(Q45950686)

18 December 2017

http://europepmc.org/abstract/MED/28921802

title

Environmental DNA metabarcoding: Transforming how we survey animal and plant communities. (English)

1 reference

18 December 2017

http://europepmc.org/abstract/MED/28921802

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1

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13 June 2020

Holly M Bik

2

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Anaïs Lacoursière-Roussel

13 June 2020

5

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13 June 2020

Florian Altermatt

6

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13 June 2020

Simon Creer

7

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13 June 2020

Iliana Bista

8

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13 June 2020

Natasha de Vere

10

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13 June 2020

11

Michael E Pfrender

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13 June 2020

9

David M Lodge

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13 June 2020

3

Elvira Mächler

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13 June 2020

12

Louis Bernatchez

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13 June 2020

author name string

Mathew Seymour

4

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13 June 2020

language of work or name

English

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publication date

16 September 2017

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18 December 2017

http://europepmc.org/abstract/MED/28921802

published in

Molecular Ecology

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13 June 2020

volume

26

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13 June 2020

issue

21

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13 June 2020

page(s)

5872-5895

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28921802%20AND%20SRC:MED&resulttype=core&format=json

The UNITE database for molecular identification of fungi--recent updates and future perspectives

13 June 2020

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QIIME allows analysis of high-throughput community sequencing data

21 January 2018

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Geography and Location Are the Primary Drivers of Office Microbiome Composition

21 January 2018

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Validation of the ITS2 region as a novel DNA barcode for identifying medicinal plant species

21 January 2018

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

21 January 2018

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Bioinformatic challenges for DNA metabarcoding of plants and animals

21 January 2018

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The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

21 January 2018

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Biodiversity in groundwater: a large-scale view

21 January 2018

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

21 January 2018

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Different species problems and their resolution

21 January 2018

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Using DNA metabarcoding to investigate honey bee foraging reveals limited flower use despite high floral availability.

21 January 2018

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Quantification of damage in DNA recovered from highly degraded samples--a case study on DNA in faeces.

21 January 2018

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

21 January 2018

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Transport distance of invertebrate environmental DNA in a natural river

21 January 2018

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Environmental DNA reveals that rivers are conveyer belts of biodiversity information

21 January 2018

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Range-wide phylogeographic structure of the vernal pool fairy shrimp (Branchinecta lynchi)

21 January 2018

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TACOA: taxonomic classification of environmental genomic fragments using a kernelized nearest neighbor approach

21 January 2018

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Targeted gene enrichment and high-throughput sequencing for environmental biomonitoring: a case study using freshwater macroinvertebrates

21 January 2018

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Evaluating a multigene environmental DNA approach for biodiversity assessment

21 January 2018

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Search and clustering orders of magnitude faster than BLAST

21 January 2018

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UCHIME improves sensitivity and speed of chimera detection

21 January 2018

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

21 January 2018

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Rapid molecular detection of invasive species in ballast and harbor water by integrating environmental DNA and light transmission spectroscopy

21 January 2018

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

21 January 2018

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Minimum entropy decomposition: unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences

21 January 2018

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

21 January 2018

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

21 January 2018

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Species detection using environmental DNA from water samples

21 January 2018

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

21 January 2018

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Investigating the potential use of environmental DNA (eDNA) for genetic monitoring of marine mammals

21 January 2018

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The importance of molecular markers and primer design when characterizing biodiversity from environmental DNA.

21 January 2018

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A framework for estimating the sensitivity of eDNA surveys

21 January 2018

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Large-Scale Biomonitoring of Remote and Threatened Ecosystems via High-Throughput Sequencing

21 January 2018

1 reference

Simultaneous assessment of the macrobiome and microbiome in a bulk sample of tropical arthropods through DNA metasystematics

21 January 2018

1 reference

Climate-induced glacier and snow loss imperils alpine stream insects

21 January 2018

1 reference

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

21 January 2018

1 reference

Using the metagenomics RAST server (MG-RAST) for analyzing shotgun metagenomes.

21 January 2018

1 reference

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

21 January 2018

1 reference

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

21 January 2018

1 reference

Environmental DNA in subterranean biology: range extension and taxonomic implications for Proteus

21 January 2018

1 reference

Spatio-temporal monitoring of deep-sea communities using metabarcoding of sediment DNA and RNA.

21 January 2018

1 reference

The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote small sub-unit rRNA sequences with curated taxonomy

21 January 2018

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Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

21 January 2018

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Ancient DNA reveals late survival of mammoth and horse in interior Alaska

21 January 2018

1 reference

Environmental barcoding: a next-generation sequencing approach for biomonitoring applications using river benthos

21 January 2018

1 reference

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

21 January 2018

1 reference

Clustering 16S rRNA for OTU prediction: a method of unsupervised Bayesian clustering

21 January 2018

1 reference

Using DNA Metabarcoding to Identify the Floral Composition of Honey: A New Tool for Investigating Honey Bee Foraging Preferences

21 January 2018

1 reference

Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species

21 January 2018

1 reference

A DNA barcode for land plants

21 January 2018

1 reference

Molecular forensics in avian conservation: a DNA-based approach for identifying mammalian predators of ground-nesting birds and eggs

21 January 2018

1 reference

Environmental DNA (eDNA) sampling improves occurrence and detection estimates of invasive burmese pythons

21 January 2018

1 reference

MEGAN analysis of metagenomic data

21 January 2018

1 reference

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

21 January 2018

1 reference

jMOTU and Taxonerator: turning DNA Barcode sequences into annotated operational taxonomic units

21 January 2018

1 reference

Islands in the ice: detecting past vegetation on Greenlandic nunataks using historical records and sedimentary ancient DNA meta-barcoding

21 January 2018

1 reference

The change of microbial community from chlorinated solvent-contaminated groundwater after biostimulation using the metagenome analysis

21 January 2018

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Making environmental DNA count

21 January 2018

1 reference

Environmental monitoring. Harnessing DNA to improve environmental management

21 January 2018

1 reference

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

21 January 2018

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Efficient and sensitive identification and quantification of airborne pollen using next-generation DNA sequencing.

21 January 2018

1 reference

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates

21 January 2018

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Improving herpetological surveys in eastern North America using the environmental DNA method

21 January 2018

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

21 January 2018

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DNAqua-Net: Developing new genetic tools for bioassessment and monitoring of aquatic ecosystems in Europe

21 January 2018

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Ancient DNA complements microfossil record in deep-sea subsurface sediments

21 January 2018

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

21 January 2018

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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

21 January 2018

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The footprint of pesticide stress in communities--species traits reveal community effects of toxicants.

21 January 2018

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

21 January 2018

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

21 January 2018

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Performance comparison of benchtop high-throughput sequencing platforms

21 January 2018

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Metazoan mitochondrial gene sequence reference datasets for taxonomic assignment of environmental samples

21 January 2018

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Swarm: robust and fast clustering method for amplicon-based studies

21 January 2018

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Meta-genomic surveillance of invasive species in the bait trade

21 January 2018

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Genome sequencing in microfabricated high-density picolitre reactors

21 January 2018

1 reference

pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree

21 January 2018

1 reference

Persistence of DNA in carcasses, slime and avian feces may affect interpretation of environmental DNA data.

21 January 2018

1 reference

Assessing environmental DNA detection in controlled lentic systems

21 January 2018

1 reference

Statistical assignment of DNA sequences using Bayesian phylogenetics

21 January 2018

1 reference

From benchtop to desktop: important considerations when designing amplicon sequencing workflows

21 January 2018

1 reference

Next-generation sequencing data interpretation: enhancing reproducibility and accessibility

21 January 2018

1 reference

Browsed twig environmental DNA: diagnostic PCR to identify ungulate species

21 January 2018

1 reference

Indexed PCR Primers Induce Template-Specific Bias in Large-Scale DNA Sequencing Studies

21 January 2018

1 reference

Spatial distribution of environmental DNA in a nearshore marine habitat

21 January 2018

1 reference

Estimating species richness using environmental DNA.

21 January 2018

1 reference

Reconstructing long-term human impacts on plant communities: an ecological approach based on lake sediment DNA.

21 January 2018

1 reference

Molecular- and pollen-based vegetation analysis in lake sediments from central Scandinavia

21 January 2018

1 reference

Environmental monitoring through protist next-generation sequencing metabarcoding: assessing the impact of fish farming on benthic foraminifera communities

21 January 2018

1 reference

Ancient and modern environmental DNA

21 January 2018

1 reference

Postglacial viability and colonization in North America's ice-free corridor.

21 January 2018

1 reference

Assessing macroinvertebrate biodiversity in freshwater ecosystems: advances and challenges in DNA-based approaches

21 January 2018

1 reference

Universal and blocking primer mismatches limit the use of high-throughput DNA sequencing for the quantitative metabarcoding of arthropods.

21 January 2018

1 reference

Assessing vertebrate biodiversity in a kelp forest ecosystem using environmental DNA.

21 January 2018

1 reference

SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

21 January 2018

1 reference

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

21 January 2018

1 reference

BARCODING: bold: The Barcode of Life Data System (http://www.barcodinglife.org)

21 January 2018

1 reference

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

21 January 2018

1 reference

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

21 January 2018

1 reference

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

21 January 2018

1 reference

VSEARCH: a versatile open source tool for metagenomics

21 January 2018

1 reference

Ten simple rules for reproducible computational research

21 January 2018

1 reference

Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities

21 January 2018

1 reference

Using occupancy modelling to compare environmental DNA to traditional field methods for regional-scale monitoring of an endangered aquatic species

21 January 2018

1 reference

Tag jumps illuminated--reducing sequence-to-sample misidentifications in metabarcoding studies

21 January 2018

1 reference

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

21 January 2018

1 reference

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

21 January 2018

1 reference

A framework for inferring biological communities from environmental DNA.

