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Environmental DNA metabarcoding: Transforming how we survey animal and plant communities

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Deiner, Kristy, Bik, Holly M., Mächler, Elvira, Seymour, Mathew, Lacoursière‐Roussel, Anaïs, Altermatt, Florian, Creer, Simon, Bista, Iliana, Lodge, David M., de Vere, Natasha, Pfrender, Michael E., Bernatchez, Louis·2017·Molecular Ecology

DOI 10.1111/mec.14350

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Abstract

The genomic revolution has fundamentally changed how we survey biodiversity on earth. High‐throughput sequencing (“HTS”) platforms now enable the rapid sequencing of DNA from diverse kinds of environmental samples (termed “environmental DNA” or “eDNA”). Coupling HTS with our ability to associate sequences from eDNA with a taxonomic name is called “eDNA metabarcoding” and offers a powerful molecular tool capable of noninvasively surveying species richness from many ecosystems. Here, we review the use of eDNA metabarcoding for surveying animal and plant richness, and the challenges in using eDNA approaches to estimate relative abundance. We highlight eDNA applications in freshwater, marine and terrestrial environments, and in this broad context, we distill what is known about the ability of different eDNA sample types to approximate richness in space and across time. We provide guiding questions for study design and discuss the eDNA metabarcoding workflow with a focus on primers and library preparation methods. We additionally discuss important criteria for consideration of bioinformatic filtering of data sets, with recommendations for increasing transparency. Finally, looking to the future, we discuss emerging applications of eDNA metabarcoding in ecology, conservation, invasion biology, biomonitoring, and how eDNA metabarcoding can empower citizen science and biodiversity education.

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How genomics can help biodiversity conservation
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Pond ecology and conservation: research priorities and knowledge gaps
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Background
Environmental DNA metabarcoding read numbers and their variability predict species abundance, but weakly in non‐dominant species
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See all 1,918

Authors: Deiner, K., Bik, H. M., Mächler, E., Seymour, M., Lacoursière‐Roussel, A., Altermatt, F., Creer, S., Bista, I., Lodge, D. M., de Vere, N., Pfrender, M. E., & Bernatchez, L.
Venue: Molecular Ecology
Publisher: Wiley
Published: 2017-10-26
Volume: 26
Issue: 21
Pages: 5872-5895
ISSN: 0962-1083 (ISSN-L)
1365-294X
DOI: 10.1111/mec.14350
OpenAlex: W2754769271
Cited by: 1,918
References: 11
FWCI: 76.95
Type: journal article
Language: en
Open access: hybrid
Licence: creativecommons.org/licenses/by/4.0/ (am)
creativecommons.org/licenses/by/4.0/ (vor)
doi.wiley.com/10.1002/tdm_license_1.1 (tdm)
creativecommons.org/licenses/by/4.0/ (am, 365 d)
Funders: U.S. Department of Defense (W912HQ‐12‐C‐0073 (RC‐2240), W912HQ-12-C-0073 (RC-2240))
National Oceanic and Atmospheric Administration
National Science Foundation (EF‐1427157, DBI‐1262480, EF-1427157, DBI-1262480)
European Cooperation in Science and Technology (CA15219)
Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (PP00P3_150698)
Natural Environment Research Council (NBAF824 2013‐14, NE/N003756/1, NE/N006216/1, NBAF824 2013-14)
Knowledge Economy Skills Scholarship

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Environmental DNA metabarcoding: Transforming how we survey animal and plant communities

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