Next-generation freshwater bioassessment: eDNA metabarcoding with a conserved metazoan primer reveals species-rich and reservoir-specific communities

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

(2016) Amrita Srivathsan et al.   Frontiers in Zoology

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

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

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

Estimating species richness using environmental DNA

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

First record of the cryptic invader Pyrgophorus platyrachis Thompson, 1968 (Gastropoda: Truncatelloidea: Cochliopidae) outside the Americas

(2016) Ting Hui Ng et al.   BioInvasions Records

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

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

Quantitative evaluation of bias in PCR amplification and next-generation sequencing derived from metabarcoding samples

(2015) Marta Pawluczyk et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

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

(2015) Philip Francis Thomsen et al.   BIOLOGICAL CONSERVATION

Quantification of mesocosm fish and amphibian species diversity via environmental DNA metabarcoding

(2015) Nathan T. Evans 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

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

A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents

(2013) Matthieu Leray et al.   Frontiers in Zoology

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Redesign of PCR primers for mitochondrial cytochromecoxidase subunit I for marine invertebrates and application in all-taxa biotic surveys

(2013) J. Geller et al.   Molecular Ecology Resources

REVISION OF THE BIOLOGICAL MONITORING WORKING PARTY (BMWP) SCORE SYSTEM: DERIVATION OF PRESENT-ONLY AND ABUNDANCE-RELATED SCORES FROM FIELD DATA

(2013) M. F. Paisley et al.   RIVER RESEARCH AND APPLICATIONS

An update on DNA barcoding: low species coverage and numerous unidentified sequences

(2012) Shiyang Kwong et al.   CLADISTICS

Towards next-generation biodiversity assessment using DNA metabarcoding

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY

Estimation of Fish Biomass Using Environmental DNA

(2012) Teruhiko Takahara et al.   PLoS One

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

Persistence of Environmental DNA in Freshwater Ecosystems

(2011) Tony Dejean et al.   PLoS One

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

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

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Species detection using environmental DNA from water samples

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

Statistical Assignment of DNA Sequences Using Bayesian Phylogenetics

(2008) Kasper Munch et al.   SYSTEMATIC BIOLOGY