The Promise and Pitfalls of Environmental DNA and RNA Approaches for the Monitoring of Human and Animal Pathogens from Aquatic Sources

Freshwater monitoring by nanopore sequencing

(2021) Lara Urban et al.   eLife

Molecular characterization of a marine turtle tumor epizootic, profiling external, internal and postsurgical regrowth tumors

(2021) Kelsey Yetsko et al.   Communications Biology

Environmental DNA reveals seasonal shifts and potential interactions in a marine community

(2020) Anni Djurhuus et al.   Nature Communications

Rapid and accurate species identification for ecological studies and monitoring using CRISPR‐based SHERLOCK

(2020) Melinda R. Baerwald et al.   Molecular Ecology Resources

Optimizing an eDNA protocol for estuarine environments: Balancing sensitivity, cost and time

(2020) Thiago M. Sanches et al.   PLoS One

Vertebrates on the brink as indicators of biological annihilation and the sixth mass extinction

(2020) Gerardo Ceballos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

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

(2020) Elias Broman et al.   MOLECULAR ECOLOGY

Executing multi-taxa eDNA ecological assessment via traditional metrics and interactive networks

(2020) Mathew Seymour et al.   SCIENCE OF THE TOTAL ENVIRONMENT

First confirmed detection of SARS-CoV-2 in untreated wastewater in Australia: A proof of concept for the wastewater surveillance of COVID-19 in the community

(2020) Warish Ahmed et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Computational analysis of SARS-CoV-2/COVID-19 surveillance by wastewater-based epidemiology locally and globally: Feasibility, economy, opportunities and challenges

(2020) Olga E. Hart et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Early SARS-CoV-2 outbreak detection by sewage-based epidemiology

(2020) Gorka Orive et al.   SCIENCE OF THE TOTAL ENVIRONMENT

A colorimetric RT-LAMP assay and LAMP-sequencing for detecting SARS-CoV-2 RNA in clinical samples

(2020) Viet Loan Dao Thi et al.   Science Translational Medicine

SARS-CoV-2 Titers in Wastewater Are Higher than Expected from Clinically Confirmed Cases

(2020) Fuqing Wu et al.   mSystems

An eDNA/eRNA‐based approach to investigate the life cycle of non‐cultivable shellfish micro‐parasites: the case of Bonamia ostreae , a parasite of the European flat oyster Ostrea edulis

(2020) Nicolas Mérou et al.   Microbial Biotechnology

Metropolitan wastewater analysis for COVID-19 epidemiological surveillance

(2020) Walter Randazzo et al.   INTERNATIONAL JOURNAL OF HYGIENE AND ENVIRONMENTAL HEALTH

Rapid isothermal amplification and portable detection system for SARS-CoV-2

(2020) Anurup Ganguli et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

First proof of the capability of wastewater surveillance for COVID-19 in India through detection of genetic material of SARS-CoV-2

(2020) Manish Kumar et al.   SCIENCE OF THE TOTAL ENVIRONMENT

Past, present, and future perspectives of environmental DNA (eDNA) metabarcoding: A systematic review in methods, monitoring, and applications of global eDNA

(2019) Krista M. Ruppert et al.   Global Ecology and Conservation

Beyond Biodiversity: Can Environmental DNA (eDNA) Cut It as a Population Genetics Tool?

(2019) Clare I.M. Adams et al.   Genes

Evaluating monitoring options for conservation: comparing traditional and environmental DNA tools for a critically endangered mammal

(2019) Chanjuan Qu et al.   NATURWISSENSCHAFTEN

Rangewide tidewater goby occupancy survey using environmental DNA

(2019) Michael Sutter et al.   CONSERVATION GENETICS

Monitoring a Norwegian freshwater crayfish tragedy:  eDNA snapshots of invasion, infection and extinction

(2019) David A. Strand et al.   JOURNAL OF APPLIED ECOLOGY

FLASH: a next-generation CRISPR diagnostic for multiplexed detection of antimicrobial resistance sequences

(2019) Jenai Quan et al.   NUCLEIC ACIDS RESEARCH

Sampling designs for landscape‐level eDNA monitoring programs

(2019) Richard A. Erickson et al.   Integrated Environmental Assessment and Management

eDNA Increases the Detectability of Ranavirus Infection in an Alpine Amphibian Population

(2019) Claude Miaud et al.   Viruses-Basel

Ancient DNA from marine sediments: Precautions and considerations for seafloor coring, sample handling and data generation

(2019) Linda H. Armbrecht et al.   EARTH-SCIENCE REVIEWS

Investigating the distribution of the Yangtze finless porpoise in the Yangtze River using environmental DNA

(2019) Yongkai Tang et al.   PLoS One

Can Environmental RNA Revolutionize Biodiversity Science?

