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尽管受到封闭引物的干扰,代谢条形码技术仍能准确估计顶级捕食者的食物组成体积。

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

作者信息

Zabala Jabi, Acebes Pablo, Madeira María J, Fernández Efrén, Gómez-Moliner Benjamín Juan, Cabodevilla Xabier

机构信息

Department of Zoology and Animal Cell Biology, University of the Basque Country UPV/EHU, C/Paseo de la Universidad 7, Basque Country, 01006, Vitoria-Gasteiz, Álava-Araba, Spain.

Terrestrial Ecology Group (TEG-UAM), Department of Ecology, Universidad Autónoma de Madrid, 28049, Madrid, Spain.

出版信息

Sci Rep. 2025 Aug 8;15(1):29033. doi: 10.1038/s41598-025-14837-9.

DOI:10.1038/s41598-025-14837-9
PMID:40781171
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12334639/
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 = 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.

摘要

饮食研究是野生动物生态学、管理和保护的核心内容。代谢条形码技术增强了识别构成野生动物饮食的物种的能力,而阻断引物可以最大限度地提高猎物检测率。不同猎物物种的相对读取丰度(RRA)已被用作半定量方法,假设RRA反映了物种对饮食的贡献。我们通过给圈养的狼喂食六种不同的食物来测试RRA在饮食估计中的准确性。我们分析了不使用阻断引物和使用四种阻断引物浓度(5、10、15和20×)的样本。RRA能够高度准确地反映总体饮食组成,不使用阻断引物时效果最佳(0.775±0.033;P<0.001;R=0.815)。虽然使用阻断引物会使饮食项目的读取比例更高,但它并没有增加检测到饮食成分的概率。此外,阻断引物导致未喂给狼的项目检测增加,并且对饮食组成的估计准确性略有降低。重采样表明,超过30个粪便样本的样本量提高了饮食估计的准确性。我们的结果很有前景,支持使用代谢条形码技术来确定体积饮食,但在推断研究结果之前,需要谨慎并进一步研究。

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Otterly delicious: Spatiotemporal variation in the diet of a recovering population of Eurasian otters () revealed through DNA metabarcoding and morphological analysis of prey remains.绝对美味:通过对猎物残骸的DNA宏条形码分析和形态学分析揭示欧亚水獭()恢复种群饮食的时空变化。
Ecol Evol. 2023 May 10;13(5):e10038. doi: 10.1002/ece3.10038. eCollection 2023 May.
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Using DNA metabarcoding and a novel canid-specific blocking oligonucleotide to investigate the composition of animal diets of raccoon dogs (Nyctereutes procyonoides) inhabiting the waterside area in Korea.
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PLoS One. 2022 Jul 25;17(7):e0271118. doi: 10.1371/journal.pone.0271118. eCollection 2022.
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Simultaneous analysis of the intestinal parasites and diet through eDNA metabarcoding.通过 eDNA 宏条形码技术同时分析肠道寄生虫和饮食。
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