Environmental DNA for biomonitoring

Biotic signals associated with benthic impacts of salmon farms from eDNA metabarcoding of sediments

(2021) Xiaoping He et al.   MOLECULAR ECOLOGY

Testing small‐scale ecological gradients and intraspecific differentiation for hundreds of kelp forest species using haplotypes from metabarcoding

(2021) Peter Shum et al.   MOLECULAR ECOLOGY

How does molecular taxonomy for deriving river health indices correlate with traditional morphological taxonomy?

(2021) M.E. Shackleton et al.   ECOLOGICAL INDICATORS

Supervised machine learning is superior to indicator value inference in monitoring the environmental impacts of salmon aquaculture using eDNA metabarcodes

(2020) Larissa Frühe et al.   MOLECULAR ECOLOGY

Ecosystems monitoring powered by environmental genomics: a review of current strategies with an implementation roadmap

(2020) Tristan Cordier et al.   MOLECULAR ECOLOGY

Lost and found: frogs in a biodiversity hotspot rediscovered with environmental DNA

(2020) Carla Martins Lopes et al.   MOLECULAR ECOLOGY

The relationship between eDNA particle concentration and organism abundance in nature is strengthened by allometric scaling

(2020) M. C. Yates et al.   MOLECULAR ECOLOGY

A microbial mandala for environmental monitoring: Predicting multiple impacts on estuarine prokaryote communities of the Bay of Biscay

(2020) Anders Lanzén et al.   MOLECULAR ECOLOGY

Biases in bulk: DNA metabarcoding of marine communities and the methodology involved

(2020) Luna M. van der Loos et al.   MOLECULAR ECOLOGY

High throughput shotgun sequencing of eRNA reveals taxonomic and derived functional shifts across a benthic productivity gradient

(2020) Elias Broman et al.   MOLECULAR ECOLOGY

Estimating fish population abundance by integrating quantitative data on environmental DNA and hydrodynamic modelling

(2020) Keiichi Fukaya et al.   MOLECULAR ECOLOGY

Capturing open ocean biodiversity: comparing environmental DNA metabarcoding to the continuous plankton recorder

(2020) Leonie Suter et al.   MOLECULAR ECOLOGY

MiFish metabarcoding: a high-throughput approach for simultaneous detection of multiple fish species from environmental DNA and other samples

(2020) Masaki Miya et al.   FISHERIES SCIENCE

Environmental DNA: What's behind the term? Clarifying the terminology and recommendations for its future use in biomonitoring

(2020) Jan Pawlowski et al.   MOLECULAR ECOLOGY

Assessing the impact of the threatened crucian carp ( Carassius carassius ) on pond invertebrate diversity: A comparison of conventional and molecular tools

(2020) Lynsey R. Harper et al.   MOLECULAR ECOLOGY

Thermal stratification and fish thermal preference explain vertical eDNA distributions in lakes

(2020) Joanne E. Littlefair et al.   MOLECULAR ECOLOGY

Monitoring the ecological status of rivers with diatom eDNA metabarcoding: a comparison of taxonomic markers and analytical approaches for the inference of a molecular diatom index

(2020) Laure Apothéloz‐Perret‐Gentil et al.   MOLECULAR ECOLOGY

Using environmental DNA and occupancy modeling to estimate rangewide metapopulation dynamics

(2020) Chad Martel et al.   MOLECULAR ECOLOGY

Comparison of markers for the monitoring of freshwater benthic biodiversity through DNA metabarcoding

(2020) Gentile Francesco Ficetola et al.   MOLECULAR ECOLOGY

Modelling technical and biological biases in macroinvertebrate community assessment from bulk preservative using multiple metabarcoding markers

(2020) Filipa M. S. Martins et al.   MOLECULAR ECOLOGY

Marine biomonitoring with eDNA: Can metabarcoding of water samples cut it as a tool for surveying benthic communities?