(2019) Melania E. Cristescu   TRENDS IN ECOLOGY & EVOLUTION

Can environmental DNA be used for aquatic biosecurity in the aquarium fish trade?

(2019) A. Trujillo-González et al.   BIOLOGICAL INVASIONS

Environmental DNA size sorting and degradation experiment indicates the state of Daphnia magna mitochondrial and nuclear eDNA is subcellular

(2019) Rashnat Moushomi et al.   Scientific Reports

Detection of the European pond turtle (Emys orbicularis) by environmental DNA: is eDNA adequate for reptiles?

(2018) Matthieu Raemy et al.   AMPHIBIA-REPTILIA

Combined use of eDNA metabarcoding and video surveillance for the assessment of fish biodiversity

(2018) Michal Stat et al.   CONSERVATION BIOLOGY

Freshwater fisheries assessment using environmental DNA: A primer on the method, its potential, and shortcomings as a conservation tool

(2018) Nathan T. Evans et al.   FISHERIES RESEARCH

Loop-mediated isothermal amplification (LAMP): a versatile technique for detection of micro-organisms

(2018) Y.-P. Wong et al.   JOURNAL OF APPLIED MICROBIOLOGY

Performance of amplicon and shotgun sequencing for accurate biomass estimation in invertebrate community samples

(2018) Iliana Bista et al.   Molecular Ecology Resources

Environmental DNA illuminates the dark diversity of sharks

(2018) Germain Boussarie et al.   Science Advances

Estimating species distribution and abundance in river networks using environmental DNA

(2018) Luca Carraro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Environmental DNA: A New Low-Cost Monitoring Tool for Pathogens in Salmonid Aquaculture

(2018) Lucy Peters et al.   Frontiers in Microbiology

Parasitic protozoan interactions with bacterial microbiome in a tropical fish farm

(2018) Giana Bastos Gomes et al.   AQUACULTURE

Potential Noncutaneous Sites of Chelonid Herpesvirus 5 Persistence and Shedding in Green Sea Turtles Chelonia mydas

(2017) Annie Page-Karjian et al.   JOURNAL OF AQUATIC ANIMAL HEALTH

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

(2017) Kristy Deiner et al.   MOLECULAR ECOLOGY

One Health, emerging infectious diseases and wildlife: two decades of progress?

(2017) Andrew A. Cunningham et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Biomonitoring of marine vertebrates in Monterey Bay using eDNA metabarcoding

(2017) Elizabeth A. Andruszkiewicz et al.   PLoS One

Risk Analysis and Bioeconomics of Invasive Species to Inform Policy and Management

(2016) David M. Lodge et al.   Annual Review of Environment and Resources

Precision wildlife medicine: applications of the human-centred precision medicine revolution to species conservation

(2016) Jenny Whilde et al.   GLOBAL CHANGE BIOLOGY

Environmental DNA metabarcoding of lake fish communities reflects long-term data from established survey methods

(2016) Bernd Hänfling et al.   MOLECULAR ECOLOGY

Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding

(2016) Alice Valentini et al.   MOLECULAR ECOLOGY

Assessing the cost-efficiency of environmental DNA sampling

(2016) Adam S. Smart et al.   Methods in Ecology and Evolution

Critical considerations for the application of environmental DNA methods to detect aquatic species

(2016) Caren S. Goldberg et al.   Methods in Ecology and Evolution

The ecologist's field guide to sequence-based identification of biodiversity

(2016) Simon Creer et al.   Methods in Ecology and Evolution

Detection of Invasive Mosquito Vectors Using Environmental DNA (eDNA) from Water Samples

