Quantifying biodiversity using eDNA from water bodies : general principles and recommendations for sampling designs

Altermatt, Florian; Carraro, Luca; Antonetti, Manuel; Albouy, Camille; Zhang, Yan; Lyet, Arnaud; Zhang, Xiaowei; Pellissier, Loïc

doi:10.1002/edn3.430

Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-27875

Publication type:	Article in scientific journal
Type of review:	Peer review (publication)
Title:	Quantifying biodiversity using eDNA from water bodies : general principles and recommendations for sampling designs
Authors:	Altermatt, Florian Carraro, Luca Antonetti, Manuel Albouy, Camille Zhang, Yan Lyet, Arnaud Zhang, Xiaowei Pellissier, Loïc
et. al:	No
DOI:	10.1002/edn3.430 10.21256/zhaw-27875
Published in:	Environmental DNA
Volume(Issue):	5
Issue:	4
Page(s):	671
Pages to:	682
Issue Date:	16-May-2023
Publisher / Ed. Institution:	Wiley
ISSN:	2637-4943
Language:	English
Subject (DDC):	333: Economics of land and resources 577: Ecology
Abstract:	Reliable and comparable estimates of biodiversity are the foundation for understanding ecological systems and informing policy and decision-making, especially in an era of massive anthropogenic impacts on biodiversity. Environmental DNA (eDNA) metabarcoding is at the forefront of technological advances in biodiversity monitoring, and the last few years have seen major progress and solutions to technical challenges from the laboratory to bioinformatics. Water eDNA has been shown to allow the fast and efficient recovery of biodiversity signals, but the rapid pace of technological development has meant that some important principles regarding sampling design, which are well established in traditional biodiversity inventories, have been neglected. Using a spatially explicit river flow model, we illustrate how sampling must be adjusted to the size of the watercourse to increase the quality of the biodiversity signal recovered. We additionally investigate the effect of sampling parameters (volume, number of sites, sequencing depth) on detection probability in an empirical data set. Based on traditional sampling principles, we propose that aquatic eDNA sampling replication and volume must be scaled to match the organisms' and ecosystems' properties to provide reliable biodiversity estimates. We present a generalizable conceptual equation describing sampling features as a function of the size of the ecosystem monitored, the abundance of target organisms, and the properties of the sequencing procedure. The aim of this formalization is to enhance the standardization of critical steps in the design of biodiversity inventory studies using eDNA. More robust sampling standards will generate more comparable biodiversity data from eDNA, which is necessary for the method's long-term plausibility and comparability.
URI:	https://digitalcollection.zhaw.ch/handle/11475/27875
Fulltext version:	Published version
License (according to publishing contract):	CC BY-NC 4.0: Attribution - Non commercial 4.0 International
Departement:	Life Sciences and Facility Management
Organisational Unit:	Institute of Natural Resource Sciences (IUNR)
Appears in collections:	Publikationen Life Sciences und Facility Management

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Altermatt, F., Carraro, L., Antonetti, M., Albouy, C., Zhang, Y., Lyet, A., Zhang, X., & Pellissier, L. (2023). Quantifying biodiversity using eDNA from water bodies : general principles and recommendations for sampling designs. Environmental DNA, 5(4), 671–682. https://doi.org/10.1002/edn3.430

Altermatt, F. et al. (2023) ‘Quantifying biodiversity using eDNA from water bodies : general principles and recommendations for sampling designs’, Environmental DNA, 5(4), pp. 671–682. Available at: https://doi.org/10.1002/edn3.430.

F. Altermatt et al., “Quantifying biodiversity using eDNA from water bodies : general principles and recommendations for sampling designs,” Environmental DNA, vol. 5, no. 4, pp. 671–682, May 2023, doi: 10.1002/edn3.430.

ALTERMATT, Florian, Luca CARRARO, Manuel ANTONETTI, Camille ALBOUY, Yan ZHANG, Arnaud LYET, Xiaowei ZHANG und Loïc PELLISSIER, 2023. Quantifying biodiversity using eDNA from water bodies : general principles and recommendations for sampling designs. Environmental DNA. 16 Mai 2023. Bd. 5, Nr. 4, S. 671–682. DOI 10.1002/edn3.430

Altermatt, Florian, Luca Carraro, Manuel Antonetti, Camille Albouy, Yan Zhang, Arnaud Lyet, Xiaowei Zhang, and Loïc Pellissier. 2023. “Quantifying Biodiversity Using eDNA from Water Bodies : General Principles and Recommendations for Sampling Designs.” Environmental DNA 5 (4): 671–82. https://doi.org/10.1002/edn3.430.

Altermatt, Florian, et al. “Quantifying Biodiversity Using eDNA from Water Bodies : General Principles and Recommendations for Sampling Designs.” Environmental DNA, vol. 5, no. 4, May 2023, pp. 671–82, https://doi.org/10.1002/edn3.430.