Evidence map›Paper›PMID 40329323›Full record

ArticleAnimal microbiome2025

Reveal your microbes, and i'll reveal your origins: geographical traceability via Scomber colias intestinal tract metagenomics.

Bernardo Duarte, Eduardo Feijão, Ana Cruz-Silva, Pedro Pascoal, Mónica Nunes, Marcelo Pereira, Andreia Figueiredo, Ricardo P Dias, Susanne E Tanner, Vanessa F Fonseca

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Animal microbiome, 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. 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.

Bernardo DuarteMARE-Marine and Environmental Sciences Centre & ARNET-Aquatic Research Infrastructure Network Associated Laboratory, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal. baduarte@fc.ul.pt.
Eduardo FeijãoMARE-Marine and Environmental Sciences Centre & ARNET-Aquatic Research Infrastructure Network Associated Laboratory, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Ana Cruz-SilvaMARE-Marine and Environmental Sciences Centre & ARNET-Aquatic Research Infrastructure Network Associated Laboratory, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Pedro PascoalcE3c-Center for Ecology, Evolution and Environmental Changes & CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Mónica NunescE3c-Center for Ecology, Evolution and Environmental Changes & CHANGE-Global Change and Sustainability Institute, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Marcelo PereiraBioISI-Instituto de Biossistemas e Ciências Integrativas, Departamento de Biologia Vegetal, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Andreia FigueiredoDepartamento de Biologia Vegetal, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Ricardo P DiasBioISI-Instituto de Biossistemas e Ciências Integrativas, Departamento de Biologia Vegetal, Faculdade de Ciências da Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Susanne E TannerMARE-Marine and Environmental Sciences Centre & ARNET-Aquatic Research Infrastructure Network Associated Laboratory, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.
Vanessa F FonsecaMARE-Marine and Environmental Sciences Centre & ARNET-Aquatic Research Infrastructure Network Associated Laboratory, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa, 1749-016, Portugal.

Funding

Fundação para a Ciência e a Tecnologia 2022.11260.BDFundação para a Ciência e a Tecnologia http://doi.org/10.54499/UIDB/04292/2020Fundação para a Ciência e a Tecnologia UI/BD/153050/2022
6 · The paper itself

Abstract

The commercial demand for small pelagic fish, such as Atlantic chub mackerel (Scomber colias), renders them susceptible to provenance fraud. Scomber colias specimens intestinal tract bacteriome from five distinct fishing areas along the Portuguese Atlantic coastline were analyzed by 4th-generation sequencing. Bacteria diversity indices and differential abundance revealed dissimilarities in operational taxonomic unit (OTU) abundance among specimens from distinct fishing sites. Random forest-based model yielded an 85% accuracy rate in attributing sample provenance based on intestinal tract bacteriome OTU relative abundance. Further refinement of microbial features using Indicator Species Analysis, Linear Discriminant Analysis Effect Size (LEfSe) and OTU Gini scores enabled the identification of 3-5 bacterial OTU location biomarkers per fishing site. The intestinal tract bacteriome revealed sequences linked to pathogenic bacteria, particularly in specimens from Center-North and Center-South fishing areas. While this doesn't imply active pathogens, it highlights potential public health concerns and complements efforts to improve seafood microbiological quality and traceability.

Indexed as

Atlantic Chub mackerelIntestinal tract metagenomicsProvenanceSmall pelagic fish speciesTraceability

Identifiers

PMID40329323
PMCPMC12054160

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.