Direct fishing and eDNA metabarcoding for biomonitoring during a 3-year survey significantly improves number of fish detected around a South East Asian reservoir

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

(2017) Kristy Deiner et al.   MOLECULAR ECOLOGY

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

(2017) Michael Stat et al.   Scientific Reports

Comparison of environmental DNA metabarcoding and conventional fish survey methods in a river system

(2016) Jennifer L.A. Shaw et al.   BIOLOGICAL CONSERVATION

Environmental DNA analysis for estimating the abundance and biomass of stream fish

(2016) Hideyuki Doi et al.   FRESHWATER BIOLOGY

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding

(2016) Alice Valentini et al.   MOLECULAR ECOLOGY

How to limit false positives in environmental DNA and metabarcoding?

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

Estimating fish abundance and biomass from eDNA concentrations: variability among capture methods and environmental conditions

(2016) Anaïs Lacoursière-Roussel et al.   Molecular Ecology Resources

Balancing hydropower and biodiversity in the Amazon, Congo, and Mekong

(2016) K. O. Winemiller et al.   SCIENCE

Estimating species richness using environmental DNA

(2016) Brett P. Olds et al.   Ecology and Evolution

Spatial Representativeness of Environmental DNA Metabarcoding Signal for Fish Biodiversity Assessment in a Natural Freshwater System

(2016) Raphaël Civade et al.   PLoS One

Taxonomic challenges in freshwater fishes: a mismatch between morphology and DNA barcoding in fish of the north-eastern part of the Congo basin

(2015) Eva Decru et al.   Molecular Ecology Resources

Statistical approaches to account for false-positive errors in environmental DNA samples

(2015) José J. Lahoz-Monfort et al.   Molecular Ecology Resources

obitools: aunix-inspired software package for DNA metabarcoding

(2015) Frédéric Boyer et al.   Molecular Ecology Resources

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

Can DNA-Based Ecosystem Assessments Quantify Species Abundance? Testing Primer Bias and Biomass—Sequence Relationships with an Innovative Metabarcoding Protocol

(2015) Vasco Elbrecht et al.   PLoS One

Linking rapid erosion of the Mekong River delta to human activities

(2015) Edward J. Anthony et al.   Scientific Reports

STAMP: statistical analysis of taxonomic and functional profiles

(2014) Donovan H. Parks et al.   BIOINFORMATICS

DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match

(2014) B. E. Deagle et al.   Biology Letters

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

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

Environmental DNA for wildlife biology and biodiversity monitoring

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

Distance, dams and drift: what structures populations of an endangered, benthic stream fish?

(2013) James H. Roberts et al.   FRESHWATER BIOLOGY

DNA metabarcoding multiplexing and validation of data accuracy for diet assessment: application to omnivorous diet

(2013) M. De Barba et al.   Molecular Ecology Resources

Effectiveness of Annealing Blocking Primers versus Restriction Enzymes for Characterization of Generalist Diets: Unexpected Prey Revealed in the Gut Contents of Two Coral Reef Fish Species

(2013) Matthieu Leray et al.   PLoS One

Application of a three-dimensional hydrodynamic model to the Nam Theun 2 Reservoir (Lao PDR)

(2012) Vincent Chanudet et al.   JOURNAL OF GREAT LAKES RESEARCH

Towards next-generation biodiversity assessment using DNA metabarcoding

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY

Trading-off fish biodiversity, food security, and hydropower in the Mekong River Basin

(2012) G. Ziv et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Integrative freshwater ecology and biodiversity conservation

(2011) Juergen Geist   ECOLOGICAL INDICATORS

Surveillance of fish species composition using environmental DNA

(2011) Toshifumi Minamoto et al.   LIMNOLOGY

Monitoring endangered freshwater biodiversity using environmental DNA

(2011) PHILIP FRANCIS THOMSEN et al.   MOLECULAR ECOLOGY

Who is eating what: diet assessment using next generation sequencing

(2011) FRANCOIS POMPANON et al.   MOLECULAR ECOLOGY

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

An In silico approach for the evaluation of DNA barcodes

(2010) Gentile Ficetola et al.   BMC GENOMICS

ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases

(2010) Eva Bellemain et al.   BMC MICROBIOLOGY

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Dams and the fish fauna of the Neotropical region: impacts and management related to diversity and fisheries

(2009) AA. Agostinho et al.   BRAZILIAN JOURNAL OF BIOLOGY

Fragmentation of a Neotropical migratory fish population by a century-old dam

(2009) André L. H. Esguícero et al.   HYDROBIOLOGIA

Variations in fish assemblages in a tributary of the upper Paraná River, Brazil: A comparison between pre and post-closure phases of dams

(2009) Éder André Gubiani et al.   RIVER RESEARCH AND APPLICATIONS

Species detection using environmental DNA from water samples

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