Enhancing tropical conservation and ecology research with aquatic environmental DNA methods: an introduction for non-environmental DNA specialists

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

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

DNA metabarcoding—Need for robust experimental designs to draw sound ecological conclusions

(2019) Lucie Zinger et al.   MOLECULAR ECOLOGY

Citizen warnings and post checkout molecular confirmations using eDNA as a combined strategy for updating invasive species distributions

(2018) Marina Parrondo et al.   JOURNAL FOR NATURE CONSERVATION

Environmental DNA (eDNA) applications for the conservation of imperiled crayfish (Decapoda: Astacidea) through monitoring of invasive species barriers and relocated populations

(2018) Dominique A Cowart et al.   JOURNAL OF CRUSTACEAN BIOLOGY

The challenges and promises of genetic approaches for ballast water management

(2018) Anaïs Rey et al.   JOURNAL OF SEA RESEARCH

How does marker choice affect your diet analysis: comparing genetic markers and digestion levels for diet metabarcoding of tropical-reef piscivores

(2018) Floriaan Devloo-Delva et al.   MARINE AND FRESHWATER RESEARCH

Towards robust and repeatable sampling methods in eDNA-based studies

(2018) Ian A. Dickie et al.   Molecular Ecology Resources

Capture enrichment of aquatic environmental DNA: A first proof of concept

(2018) Taylor M. Wilcox et al.   Molecular Ecology Resources

Shedding light on eDNA: neither natural levels of UV radiation nor the presence of a filter feeder affect eDNA-based detection of aquatic organisms

(2018) Elvira Mächler et al.   PLoS One

Seasonal variability in the persistence of dissolved environmental DNA (eDNA) in a marine system: The role of microbial nutrient limitation

(2018) Ian Salter   PLoS One

Degradation and dispersion limit environmental DNA detection of rare amphibians in wetlands: Increasing efficacy of sampling designs

(2018) Caren S. Goldberg et al.   SCIENCE OF THE TOTAL ENVIRONMENT

ANDe™ : A fully integrated environmental DNA sampling system

(2018) Austen C. Thomas et al.   Methods in Ecology and Evolution

Environmental DNA filtration techniques affect recovered biodiversity

(2018) Markus Majaneva et al.   Scientific Reports

Surveys of environmental DNA (eDNA): a new approach to estimate occurrence in Vulnerable manatee populations

(2018) ME Hunter et al.   Endangered Species Research

Environmental DNA illuminates the dark diversity of sharks

(2018) Germain Boussarie et al.   Science Advances

eDNA detection of corallivorous seastar (Acanthaster cf. solaris) outbreaks on the Great Barrier Reef using digital droplet PCR

(2018) Sven Uthicke et al.   CORAL REEFS

Simulating the Advection and Degradation of the Environmental DNA of Common Carp along a River

(2018) Kei Nukazawa et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Accuracy, limitations and cost efficiency of eDNA-based community survey in tropical frogs

(2018) Miklós Bálint et al.   Molecular Ecology Resources

Integrating complementary methods to improve diet analysis in fishery-targeted species

(2018) Jordan K. Matley et al.   Ecology and Evolution

Accounting for observation processes across multiple levels of uncertainty improves inference of species distributions and guides adaptive sampling of environmental DNA

(2018) Amy J. Davis et al.   Ecology and Evolution

Early detection monitoring for aquatic non-indigenous species: Optimizing surveillance, incorporating advanced technologies, and identifying research needs

(2017) Anett S. Trebitz et al.   JOURNAL OF ENVIRONMENTAL MANAGEMENT

Quantifying larvae of the coralivorous seastar Acanthaster cf. solaris on the Great Barrier Reef using qPCR

(2017) Jason R. Doyle et al.   MARINE BIOLOGY

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

(2017) Kristy Deiner et al.   MOLECULAR ECOLOGY

eDNA metabarcoding: a promising method for anuran surveys in highly diverse tropical forests

(2017) Carla M. Lopes et al.   Molecular Ecology Resources

Carrion fly-derived DNA metabarcoding is an effective tool for mammal surveys: Evidence from a known tropical mammal community

(2017) Torrey W. Rodgers et al.   Molecular Ecology Resources

GenBank

(2017) Dennis A Benson et al.   NUCLEIC ACIDS RESEARCH

Does Biodiversity–Ecosystem Function Literature Neglect Tropical Ecosystems?

