL OF MEDICINE · PI Theodora Katerina Karagounis · 2024 to 2026
$516k
NCATS NIH HHS TL1 TR001447NCATS NIH HHS UL1 TR004419NCI NIH HHS P30 CA016087NIAID NIH HHS K08 AI163457NIAID NIH HHS R01 AI137336NIAID NIH HHS R01 AI140754NIAMS NIH HHS K08 AR084045NIAMS NIH HHS T32 AR064184NIH HHS S10 OD010582NIH HHS S10 OD019974NIH HHS S10 OD026880NIH HHS S10 OD030463
6 · The paper itself

Abstract

We recently described the evolution of a community-acquired methicillin-resistant Staphylococcus aureus (CA-MRSA) USA300 variant responsible for an outbreak of skin and soft tissue infections. Acquisition of a mosaic version of the Φ11 prophage (mΦ11) that increases skin abscess size was an early step in CA-MRSA adaptation that primed the successful spread of the clone. The present study shows how prophage mΦ11 exerts its effect on virulence for skin infection without encoding known toxin or fitness genes. Abscess size and skin inflammation were associated with DNA methylase activity of an mΦ11-encoded adenine methyltransferase (designated pamA). pamA increased expression of fibronectin-binding protein A (fnbA; FnBPA), and inactivation of fnbA eliminated the effect of pamA on abscess virulence without affecting strains lacking pamA. Thus, fnbA is a pamA-specific virulence factor. Mechanistically, pamA was shown to promote biofilm formation in vivo in skin abscesses, a phenotype linked to FnBPA's role in biofilm formation. Collectively, these data reveal a critical mechanism - epigenetic regulation of staphylococcal gene expression - by which phage can regulate virulence to drive adaptive leaps by S. aureus.

Indexed as

Community-Acquired InfectionsMethicillin-Resistant Staphylococcus aureusMethyltransferasesProphagesSite-Specific DNA-Methyltransferase (Adenine-Specific)Staphylococcal Skin InfectionsViral ProteinsAbscessAdaptation, PhysiologicalAdhesins, BacterialAnimalsBacterial ProteinsBiofilmsHumansMiceVirulenceAdhesins, BacterialBacterial ProteinsMethyltransferasesSite-Specific DNA-Methyltransferase (Adenine-Specific)Viral ProteinsVirulence FactorsBacterial infectionsEpigeneticsInfectious diseaseMicrobiologyMolecular biology

Identifiers

PMID40700354
PMCPMC12435837

What OpenQuestion holds

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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.