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

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 seq...

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Veröffentlicht in:Molecular ecology Jg. 26; H. 21; S. 5872 - 5895
Hauptverfasser: Deiner, Kristy, Bik, Holly M., Mächler, Elvira, Seymour, Mathew, Lacoursière‐Roussel, Anaïs, Altermatt, Florian, Creer, Simon, Bista, Iliana, Lodge, David M., Vere, Natasha, Pfrender, Michael E., Bernatchez, Louis
Format: Journal Article
Sprache:Englisch
Veröffentlicht: England Blackwell Publishing Ltd 01.11.2017
Schlagworte:
Animals
Biodiversity
bioinformatic pipeline
bioinformatics
Biomonitoring
citizen science
conservation
Conservation of Natural Resources
Coupling (molecular)
data collection
Deoxyribonucleic acid
DNA
DNA barcoding
DNA Barcoding, Taxonomic - methods
DNA Primers
DNA sequencing
ecology
Ecology - methods
ecosystems
eDNA
education
Environmental DNA
Environmental Monitoring
experimental design
Filtration
freshwater
high-throughput nucleotide sequencing
invasive species
macro‐organism
Nucleotide sequence
Plant communities
Plants
Primers
Relative abundance
species diversity
Species richness
Surveying
surveys
Terrestrial environments
Workflow
bioinformatic pipeline
conservation
ecology
species richness
biomonitoring
macro-organism
citizen science
eDNA
invasive species
ISSN:0962-1083, 1365-294X, 1365-294X
Online-Zugang:Volltext
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Zusammenfassung: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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ISSN:0962-1083
1365-294X
1365-294X
DOI:10.1111/mec.14350