(2020) Adrià Antich et al.   MOLECULAR ECOLOGY

Assessment of stream macroinvertebrate communities with eDNA is not congruent with tissue‐based metabarcoding

(2020) Jennifer Erin Gleason et al.   MOLECULAR ECOLOGY

Effects of soil preservation for biodiversity monitoring using environmental DNA

(2020) Alessia Guerrieri et al.   MOLECULAR ECOLOGY

Multispecies models reveal that eDNA metabarcoding is more sensitive than backpack electrofishing for conducting fish surveys in freshwater streams

(2020) Emily F. McColl‐Gausden et al.   MOLECULAR ECOLOGY

Benthic monitoring of oil and gas offshore platforms in the North Sea using environmental DNA metabarcoding

(2020) Florian Mauffrey et al.   MOLECULAR ECOLOGY

Environmental DNA effectively captures functional diversity of coastal fish communities

(2020) Giorgio Aglieri et al.   MOLECULAR ECOLOGY

Anthropogenic impact on the historical phytoplankton community of Lake Constance reconstructed by multimarker analysis of sediment‐core environmental DNA

(2020) Anan Ibrahim et al.   MOLECULAR ECOLOGY

A comprehensive and comparative evaluation of primers for metabarcoding eDNA from fish

(2020) Shan Zhang et al.   Methods in Ecology and Evolution

Morphological vs. DNA metabarcoding approaches for the evaluation of stream ecological status with benthic invertebrates: Testing different combinations of markers and strategies of data filtering

(2020) Albin Meyer et al.   MOLECULAR ECOLOGY

Decision‐making and best practices for taxonomy‐free environmental DNA metabarcoding in biomonitoring using Hill numbers

(2020) Elvira Mächler et al.   MOLECULAR ECOLOGY

Monitoring of spatiotemporal occupancy patterns of fish and amphibian species in a lentic aquatic system using environmental DNA

(2020) Rein Brys et al.   MOLECULAR ECOLOGY

Environmental DNA metabarcoding of cow dung reveals taxonomic and functional diversity of invertebrate assemblages

(2020) Eva Egelyng Sigsgaard et al.   MOLECULAR ECOLOGY

Leech blood‐meal invertebrate‐derived DNA reveals differences in Bornean mammal diversity across habitats

(2020) Rosie Drinkwater et al.   MOLECULAR ECOLOGY

DNA barcode reference libraries for the monitoring of aquatic biota in Europe: Gap-analysis and recommendations for future work

(2019) Hannah Weigand et al.   SCIENCE OF THE TOTAL ENVIRONMENT

The future of fish‐based ecological assessment of European rivers: from traditional EU Water Framework Directive compliant methods to eDNA metabarcoding‐based approaches

(2019) Didier Pont et al.   JOURNAL OF FISH BIOLOGY

From metabarcoding to metaphylogeography: separating the wheat from the chaff

(2019) Xavier Turon et al.   ECOLOGICAL APPLICATIONS

Supervised machine learning outperforms taxonomy-based environmental DNA metabarcoding applied to biomonitoring

(2018) Tristan Cordier et al.   Molecular Ecology Resources

The future of biotic indices in the ecogenomic era: Integrating (e)DNA metabarcoding in biological assessment of aquatic ecosystems

(2018) Jan Pawlowski et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Implementation options for DNA-based identification into ecological status assessment under the European Water Framework Directive

(2018) Daniel Hering et al.   WATER RESEARCH

Embracing Environmental Genomics and Machine Learning for Routine Biomonitoring

(2018) Tristan Cordier et al.   TRENDS IN MICROBIOLOGY

Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding

(2016) Alice Valentini et al.   MOLECULAR ECOLOGY

Environmental DNA – An emerging tool in conservation for monitoring past and present biodiversity

(2015) Philip Francis Thomsen et al.   BIOLOGICAL CONSERVATION

MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species

(2015) M. Miya et al.   Royal Society Open Science

Molecular diversity of Germany's freshwater fishes and lampreys assessed by DNA barcoding

(2014) Thomas Knebelsberger et al.   Molecular Ecology Resources

Environmental DNA for wildlife biology and biodiversity monitoring

(2014) Kristine Bohmann et al.   TRENDS IN ECOLOGY & EVOLUTION

Screening mammal biodiversity using DNA from leeches

(2012) Ida Bærholm Schnell et al.   CURRENT BIOLOGY

Biomonitoring 2.0: a new paradigm in ecosystem assessment made possible by next-generation DNA sequencing

(2012) DONALD J. BAIRD et al.   MOLECULAR ECOLOGY

Environmental DNA

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY