RT Journal Article
SR Electronic
T1 A validation scale to determine the readiness of environmental DNA assays for routine species monitoring
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.04.27.063990
DO 10.1101/2020.04.27.063990
A1 Bettina Thalinger
A1 Kristy Deiner
A1 Lynsey R. Harper
A1 Helen C. Rees
A1 Rosetta C. Blackman
A1 Daniela Sint
A1 Michael Traugott
A1 Caren S. Goldberg
A1 Kat Bruce
YR 2021
UL http://biorxiv.org/content/early/2021/02/03/2020.04.27.063990.abstract
AB The use of environmental DNA (eDNA) analysis for species monitoring requires rigorous validation - from field sampling to the analysis of PCR-based results - for meaningful application and interpretation. Assays targeting eDNA released by individual species are typically validated with no predefined criteria to answer specific research questions in one ecosystem. Hence, the general applicability of assays as well as associated uncertainties and limitations, often remain undetermined. The absence of clear guidelines for assay validation prevents targeted eDNA assays from being incorporated into species monitoring and policy; thus, their establishment is essential for realizing the potential of eDNA-based surveys. We describe the measures and tests necessary for successful validation of targeted eDNA assays and the associated pitfalls to form the basis of guidelines. A list of 122 variables was compiled, consolidated into 14 thematic blocks, (e.g. “in silico analysis”), and arranged on a 5-level validation scale from “incomplete” to “operational” with defined minimum validation criteria for each level. These variables were evaluated for 546 published single-species assays. The resulting dataset was used to provide an overview of current validation practices and test the applicability of the validation scale for future assay rating. Of the 122 variables, 20% to 76% were reported; the majority (30%) of investigated assays were classified as Level 1 (incomplete), and 15% did not achieve this first level. These assays were characterised by minimal in silico and in vitro testing, but their share in annually published eDNA assays has declined since 2014. The meta-analysis demonstrates the suitability of the 5-level validation scale for assessing targeted eDNA assays. It is a user-friendly tool to evaluate previously published assays for future research and routine monitoring, while also enabling the appropriate interpretation of results. Finally, it provides guidance on validation and reporting standards for newly developed assays.Competing Interest StatementKB is the co-founder and CEO of Nature Metrics Ltd. a for profit company dedicated to the analysis of environmental DNA. HCR manages environmental DNA services for RSK ADAS Ltd. a for profit environmental consultancy. DS and MT are co-founders of Sinsoma GmbH. a for profit company dedicated to the analysis of environmental DNA.