Metabarcoding provides accurate estimation of volumetric diet composition in a top predator despite interference from blocking primers

The study of diet is central to wildlife ecology, management and conservation. Metabarcoding enhanced the ability to identify species contributing to wildlife diets, and blocking primers can maximize prey detection. Relative read abundance (RRA) of different prey species has been used as semi-quantitative approach, assuming that RRA reflects species' contributions to diet. We tested accuracy of RRA in diet estimation by feeding captive wolves six different diets. We analyzed samples both without and with four blocking primer concentrations (5, 10, 15 and 20×). RRA provided a highly accurate representation of the overall dietary composition, with best results obtained without blocking primer (0.775 ± 0.033; P < 0.001; R<sup>2</sup> = 0.815). While the use of blocking the primer resulted in higher proportions of reads for diet items it did not increase the probability of detecting diet components. Moreover, the blocking primer led to increased detections of items not fed to wolves and produced slightly less accurate estimates of diet composition. Resampling indicated that sample sizes beyond 30 scats improved the accuracy of diet estimation. Our results are promising and support the use of metabarcoding to determine volumetric diet but caution and further research are necessary before extrapolating findings.

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Publication Details

Journal
Scientific Reports
Published
2025-08-08
DOI
https://doi.org/10.1038/s41598-025-14837-9
Primary Topic
Environmental DNA in Biodiversity Studies
Type
article
Field-Weighted Citation Impact
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article

Metabarcoding provides accurate estimation of volumetric diet composition in a top predator despite interference from blocking primers

Benjamín J. Gómez‐Moliner, María José Madeira, Efrén Fernández, Pablo Acebes et al.
Scientific Reports
Environmental DNA in Biodiversity Studies
article

Metabarcoding provides accurate estimation of volumetric diet composition in a top predator despite interference from blocking primers

Benjamín J. Gómez‐Moliner, María José Madeira, Efrén Fernández, Pablo Acebes, Xabier Cabodevilla, Jabi Zabala
article en

Abstract

The study of diet is central to wildlife ecology, management and conservation. Metabarcoding enhanced the ability to identify species contributing to wildlife diets, and blocking primers can maximize prey detection. Relative read abundance (RRA) of different prey species has been used as semi-quantitative approach, assuming that RRA reflects species' contributions to diet. We tested accuracy of RRA in diet estimation by feeding captive wolves six different diets. We analyzed samples both without and with four blocking primer concentrations (5, 10, 15 and 20×). RRA provided a highly accurate representation of the overall dietary composition, with best results obtained without blocking primer (0.775 ± 0.033; P < 0.001; R<sup>2</sup> = 0.815). While the use of blocking the primer resulted in higher proportions of reads for diet items it did not increase the probability of detecting diet components. Moreover, the blocking primer led to increased detections of items not fed to wolves and produced slightly less accurate estimates of diet composition. Resampling indicated that sample sizes beyond 30 scats improved the accuracy of diet estimation. Our results are promising and support the use of metabarcoding to determine volumetric diet but caution and further research are necessary before extrapolating findings.

Scientific ReportsVol. 15(1)
University of the Basque Country (ES), Forest Science and Technology Centre of Catalonia (ES), Gobierno de Navarra (ES), Universidad Autónoma de Madrid (ES)
Comunidad de Madrid, European Commission, Eusko Jaurlaritza, Ministerio de Ciencia e Innovación, Agencia Estatal de Investigación
Life in Land
Openalex Percentile: Top 80%
Environmental DNA in Biodiversity Studies
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