(2016) Judith Schneider et al.   PLoS One

Quantification of eDNA shedding rates from invasive bighead carp Hypophthalmichthys nobilis and silver carp Hypophthalmichthys molitrix

(2015) Katy E. Klymus et al.   BIOLOGICAL CONSERVATION

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

(2015) Philip Francis Thomsen et al.   BIOLOGICAL CONSERVATION

The ecology of environmental DNA and implications for conservation genetics

(2015) Matthew A. Barnes et al.   CONSERVATION GENETICS

Development and application of an eDNA method to detect and quantify a pathogenic parasite in aquatic ecosystems

(2015) J. R. Huver et al.   ECOLOGICAL APPLICATIONS

Fishing in the Water: Effect of Sampled Water Volume on Environmental DNA-Based Detection of Macroinvertebrates

(2015) Elvira Mächler et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

The downside of eDNA as a survey tool in water bodies

(2015) Jean-Marc Roussel et al.   JOURNAL OF APPLIED ECOLOGY

Quantifying chelonid herpesvirus 5 in symptomatic and asymptomatic rehabilitating green sea turtles

(2015) A Page-Karjian et al.   Endangered Species Research

History, applications, methodological issues and perspectives for the use environmental DNA (eDNA) in marine and freshwater environments

(2015) Edgardo E. Díaz-Ferguson et al.   REVISTA DE BIOLOGIA TROPICAL

Detection of invasive freshwater fish species using environmental DNA survey

(2014) Emre Keskin   BIOCHEMICAL SYSTEMATICS AND ECOLOGY

Environmental Conditions Influence eDNA Persistence in Aquatic Systems

(2014) Matthew A. Barnes et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Environmental DNA surveillance for invertebrate species: advantages and technical limitations to detect invasive crayfishProcambarus clarkiiin freshwater ponds

(2014) Anne Tréguier et al.   JOURNAL OF APPLIED ECOLOGY

REVIEW: The detection of aquatic animal species using environmental DNA - a review of eDNA as a survey tool in ecology

(2014) Helen C. Rees et al.   JOURNAL OF APPLIED ECOLOGY

Distance, flow and PCR inhibition: eDNA dynamics in two headwater streams

(2014) Stephen F. Jane et al.   Molecular Ecology Resources

Replication levels, false presences and the estimation of the presence/absence from eDNA metabarcoding data

(2014) Gentile F. Ficetola et al.   Molecular Ecology Resources

Transport Distance of Invertebrate Environmental DNA in a Natural River

(2014) Kristy Deiner et al.   PLoS One

Dynamics of Virus Shedding and In Situ Confirmation of Chelonid Herpesvirus 5 in Hawaiian Green Turtles With Fibropapillomatosis

(2014) T. M. Work et al.   VETERINARY PATHOLOGY

The application of eDNA for monitoring of the Great Crested Newt in the UK

(2014) Helen C. Rees et al.   Ecology and Evolution

Environmental DNA as a new method for early detection of New Zealand mudsnails (Potamopyrgus antipodarum)

(2013) Caren S. Goldberg et al.   Freshwater Science

Estimation of Fish Biomass Using Environmental DNA

(2012) Teruhiko Takahara et al.   PLoS One

Detection of a Diverse Marine Fish Fauna Using Environmental DNA from Seawater Samples

(2012) Philip Francis Thomsen et al.   PLoS One

Replacing Traditional Diagnostics of Fecal Viral Pathogens by a Comprehensive Panel of Real-Time PCRs

(2011) P. F. G. Wolffs et al.   JOURNAL OF CLINICAL MICROBIOLOGY

ecoPrimers: inference of new DNA barcode markers from whole genome sequence analysis

(2011) Tiayyba Riaz et al.   NUCLEIC ACIDS RESEARCH

“Sight-unseen” detection of rare aquatic species using environmental DNA

(2011) Christopher L. Jerde et al.   Conservation Letters

Second-generation environmental sequencing unmasks marine metazoan biodiversity

(2010) Vera G. Fonseca et al.   Nature Communications

Species detection using environmental DNA from water samples

(2008) G. F. Ficetola et al.   Biology Letters