Environmental DNA in Biodiversity Studies

Application of eDNA metabarcoding for high-resolution reconstruction of the trophic web of an Arctic fjord

This study uses eDNA metabarcoding to reconstruct trophic webs in an Arctic fjord, revealing differences between coastal and offshore domains and demonstrating the method's utility for ecosystem monitoring.

Separating faces in ARMS metabarcoding improves marine biodiversity monitoring: a comparison across protocols, experimental designs, and photographic surveys

This study compares ARMS metabarcoding protocols with photographic surveys, finding that separating ARMS faces improves biodiversity monitoring by increasing richness and ecological signal.

Is there a fly in my soup? To what extent do metabarcoding and individual barcoding tell the same story?

This study compares metabarcoding and individual barcoding of insect samples, finding they yield similar community structure but metabarcoding adds more species due to DNA residues.

Is DNA metabarcoding an option for formaldehyde-preserved zooplankton time series?

This study evaluates DNA metabarcoding of formaldehyde-preserved zooplankton samples, finding that while DNA can be amplified, community composition accuracy declines after two years of preservation.

Getting to the core of the matter: Assessing the role of replication in sedimentary DNA metabarcoding

This study evaluates the impact of replication on sedimentary DNA metabarcoding by analyzing variation in community composition across biological, technical, and stratigraphic replicates.

Temporal persistence of airborne environmental DNA in a natural open-air setting

This study investigates the temporal persistence of airborne eDNA from a wallaby carcass, finding that DNA remains detectable up to 100 meters for three days, with active sampling improving detection rates.

Assessment of Leaf-Litter Invertebrate Biodiversity Using High Throughput Sequencing

The paper assesses leaf-litter invertebrate biodiversity using high-throughput sequencing, finding that the Qiagen Blood and Tissue Kit is most effective and that temperature influences community composition.

eDNA metabarcoding provides scalable and continuous biodiversity monitoring across the tree of life

This study uses eDNA metabarcoding to monitor biodiversity across aquatic habitats, finding it provides more species data at lower cost than traditional methods.

Assessing fish diversity in the Amazon: The impact of primers and reference libraries in eDNA surveys

This study evaluates the impact of primers and reference databases on fish species detection in eDNA surveys of the Teles Pires River basin, finding that modified primers and local databases improve detection.

Metabarcoding replicate detection frequency tracks ddPCR copy number for cod and herring eDNA in ancient marine sediments

The paper quantifies eDNA abundance using ddPCR and compares it with metabarcoding detection frequency in ancient marine sediments, finding a positive correlation and ecological relevance.

A depositional taphonomy model for sedimentary ancient DNA based on biotic profiles of contrasting sedimentation regimes

This study develops a depositional taphonomy model for sedimentary ancient DNA (sedaDNA) to determine its origins from local or distant sources across different sedimentation regimes.

Efficacy of natural marine sponges as a passive environmental DNA sampler for freshwater fish diversity monitoring

This study evaluates the effectiveness of sponge skeletons as passive eDNA samplers for freshwater fish diversity, finding comparable species richness and community structure to water filtration.

Discovering the unseen: a performance comparison of taxonomic classification methods under unknown DNA barcodes

This study compares taxonomic classification methods for DNA barcoding, finding that phylogenetic placement methods excel for arthropod COI barcodes while composition-based classifiers perform better for fungal ITS.

Changing Pacific salmon nursery lake ecosystem dynamics over centuries to millennia: insights from sedimentary DNA metabarcoding

This study uses sedimentary DNA metabarcoding to track changes in lake ecosystems over centuries, identifying shifts in algal communities and potential drivers like land-use changes and climate factors.

eDNA sampling reveals no negative effects of beaver recolonisation on the catchment-scale distribution of migratory fish

The paper uses eDNA metabarcoding to assess the impact of beaver recolonisation on migratory fish distribution across a catchment, finding no negative effects on salmon or lamprey but a positive association with eel.