(2017) David A. Clarke et al.   TRENDS IN ECOLOGY & EVOLUTION

Next-Generation Global Biomonitoring: Large-scale, Automated Reconstruction of Ecological Networks

(2017) David A. Bohan et al.   TRENDS IN ECOLOGY & EVOLUTION

Ecosystem biomonitoring with eDNA: metabarcoding across the tree of life in a tropical marine environment

(2017) Michael Stat et al.   Scientific Reports

Non-invasive genetic monitoring involving citizen science enables reconstruction of current pack dynamics in a re-establishing wolf population

(2017) Hanna Granroth-Wilding et al.   BMC ECOLOGY

Environmental DNA reflects spatial and temporal jellyfish distribution

(2017) Toshifumi Minamoto et al.   PLoS One

Environmental DNA Detection of the Golden Tree Frog (Phytotriades auratus) in Bromeliads

(2017) Jack D. Torresdal et al.   PLoS One

Clearing muddied waters: Capture of environmental DNA from turbid waters

(2017) Kelly E. Williams et al.   PLoS One

Isothermal amplification of environmental DNA (eDNA) for direct field-based monitoring and laboratory confirmation of Dreissena sp.

(2017) Maggie R. Williams et al.   PLoS One

A systematic approach to evaluate the influence of environmental conditions on eDNA detection success in aquatic ecosystems

(2017) Bernhard C. Stoeckle et al.   PLoS One

Wanted dead or alive? Using metabarcoding of environmental DNA and RNA to distinguish living assemblages for biosecurity applications

(2017) Xavier Pochon et al.   PLoS One

Environmental DNA reveals tropical shark diversity in contrasting levels of anthropogenic impact

(2017) Judith Bakker et al.   Scientific Reports

Increasing geographic diversity in the international conservation literature: A stalled process?

(2016) Christos Mammides et al.   BIOLOGICAL CONSERVATION

Active and passive environmental DNA surveillance of aquatic invasive species

(2016) Megan Simmons et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

The use of environmental DNA of fishes as an efficient method of determining habitat connectivity

(2016) Hiroki Yamanaka et al.   ECOLOGICAL INDICATORS

Effects of Temperature and Trophic State on Degradation of Environmental DNA in Lake Water

(2016) Jessica J. Eichmiller et al.   ENVIRONMENTAL SCIENCE & TECHNOLOGY

Fecal metagenomics for the simultaneous assessment of diet, parasites, and population genetics of an understudied primate

(2016) Amrita Srivathsan et al.   Frontiers in Zoology

Field calibration of blowfly-derived DNA against traditional methods for assessing mammal diversity in tropical forests

(2016) Ping-Shin Lee et al.   GENOME

Modelling the transport of environmental DNA through a porous substrate using continuous flow-through column experiments

(2016) Arial J. Shogren et al.   Journal of the Royal Society Interface

Aquatic biodiversity assessment for the lazy

(2016) Constanze Hoffmann et al.   MOLECULAR ECOLOGY

Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding

(2016) Alice Valentini et al.   MOLECULAR ECOLOGY

Fine-tuning for the tropics: application of eDNA technology for invasive fish detection in tropical freshwater ecosystems

(2016) Heather L. A. Robson et al.   Molecular Ecology Resources

How to limit false positives in environmental DNA and metabarcoding?

(2016) Gentile Francesco Ficetola et al.   Molecular Ecology Resources

Real-time, portable genome sequencing for Ebola surveillance

(2016) Joshua Quick et al.   NATURE

Comparison of capture and storage methods for aqueous macrobial eDNA using an optimized extraction protocol: advantage of enclosed filter

(2016) Johan Spens et al.   Methods in Ecology and Evolution

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

Environmental DNA detects Critically Endangered largetooth sawfish in the wild

(2016) CA Simpfendorfer et al.   Endangered Species Research

Trails of river monsters: Detecting critically endangered Mekong giant catfish Pangasianodon gigas using environmental DNA

(2016) Bellemain Eva et al.   Global Ecology and Conservation

Population characteristics of a large whale shark aggregation inferred from seawater environmental DNA

(2016) Eva Egelyng Sigsgaard et al.   Nature Ecology & Evolution

Quantifying effects of UV-B, temperature, and pH on eDNA degradation in aquatic microcosms

(2015) Katherine M. Strickler 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

Using eDNA to develop a national citizen science-based monitoring programme for the great crested newt (Triturus cristatus)

(2015) Jeremy Biggs et al.   BIOLOGICAL CONSERVATION

How will the ‘molecular revolution’ contribute to biological recording?

