Diversity Metrics Are Robust to Differences in Sampling Location and Depth for Environmental DNA of Plants in Small Temperate Lakes

Bending the Curve of Global Freshwater Biodiversity Loss: An Emergency Recovery Plan

(2020) David Tickner et al.   BIOSCIENCE

From eDNA to citizen science: emerging tools for the early detection of invasive species

(2020) Eric R Larson et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

Spatial and temporal patterns of environmental DNA detection to inform sampling protocols in lentic and lotic systems

(2020) Mallory E. Bedwell et al.   Ecology and Evolution

Development of a quantitative PCR assay for detecting Egeria densa in environmental DNA samples

(2020) Dorothy M. Chase et al.   Conservation Genetics Resources

Comparison of acoustic and traditional point count methods to assess bird diversity and composition in the Aberdare National Park, Kenya

(2019) Amie Wheeldon et al.   AFRICAN JOURNAL OF ECOLOGY

Shallow plant-dominated lakes – extreme environmental variability, carbon cycling and ecological species challenges

(2019) Kaj Sand-Jensen et al.   ANNALS OF BOTANY

Environmental DNA (eDNA) metabarcoding of pond water as a tool to survey conservation and management priority mammals

(2019) Lynsey R. Harper et al.   BIOLOGICAL CONSERVATION

Environmental DNA is not the tool by itself

(2019) Anaïs Lacoursière‐Roussel et al.   JOURNAL OF FISH BIOLOGY

The detection of a non-anemophilous plant species using airborne eDNA

(2019) Mark D. Johnson et al.   PLoS One

Environmental DNA detection of aquatic invasive plants in lab mesocosm and natural field conditions

(2018) Crysta A. Gantz et al.   BIOLOGICAL INVASIONS

Macrophyte assessment in European lakes: Diverse approaches but convergent views of ‘good’ ecological status

(2018) Sandra Poikane et al.   ECOLOGICAL INDICATORS

Plant DNA metabarcoding of lake sediments: How does it represent the contemporary vegetation

(2018) Inger Greve Alsos et al.   PLoS One

Aquatic Plant Diversity in Italy: Distribution, Drivers and Strategic Conservation Actions

(2018) Rossano Bolpagni et al.   Frontiers in Plant Science

The effect of tides on nearshore environmental DNA

(2018) Ryan P. Kelly et al.   PeerJ

Uses and Misuses of Environmental DNA in Biodiversity Science and Conservation

(2018) Melania E. Cristescu et al.   Annual Review of Ecology Evolution and Systematics

“Pitfalls in relative abundance estimation using eDNA metabarcoding”

(2018) Vera G. Fonseca   Molecular Ecology Resources

A simple survey protocol for assessing terrestrial biodiversity in a broad range of ecosystems

(2018) Asko Lõhmus et al.   PLoS One

Global variation in the beta diversity of lake macrophytes is driven by environmental heterogeneity rather than latitude

(2017) Janne Alahuhta et al.   JOURNAL OF BIOGEOGRAPHY

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

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

(2017) Kristy Deiner et al.   MOLECULAR ECOLOGY

Ancient plant DNA in lake sediments

(2017) Laura Parducci et al.   NEW PHYTOLOGIST

Altered juvenile fish communities associated with invasive Halophila stipulacea seagrass habitats in the U.S. Virgin Islands

(2017) Lauren K. Olinger et al.   PLoS One

“How” and “what” matters: Sampling method affects biodiversity estimates of reef fishes

(2017) Néstor E. Bosch et al.   Ecology and Evolution

Random sampling causes the low reproducibility of rare eukaryotic OTUs in Illumina COI metabarcoding

(2017) Matthieu Leray et al.   PeerJ

The importance of standardization for biodiversity comparisons: A case study using autonomous reef monitoring structures (ARMS) and metabarcoding to measure cryptic diversity on Mo’orea coral reefs, French Polynesia

(2017) Emma Ransome et al.   PLoS One

Seasonal variation in environmental DNA in relation to population size and environmental factors

(2017) Andrew S. Buxton 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

Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding

(2016) Alice Valentini et al.   MOLECULAR ECOLOGY

Lake sedimentary DNA accurately records 20thCentury introductions of exotic conifers in Scotland

(2016) Per Sjögren et al.   NEW PHYTOLOGIST

Censusing marine eukaryotic diversity in the twenty-first century

(2016) Matthieu Leray et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Large-Scale Monitoring of Plants through Environmental DNA Metabarcoding of Soil: Recovery, Resolution, and Annotation of Four DNA Markers

(2016) Nicole A. Fahner et al.   PLoS One

Environmental DNA reveals that rivers are conveyer belts of biodiversity information

(2016) Kristy Deiner et al.   Nature Communications

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

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

Estimating species richness using environmental DNA

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

Use of environmental DNA to survey the distribution of an invasive submerged plant in ponds

(2016) Ayaka Fujiwara et al.   Freshwater Science

Use of environmental DNA to survey the distribution of an invasive submerged plant in ponds

(2016) Ayaka Fujiwara et al.   Freshwater Science

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

(2016) Raphaël Civade et al.   PLoS One

Evaluation of the Environmental DNA Method for Estimating Distribution and Biomass of Submerged Aquatic Plants

(2016) Saeko Matsuhashi et al.   PLoS One

Development of species-specific environmental DNA (eDNA) markers for invasive aquatic plants

(2015) Michelle Scriver et al.   AQUATIC BOTANY

Choice of capture and extraction methods affect detection of freshwater biodiversity from environmental DNA

(2015) Kristy Deiner 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

Experimental evidence of genome-wide impact of ecological selection during early stages of speciation-with-gene-flow

(2015) Scott P. Egan et al.   ECOLOGY LETTERS

Habitat, not resource availability, limits consumer production in lake ecosystems

(2015) Nicola Craig et al.   LIMNOLOGY AND OCEANOGRAPHY

DNA barcoding and metabarcoding of standardized samples reveal patterns of marine benthic diversity

(2015) Matthieu Leray et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metabarcoding Is Powerful yet Still Blind: A Comparative Analysis of Morphological and Molecular Surveys of Seagrass Communities

(2015) Dominique A. Cowart et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Environmental Conditions Influence eDNA Persistence in Aquatic Systems

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

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

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

Long livestock farming history and human landscape shaping revealed by lake sediment DNA

(2014) Charline Giguet-Covex et al.   Nature Communications

Particle size distribution and optimal capture of aqueous macrobial eDNA

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

Terrestrial carbon is a resource, but not a subsidy, for lake zooplankton

(2013) Patrick T. Kelly et al.   ECOLOGY

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Rapid Invasive Species Detection by Combining Environmental DNA with Light Transmission Spectroscopy

(2013) Scott P. Egan et al.   Conservation Letters

Conservation in a cup of water: estimating biodiversity and population abundance from environmental DNA

(2012) DAVID M. LODGE et al.   MOLECULAR ECOLOGY

Primer3—new capabilities and interfaces

(2012) Andreas Untergasser et al.   NUCLEIC ACIDS RESEARCH

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS