Christopher L. Jerde
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View article: A Metadata Checklist and Data Formatting Guidelines to Make <scp>eDNA FAIR</scp> (Findable, Accessible, Interoperable, and Reusable)
A Metadata Checklist and Data Formatting Guidelines to Make <span>eDNA FAIR</span> (Findable, Accessible, Interoperable, and Reusable) Open
The success of environmental DNA (eDNA) approaches for species detection has revolutionized biodiversity monitoring and distribution mapping. Targeted eDNA amplification approaches, such as quantitative PCR, have improved our understanding…
View article: Best Practice for Publishing Environmental DNA (eDNA) Data According to FAIR Principles
Best Practice for Publishing Environmental DNA (eDNA) Data According to FAIR Principles Open
Reversing global biodiversity loss will require transformational human actions and robust measurements of their effectiveness. Diversity assessment using environmental DNA (eDNA) has emerged as a cutting-edge technique with the potential t…
View article: Repeated Pass Removal Survey for Estimating Land-Based Trash Abundance v1
Repeated Pass Removal Survey for Estimating Land-Based Trash Abundance v1 Open
Land-based litter negatively impacts human and ecosystem health, tourism and recreation, and the economy.1 Most terrestrial, aquatic, and marine litter consists of plastic items, and a majority of aquatic and marine litter comes from terre…
View article: Optimising species detection probability and sampling effort in lake fish eDNA surveys
Optimising species detection probability and sampling effort in lake fish eDNA surveys Open
Environmental DNA (eDNA) metabarcoding is transforming biodiversity monitoring in aquatic environments. Such an approach has been developed and deployed for monitoring lake fish communities in Great Britain, where the method has repeatedly…
View article: Time to invest in the worst: a call for full genome sequencing of the 100 worst invasive species
Time to invest in the worst: a call for full genome sequencing of the 100 worst invasive species Open
OPINION article Front. Environ. Sci., 30 October 2023Sec. Conservation and Restoration Ecology Volume 11 - 2023 | https://doi.org/10.3389/fenvs.2023.1258880
View article: Critical considerations for communicating environmental <scp>DNA</scp> science
Critical considerations for communicating environmental <span>DNA</span> science Open
The economic and methodological efficiencies of environmental DNA (eDNA) based survey approaches provide an unprecedented opportunity to assess and monitor aquatic environments. However, instances of inadequate communication from the scien…
View article: Toward a national <scp>eDNA</scp> strategy for the United States
Toward a national <span>eDNA</span> strategy for the United States Open
Environmental DNA (eDNA) data make it possible to measure and monitor biodiversity at unprecedented resolution and scale. As use‐cases multiply and scientific consensus grows regarding the value of eDNA analysis, public agencies have an op…
View article: Optimising species detection probability and sampling effort in lake fish eDNA surveys
Optimising species detection probability and sampling effort in lake fish eDNA surveys Open
Environmental DNA (eDNA) metabarcoding is transforming biodiversity monitoring in aquatic environments where the method has repeatedly shown comparable or better performance than conventional approaches to fish monitoring. This method has …
View article: Integrating invasive species risk assessment into environmental <scp>DNA</scp> metabarcoding reference libraries
Integrating invasive species risk assessment into environmental <span>DNA</span> metabarcoding reference libraries Open
Environmental DNA (eDNA) metabarcoding has shown promise as a tool for estimating biodiversity and early detection of invasive species. In aquatic systems, advantages of this method include the ability to concurrently monitor biodiversity …
View article: Tobacco and Cannabis Debris Survey Protocol
Tobacco and Cannabis Debris Survey Protocol Open
Tobacco and cannabis product use can result in debris (a.k.a. litter) on the landscape, with implications to soil and water quality and thus potential impacts to ecosystems. More information is needed regarding how much debris exists on th…
View article: Assessing the Global and Local Uncertainty of Scientific Evidence in the Presence of Model Misspecification
Assessing the Global and Local Uncertainty of Scientific Evidence in the Presence of Model Misspecification Open
Scientists need to compare the support for models based on observed phenomena. The main goal of the evidential paradigm is to quantify the strength of evidence in the data for a reference model relative to an alternative model. This is don…
View article: A Review of Environmental Pollution from the Use and Disposal of Cigarettes and Electronic Cigarettes: Contaminants, Sources, and Impacts
A Review of Environmental Pollution from the Use and Disposal of Cigarettes and Electronic Cigarettes: Contaminants, Sources, and Impacts Open
While the impacts of cigarette smoking on human health are widely known, a less recognized impact of tobacco product use and disposal is environmental pollution. This review discusses the current literature related to cigarette and e-cigar…
View article: Fishing Methods Matter: Comparing the Community and Trait Composition of the Dai (Bagnet) and Gillnet Fisheries in the Tonle Sap River in Southeast Asia
Fishing Methods Matter: Comparing the Community and Trait Composition of the Dai (Bagnet) and Gillnet Fisheries in the Tonle Sap River in Southeast Asia Open
The Tonle Sap Lake and River ecosystem in the Lower Mekong Basin of Southeast Asia is one of the most productive inland fisheries globally but is currently threatened by overfishing, dam construction, and climate change. We compare the cat…
View article: Are Genetic Reference Libraries Sufficient for Environmental DNA Metabarcoding of Mekong River Basin Fish?