(2015) Lori Lawson Handley   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

The ecology of environmental DNA and implications for conservation genetics

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

iDNA from terrestrial haematophagous leeches as a wildlife surveying and monitoring tool – prospects, pitfalls and avenues to be developed

(2015) Ida Bærholm Schnell et al.   Frontiers in Zoology

DNA metabarcoding diet analysis for species with parapatric vs sympatric distribution: a case study on subterranean rodents

(2015) C M Lopes et al.   HEREDITY

Aquatic invasive species: challenges for the future

(2015) John E. Havel et al.   HYDROBIOLOGIA

Environmental DNA evidence of transfer of North Sea molluscs across tropical waters through ballast water

(2015) Alba Ardura et al.   JOURNAL OF MOLLUSCAN STUDIES

eDNA and specific primers for early detection of invasive species – A case study on the bivalve Rangia cuneata, currently spreading in Europe

(2015) Alba Ardura et al.   MARINE ENVIRONMENTAL RESEARCH

Quantitative DNA metabarcoding: improved estimates of species proportional biomass using correction factors derived from control material

(2015) Austen C. Thomas et al.   Molecular Ecology Resources

Effects of UV radiation on aquatic ecosystems and interactions with other environmental factors

(2015) Donat-P. Häder et al.   PHOTOCHEMICAL & PHOTOBIOLOGICAL SCIENCES

Cryptic infection of a broad taxonomic and geographic diversity of tadpoles by Perkinsea protists

(2015) Aurélie Chambouvet et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Spider Web DNA: A New Spin on Noninvasive Genetics of Predator and Prey

(2015) Charles C. Y. Xu et al.   PLoS One

Integrating molecular tools into freshwater ecology: developments and opportunities

(2014) Steffen U. Pauls et al.   FRESHWATER BIOLOGY

Comparing the effectiveness of metagenomics and metabarcoding for diet analysis of a leaf-feeding monkey (Pygathrix nemaeus)

(2014) Amrita Srivathsan et al.   Molecular Ecology Resources

The room temperature preservation of filtered environmental DNA samples and assimilation into a phenol-chloroform-isoamyl alcohol DNA extraction

(2014) Mark A. Renshaw et al.   Molecular Ecology Resources

Agricultural expansion and its impacts on tropical nature

(2014) William F. Laurance et al.   TRENDS IN ECOLOGY & EVOLUTION

Fine-suspended sediment and water budgets for a large, seasonally dry tropical catchment: Burdekin River catchment, Queensland, Australia

(2014) Zoë T. Bainbridge et al.   WATER RESOURCES RESEARCH

Particle size distribution and optimal capture of aqueous macrobial eDNA

(2014) Cameron R. Turner et al.   Methods in Ecology and Evolution

Carrion fly-derived DNA as a tool for comprehensive and cost-effective assessment of mammalian biodiversity

(2013) Sébastien Calvignac-Spencer et al.   MOLECULAR ECOLOGY

Factors influencing detection of eDNA from a stream-dwelling amphibian

(2013) David S. Pilliod et al.   Molecular Ecology Resources

Tropical Plant–Herbivore Networks: Reconstructing Species Interactions Using DNA Barcodes

(2013) Carlos García-Robledo et al.   PLoS One

Changes in rainfall seasonality in the tropics

(2013) Xue Feng et al.   Nature Climate Change

Identifying the last supper: utility of the DNA barcode library for bloodmeal identification in ticks

(2012) T. D. GARIEPY et al.   Molecular Ecology Resources

Successful carnivore identification with faecal DNA across a fragmented Amazonian landscape

(2011) FERNANDA MICHALSKI et al.   Molecular Ecology Resources

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

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

Alien species in fresh waters: ecological effects, interactions with other stressors, and prospects for the future

(2010) DAVID L. STRAYER   FRESHWATER BIOLOGY

An Efficient Multistrategy DNA Decontamination Procedure of PCR Reagents for Hypersensitive PCR Applications

(2010) Sophie Champlot et al.   PLoS One

Tropical turmoil: a biodiversity tragedy in progress

(2008) Corey JA Bradshaw et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT