The use of environmental DNA to monitor impacted coastal estuaries

Meta‐analysis shows both congruence and complementarity of DNA and eDNA metabarcoding to traditional methods for biological community assessment

(2022) François Keck et al.   MOLECULAR ECOLOGY

Large‐scale eDNA metabarcoding survey reveals marine biogeographic break and transitions over tropical north‐western Australia

(2021) Katrina West et al.   DIVERSITY AND DISTRIBUTIONS

Urban evolution of invasive species

(2021) Jesse B Borden et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

eDNAFlow, an automated, reproducible and scalable workflow for analysis of environmental DNA sequences exploiting Nextflow and Singularity

(2021) Mahsa Mousavi‐Derazmahalleh et al.   Molecular Ecology Resources

eDNA metabarcoding illuminates species diversity and composition of three phyla (chordata, mollusca and echinodermata) across Indonesian coral reefs

(2021) Hawis Madduppa et al.   BIODIVERSITY AND CONSERVATION

Unusually high sedimentary metal concentrations in intermittently closed and open lakes and lagoons (ICOLLs) in the northern lagoons of Sydney (Australia)

(2021) G.F. Birch et al.   MARINE POLLUTION BULLETIN

Quantitative assessment of multiple fish species around artificial reefs combining environmental DNA metabarcoding and acoustic survey

(2021) Masaaki Sato et al.   Scientific Reports

Optimizing an eDNA protocol for estuarine environments: Balancing sensitivity, cost and time

(2020) Thiago M. Sanches et al.   PLoS One

Demersal fish assemblages on seamounts exploited by fishing in the Azores (NE Atlantic)

(2020) Régis Santos et al.   JOURNAL OF APPLIED ICHTHYOLOGY

Factors structuring estuarine and coastal fish communities across Japan using environmental DNA metabarcoding

(2020) Manabu Kume et al.   ECOLOGICAL INDICATORS

The expansion of exotic Chinook salmon (Oncorhynchus tshawytscha) in the extreme south of Patagonia: an environmental DNA approach

(2019) Cristina Fernanda Nardi et al.   BIOLOGICAL INVASIONS

Marine environmental DNA biomonitoring reveals seasonal patterns in biodiversity and identifies ecosystem responses to anomalous climatic events

(2019) Tina E. Berry et al.   PLoS Genetics

Variation in inhibitor effects on qPCR assays and implications for eDNA surveys

(2019) Richard F. Lance et al.   CANADIAN JOURNAL OF FISHERIES AND AQUATIC SCIENCES

Assessment of BOLD and GenBank – Their accuracy and reliability for the identification of biological materials

(2019) Kelly A. Meiklejohn et al.   PLoS One

GenBank is a reliable resource for 21st century biodiversity research

(2019) Matthieu Leray et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predicting the fate of eDNA in the environment and implications for studying biodiversity

(2019) Jori B. Harrison et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Detection of introduced and resident marine species using environmental DNA metabarcoding of sediment and water

(2019) Luke E. Holman et al.   Scientific Reports

Updating the 97% identity threshold for 16S ribosomal RNA OTUs

(2018) Robert C Edgar   BIOINFORMATICS

Combined use of eDNA metabarcoding and video surveillance for the assessment of fish biodiversity

(2018) Michal Stat et al.   CONSERVATION BIOLOGY

Scaling up: A guide to high-throughput genomic approaches for biodiversity analysis

(2018) Teresita M. Porter et al.   MOLECULAR ECOLOGY

Environmental DNA (eDNA) metabarcoding reveals strong discrimination among diverse marine habitats connected by water movement

(2018) Gert-Jan Jeunen et al.   Molecular Ecology Resources

Environmental DNA metabarcoding studies are critically affected by substrate selection

(2018) Adam Koziol et al.   Molecular Ecology Resources

Intermittently Closed/Open Lakes and Lagoons: Their global distribution and boundary conditions

(2017) S.L. McSweeney et al.   GEOMORPHOLOGY

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

(2017) Kristy Deiner et al.   MOLECULAR ECOLOGY

Algorithm for post-clustering curation of DNA amplicon data yields reliable biodiversity estimates

(2017) Tobias Guldberg Frøslev et al.   Nature Communications

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

(2017) Michael Stat et al.   Scientific Reports

DNA metabarcoding for diet analysis and biodiversity: A case study using the endangered Australian sea lion (Neophoca cinerea )

(2017) Tina E. Berry et al.   Ecology and Evolution

New poleward observations of 30 tropical reef fishes in temperate southeastern Australia

(2017) Ashley M. Fowler et al.   Marine Biodiversity

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

(2017) Mark Y. Stoeckle et al.   PLoS One

Partial migration of grey mullet (Mugil cephalus) on Australia’s east coast revealed by otolith chemistry

(2016) Ashley M. Fowler et al.   MARINE ENVIRONMENTAL RESEARCH

Environmental DNA detects Critically Endangered largetooth sawfish in the wild

(2016) CA Simpfendorfer et al.   Endangered Species Research

The ecology of environmental DNA and implications for conservation genetics

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

obitools: aunix-inspired software package for DNA metabarcoding

(2015) Frédéric Boyer et al.   Molecular Ecology Resources

Accurate multiplexing and filtering for high-throughput amplicon-sequencing

(2015) Philippe Esling et al.   NUCLEIC ACIDS RESEARCH

From Benchtop to Desktop: Important Considerations when Designing Amplicon Sequencing Workflows

(2015) Dáithí C. Murray et al.   PLoS One

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

Systematic global assessment of reef fish communities by the Reef Life Survey program

(2014) Graham J Edgar et al.   Scientific Data

Environmental influences on the spatial ecology and spawning behaviour of an estuarine-resident fish, Macquaria colonorum

(2013) C.T. Walsh et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Evaluating Detection Limits of Next-Generation Sequencing for the Surveillance and Monitoring of International Marine Pests

(2013) Xavier Pochon et al.   PLoS One

Optimisation of baited remote underwater video sampling designs for estuarine fish assemblages

(2012) William Gladstone et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

Characterizing the biological traits and life history ofAcanthopagrus(Sparidae) hybrid complexes: implications for conservation and management

(2012) F. Ochwada-Doyle et al.   JOURNAL OF FISH BIOLOGY

Towards next-generation biodiversity assessment using DNA metabarcoding

(2012) PIERRE TABERLET et al.   MOLECULAR ECOLOGY

A global review of the cosmopolitan flathead mullet Mugil cephalus Linnaeus 1758 (Teleostei: Mugilidae), with emphasis on the biology, genetics, ecology and fisheries aspects of this apparent species complex

(2012) A. K. Whitfield et al.   REVIEWS IN FISH BIOLOGY AND FISHERIES

A hybrid zone and bidirectional introgression between two catadromous species: Australian bass Macquaria novemaculeata and estuary perch Macquaria colonorum

(2011) K. Shaddick et al.   JOURNAL OF FISH BIOLOGY

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Marine genetic swamping: hybrids replace an obligately estuarine fish

(2010) DAVID G. ROBERTS et al.   MOLECULAR ECOLOGY

A protocol for data exploration to avoid common statistical problems

(2009) Alain F. Zuur et al.   Methods in Ecology and Evolution

Reproductive biology of two co-occurring mugilids,Liza argenteaandMyxus elongatus, in south-eastern Australia

(2008) B. W. Kendall et al.   JOURNAL OF FISH BIOLOGY