21 January 2018

1 reference

Active and passive environmental DNA surveillance of aquatic invasive species

21 January 2018

1 reference

Revealing the unexplored fungal communities in deep groundwater of crystalline bedrock fracture zones in Olkiluoto, Finland.

21 January 2018

1 reference

Unbiased probabilistic taxonomic classification for DNA barcoding

21 January 2018

1 reference

Inferring neutral biodiversity parameters using environmental DNA data sets

21 January 2018

1 reference

Using next-generation sequencing for molecular reconstruction of past Arctic vegetation and climate

21 January 2018

1 reference

Aquatic environmental DNA detects seasonal fish abundance and habitat preference in an urban estuary.

21 January 2018

1 reference

21 January 2018

1 reference

Towards next-generation biodiversity assessment using DNA metabarcoding

21 January 2018

1 reference

Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding

21 January 2018

1 reference

Soil sampling and isolation of extracellular DNA from large amount of starting material suitable for metabarcoding studies.

21 January 2018

1 reference

Using environmental DNA to estimate the distribution of an invasive fish species in ponds

21 January 2018

1 reference

Effects of phylogenetic reconstruction method on the robustness of species delimitation using single-locus data

21 January 2018

1 reference

Emerging Technologies to Conserve Biodiversity: Further Opportunities via Genomics. Response to Pimm et al.

21 January 2018

1 reference

Fungal biogeography. Global diversity and geography of soil fungi

21 January 2018

1 reference

Detection of a diverse marine fish fauna using environmental DNA from seawater samples

21 January 2018

1 reference

Monitoring endangered freshwater biodiversity using environmental DNA.

21 January 2018

1 reference

Environmental DNA from Seawater Samples Correlate with Trawl Catches of Subarctic, Deepwater Fishes

21 January 2018

1 reference

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

21 January 2018

1 reference

Origin, dynamics, and implications of extracellular DNA pools in marine sediments

21 January 2018

1 reference

Environmental DNA surveillance for invertebrate species: advantages and technical limitations to detect invasive crayfish Procambarus clarkii in freshwater ponds

21 January 2018

1 reference

Fish environmental DNA is more concentrated in aquatic sediments than surface water

21 January 2018

1 reference

DNA barcoding for ecologists

21 January 2018

1 reference

Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding

21 January 2018

1 reference

Surveying Europe's Only Cave-Dwelling Chordate Species (Proteus anguinus) Using Environmental DNA

21 January 2018

1 reference

Global threats to human water security and river biodiversity

21 January 2018

1 reference

Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy

21 January 2018

1 reference

PCR to predict risk of airborne disease

21 January 2018

1 reference

Taxonomy: impediment or expedient?

21 January 2018

1 reference

Ancient biomolecules from deep ice cores reveal a forested southern Greenland

21 January 2018

1 reference

Fifty thousand years of Arctic vegetation and megafaunal diet

21 January 2018

1 reference

Diverse plant and animal genetic records from Holocene and Pleistocene sediments

21 January 2018

1 reference

Diversity of Holocene life forms in fossil glacier ice

21 January 2018

1 reference

The importance of including imperfect detection models in eDNA experimental design.

21 January 2018

1 reference

High-resolution coproecology: using coprolites to reconstruct the habits and habitats of New Zealand's extinct upland moa (Megalapteryx didinus)

21 January 2018

1 reference

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

21 January 2018

1 reference

Environmental DNA metabarcoding reveals local fish communities in a species-rich coastal sea.

21 January 2018

1 reference

Environmental DNA as a 'Snapshot' of Fish Distribution: A Case Study of Japanese Jack Mackerel in Maizuru Bay, Sea of Japan

21 January 2018

1 reference

Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications

21 January 2018

1 reference

DNA from soil mirrors plant taxonomic and growth form diversity

21 January 2018

1 reference

Metabarcoding approach for the ballast water surveillance--an advantageous solution or an awkward challenge?

21 January 2018

1 reference

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

21 January 2018

1 reference

Faeces of generalist predators as ‘biodiversity capsules’: A new tool for biodiversity assessment in remote and inaccessible habitats

21 January 2018

1 reference

Molecular analysis of environmental plant DNA in house dust across the United States

21 January 2018

1 reference

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

21 January 2018

1 reference

Surveillance of fish species composition using environmental DNA

21 January 2018

1 reference

High-throughput sequencing of ancient plant and mammal DNA preserved in herbivore middens

21 January 2018

1 reference

Screening mammal biodiversity using DNA from leeches

21 January 2018

1 reference

Landscape-scale distribution patterns of earthworms inferred from soil DNA

21 January 2018

1 reference

21 January 2018

Identifiers

DOI

10.1111/MEC.14350

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28921802%20AND%20SRC:MED&resulttype=core&format=json

13 June 2020

1 reference