Evidence map›Paper›PMID 40800621›Full record

ArticleISME communications2025

Synthetic spike-in metabarcoding for plant pathogen diagnostics results in precise quantification of copy number within the genus

Peter Oppenheimer, Francesco Tini, Rebecca Whetten, Imane Laraba, Quentin Read, Briana Whitaker, Martha Vaughan, Giovanni Beccari, Lorenzo Covarelli, Christina Cowger

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in ISME communications, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing 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

1 citing paper in PubMed.

  1. Insights into the Species Diversity and Features of Fungi in theJournal of fungi (Basel, Switzerland) · 2026
    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

10 authors.

Peter OppenheimerDepartment of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC 27695-76162, United States.ORCID https://orcid.org/0000-0002-0589-466X
Francesco TiniDepartment of Agricultural, Food, and Environmental Sciences, University of Perugia, Perugia, Umbria 06121, Italy.ORCID https://orcid.org/0000-0002-6427-8234
Rebecca WhettenPlant Science Research Unit, Agricultural Research Service, United States Department of Agriculture, Raleigh, NC 27695, United States.ORCID https://orcid.org/0000-0002-3071-0930
Imane LarabaAgriculture and Agri-Food Canada, Ottawa, ON K1A 0C6, Canada.ORCID https://orcid.org/0000-0002-2118-8773
Quentin ReadSoutheast Area, Agricultural Research Service, United States Department of Agriculture, Raleigh, NC 27606, United States.ORCID https://orcid.org/0000-0003-4315-5582
Briana WhitakerMycotoxin Prevention and Applied Microbiology Unit, USDA-ARS National Center for Agricultural Utilization Research,  Peoria, IL 61604, United States.ORCID https://orcid.org/0000-0003-2522-9672
Martha VaughanMycotoxin Prevention and Applied Microbiology Unit, USDA-ARS National Center for Agricultural Utilization Research,  Peoria, IL 61604, United States.ORCID https://orcid.org/0000-0003-2121-2291
Giovanni BeccariDepartment of Agricultural, Food, and Environmental Sciences, University of Perugia, Perugia, Umbria 06121, Italy.ORCID https://orcid.org/0000-0002-9227-9023
Lorenzo CovarelliDepartment of Agricultural, Food, and Environmental Sciences, University of Perugia, Perugia, Umbria 06121, Italy.ORCID https://orcid.org/0000-0002-4568-6160
Christina CowgerDepartment of Entomology and Plant Pathology, North Carolina State University, Raleigh, NC 27695-76162, United States.ORCID https://orcid.org/0000-0001-6950-2541

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Synthetic spike-in metabarcoding (SSIM) assays generate quantitative next-generation sequencing (NGS) data, but are marred by inconsistency and have seen limited adoption. Previous efforts to develop SSIM assays have focused on the ITS and 16S rRNA genes. This study marks the first use of SSIM as a diagnostic assay to identify and quantify plant-pathogenic species within the genus

Indexed as

Fusarium diagnosticssynthetic spike-in metabarcodingtranslation elongation factor 1-α

Identifiers

PMID40800621
PMCPMC12342935

What OpenQuestion holds

Textmetadata
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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.