Evidence map›Paper›PMID 40142426›Full record

ArticleMicroorganisms2025

Application of Amplicon Metagenomics to Identify Fungal Pathogens in Formalin-Fixed Paraffin-Embedded Samples: Proof of Concept in Animals with Fungal Pathologies.

David B Needle, Guillaume Reboul, Patrick K Mitchell, Derek Rothenheber, Nicholas J Marra, Brittany D Cronk, Neeti G Patel, Laura B Goodman

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Microorganisms, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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.

David B NeedleNew Hampshire Veterinary Diagnostic Laboratory, College of Life Sciences and Agriculture, University of New Hampshire, Durham, NH 03824, USA.ORCID 0000-0002-7215-5306
Guillaume ReboulDepartment of Public and Ecosystem Health, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.ORCID 0000-0002-6424-5176
Patrick K MitchellAnimal Health Diagnostic Center, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.
Derek RothenheberAnimal Health Diagnostic Center, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.ORCID 0000-0003-0580-6970
Nicholas J MarraDivision of Science, Mathematics and Technology, Governors State University, University Park, IL 60484, USA.
Brittany D CronkAnimal Health Diagnostic Center, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.ORCID 0000-0001-7239-4262
Neeti G PatelDepartment of Public and Ecosystem Health, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.
Laura B GoodmanDepartment of Public and Ecosystem Health, College of Veterinary Medicine, Cornell University, Ithaca, NY 14853, USA.ORCID 0000-0002-8327-3092

Funding

Development of antifungal drug resistance in the oral environment over the course of HIV infectionR03DE033304 · NIDCR · CORNELL UNIVERSITY · PI GOODMAN, LAURA BRUNENGRABER · 2024 to 2024
$314k
FDA HHS U18 FD006716NIDCR NIH HHS R03 DE033304NIH HHS 1R03DE033304-01A1US Food and Drug Administration's Veterinary Laboratory Investigation and Response Network (FDA Vet-LIRN) 1U18FD006716
6 · The paper itself

Abstract

The identification of fungal pathogens in formalin-fixed paraffin-embedded (FFPE) tissues is an unmet need in human and animal medicine, and sequence-agnostic approaches are needed to identify emerging pathogens. Eleven FFPE biopsy specimens with etiologic diagnoses of fungal disease based on standard testing of paired fresh tissue samples were utilized here to evaluate metabarcoding approaches. The cases included tissues from three dogs, three cats, one box turtle, one goat, one common loon, and one gray tree frog. The diagnoses from the fresh tissues in these cases were

Indexed as

bioinformaticsFFPE sequencingfungal diagnosismetabarcodingmolecular diagnostics

Identifiers

PMID40142426
PMCPMC11944450

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.