Are Genetic Reference Libraries Sufficient for Environmental DNA Metabarcoding of Mekong River Basin Fish? Open
Environmental DNA (eDNA) metabarcoding approaches to surveillance have great potential for advancing biodiversity monitoring and fisheries management. For eDNA metabarcoding, having a genetic reference sequence identified to fish species i…
View article: What do you mean by false positive?
What do you mean by false positive? Open
Misunderstandings regarding the term “false positive” present a significant hurdle to broad adoption of eDNA monitoring methods. Here, we identify three challenges to clear communication of false‐positive error between scientists, managers…
View article: Environmental conditions influence eDNA particle size distribution in aquatic systems
Environmental conditions influence eDNA particle size distribution in aquatic systems Open
Knowledge about the size of environmental DNA (eDNA) and eDNA‐bearing particles in aquatic environments is integral to efficient and sensitive analyses. To explore the influence of environmental factors on eDNA particle size distribution (…
View article: Calibrating Environmental DNA Metabarcoding to Conventional Surveys for Measuring Fish Species Richness
Calibrating Environmental DNA Metabarcoding to Conventional Surveys for Measuring Fish Species Richness Open
The ability to properly identify species present in a landscape is foundational to ecology and essential for natural resource management and conservation. However, many species are often unaccounted for due to ineffective direct capture an…
View article: At <scp>Palmyra Atoll</scp>, the fish‐community environmental <scp>DNA</scp> signal changes across habitats but not with tides
At <span>Palmyra Atoll</span>, the fish‐community environmental <span>DNA</span> signal changes across habitats but not with tides Open
At Palmyra Atoll, the environmental DNA (eDNA) signal on tidal sand flats was associated with fish biomass density and captured 98%–100% of the expected species diversity there. Although eDNA spilled over across habitats, species associate…
View article: Assessing the global and local uncertainty in scientific evidence in the\n presence of model misspecification
Assessing the global and local uncertainty in scientific evidence in the\n presence of model misspecification Open
Scientists need to compare the support for models based on observed\nphenomena. The main goal of the evidential paradigm is to quantify the strength\nof evidence in the data for a reference model relative to an alternative model.\nThis is …
View article: Strong Evidence for an Intraspecific Metabolic Scaling Coefficient Near 0.89 in Fish
Strong Evidence for an Intraspecific Metabolic Scaling Coefficient Near 0.89 in Fish Open
As an example of applying the evidential approach to statistical inference, we address one of the longest standing controversies in ecology, the evidence for, or against, a universal metabolic scaling relationship between metabolic rate an…
View article: High-Throughput Sequencing for Understanding the Ecology of Emerging Infectious Diseases at the Wildlife-Human Interface
High-Throughput Sequencing for Understanding the Ecology of Emerging Infectious Diseases at the Wildlife-Human Interface Open
Rising rates of emerging infectious diseases (EIDs) demand creative, efficient, and integrative investigations to understand their transmission, ecological contingencies, and dynamics at wildlife-human interfaces. High-throughput sequencin…
View article: Detecting Southern California’s White Sharks With Environmental DNA
Detecting Southern California’s White Sharks With Environmental DNA Open
To improve ability to detect white sharks without the need for tags, or visual census, we developed a species-specific environmental DNA (eDNA) assay that targets a 163 bp fragment of the white shark (Carcharodon carcharias) mitochondrial …
View article: Investigating diversity of pathogenic microbes in commercial bait trade water
Investigating diversity of pathogenic microbes in commercial bait trade water Open
The recreational bait trade is a potential pathway for pathogen introduction and spread when anglers dump bait shop sourced water into aquatic systems. Despite this possibility, and previous recognition of the importance of the bait trade …
View article: Peer Review #1 of "Investigating diversity of pathogenic microbes in commercial bait trade water (v0.1)"
Peer Review #1 of "Investigating diversity of pathogenic microbes in commercial bait trade water (v0.1)" Open
The recreational bait trade is a potential pathway for pathogen introduction and spread when anglers dump bait shop sourced water into aquatic systems.Despite this possibility, and previous recognition of the importance of the bait trade i…
View article: Estimating fish alpha- and beta-diversity along a small stream with environmental DNA metabarcoding
Estimating fish alpha- and beta-diversity along a small stream with environmental DNA metabarcoding Open
Environmental DNA (eDNA) metabarcoding has been increasingly applied to biodiversity surveys in stream ecosystems. In stream networks, the accuracy of eDNA-based biodiversity assessment depends on whether the upstream eDNA influx affects d…
View article: Fish community assessment with eDNA metabarcoding: effects of sampling design and bioinformatic filtering
Fish community assessment with eDNA metabarcoding: effects of sampling design and bioinformatic filtering Open
Species richness is a metric of biodiversity that represents the number of species present in a community. Traditional fisheries assessments that rely on capture of organisms often underestimate true species richness. Environmental DNA (eD…