Comparison of environmental DNA and bulk DNA metabarcoding for assessing terrestrial arthropod diversity across three habitat types on Guam

This study compares bulk DNA metabarcoding and environmental DNA (eDNA) methods for assessing arthropod diversity in three Guam habitats, finding both methods detect significant taxa with eDNA offering a non-destructive alternative.

Accuracy of occurrence and abundance estimates from insect metabarcoding

This study evaluates how lysis methods, spike-ins, and sample processing affect the accuracy of insect metabarcoding for species occurrence and abundance.

Automated eDNA and eRNA Profiling for Biodiversity Monitoring in Marine and Freshwater Ecosystems

This study tests an automated eDNA sampler in various aquatic environments, showing it can effectively profile eukaryotes, prokaryotes, and fish using ribosomal RNA genes and detect taxonomic groups and antimicrobial resistance genes.

From egg to adult: comprehensive (e)DNA metabarcoding monitoring of fish diversity in a temperate estuary

The paper evaluates DNA metabarcoding's effectiveness in identifying fish species and detecting seasonal variations in a temperate estuary using ichthyoplankton and water samples.

A Practical and Cost-Effective Approach to Long-Fragment eDNA Sequencing for High-Resolution Genetic Diversity Assessment

This paper develops a low-cost method for long-fragment eDNA sequencing to assess genetic diversity, finding it effective for high-resolution phylogeographic analysis.

The marine microbiome can accurately predict its chemical and biological environment

This study uses DNA metabarcoding to predict environmental parameters and plankton communities in the Baltic Sea, showing its effectiveness compared to traditional methods.

Comparative analysis of metabarcoding and metagenomics for fish biodiversity estimates using standard and novel high-flow filtration methods

This study compares metabarcoding and metagenomics for fish biodiversity using standard and high-flow filtration methods, finding metagenomics detects more species in field settings and reveals methylation patterns.

NeMO: a flexible R package for nested multi-species occupancy modelling and eDNA study optimization

NeMO is an R package that models multi-species occupancy from eDNA data, estimates detectability, and optimizes survey design by calculating minimal sampling effort.

Eukaryotic biodiversity and ecological networks from the surface to the mesopelagic in the Northwest Atlantic Slope Water

The paper uses eDNA metabarcoding to study eukaryotic biodiversity and ecological networks in the Northwest Atlantic Slope Water, revealing depth-specific communities and the role of protists in network stability.

Fine-scale ecological biomonitoring in a large, complex agriculturally impacted watershed via eDNA metabarcoding

This study uses eDNA metabarcoding to assess biodiversity in an agriculturally impacted watershed, finding greater taxonomic richness and clearer land-use patterns compared to traditional morphology-based methods.

Comparing freshwater eDNA with conventional survey methods to detect vertebrate biodiversity in a Malagasy tropical rainforest

This study compares eDNA metabarcoding with conventional surveys in a Malagasy rainforest, finding eDNA outperforms in detecting vertebrates but has limitations due to primer bias and taxonomic gaps.

Sampling intensity and temporal persistence of airborne eDNA in partially enclosed spaces

This study estimates the sampling intensity and signal persistence of airborne eDNA in an enclosed space to inform effective biomonitoring strategies.

Biomonitoring in the Anthropocene: Urban estuary environmental DNA tracks marine fish, terrestrial wildlife, and human diet

The paper uses eDNA metabarcoding to monitor marine fish, terrestrial wildlife, and human diet in an urban estuary, finding seasonal patterns and dietary insights through wastewater analysis.

Environmental DNA monitoring of waterfowl reveals community changes during migration

This study evaluates environmental DNA (eDNA) as a tool for monitoring waterfowl communities during migration, showing it can detect species composition and relative abundance but not absolute numbers.

Environmental DNA reveals hidden eukaryotic diversity and fine-scale community patterns across seascape areas in the Northern Red Sea

The paper uses environmental DNA to assess eukaryotic diversity and community patterns in the Northern Red Sea, finding that eDNA captures broader diversity and fine-scale spatial structuring not fully explained by benthic composition.