Species-specific detection and quantification of environmental DNA from marine fishes in the Baltic Sea

@article{Knudsen2019SpeciesspecificDA,
  title={Species-specific detection and quantification of environmental DNA from marine fishes in the Baltic Sea},
  author={Steen Wilhelm Knudsen and Rasmus Bach Ebert and Martin Hessels{\o}e and Franz Kuntke and Jakob Hassingboe and Peter Bondgaard Mortensen and Philip Francis Thomsen and Eva Egelyng Sigsgaard and Brian Klitgaard Hansen and Einar E. Nielsen and Peter Rask M{\o}ller},
  journal={Journal of Experimental Marine Biology and Ecology},
  year={2019}
}

From DNA to biomass: opportunities and challenges in species quantification of bulk fisheries products

Fisheries enforcement relies on visual catch identification and quantification at sea or when landed. Silage (fish dissolved in acid) and fish blocks (block frozen fish) are promising methods for

Using environmental DNA methods to improve detectability in an endangered sturgeon (Acipenser sinensis) monitoring program

TLDR
The results prove the efficacy of eDNA for monitoring reproductive stock of the Chinese sturgeon and the e decreased eDNA concentration reflect that ChineseSturgeon may survive with an extremely small number of reproductive stock in the Yangtze River.

A comparison of European eel Anguilla anguilla eDNA concentrations to fyke net catches in five Irish lakes

TLDR
It is demonstrated that eDNA sampling is more sensitive for detecting eel presence in low eel population environments than standard survey methods, and may be a useful non-invasive tool for monitoring A. anguilla species distribution.

Comparing environmental DNA metabarcoding and underwater visual census to monitor tropical reef fishes

Environmental DNA (eDNA) analysis is a revolutionary method to monitor marine biodiversity from animal DNA traces. Examining the capacity of eDNA to provide accurate biodiversity measures in

Similarities and Differences in Fish Community Composition Accessed by Electrofishing, Gill Netting, Seining, Trawling, and Water eDNA Metabarcoding in Temperate Reservoirs

It is difficult to understand the composition and diversity of biological communities in complex and heterogeneous environments using traditional sampling methods. Recently, developments in

Development of a Quantitative PCR Assay for Four Salmon Species Inhabiting the Yangyangnamdae River Using Environmental DNA

TLDR
Four species-specific primer sets that showed high specificity and sensitivity in both tissue and environmental DNA (eDNA) samples collected from the Yangyangnamdae River produced standardized and realistic eDNA profiles for the four salmon species, suggesting that the newly developed qPCR assays are a useful tool for the management of Oncorhynchus resources in Korean waters.

Analysis of a coastal North Sea fish community: Comparison of aquatic environmental DNA concentrations to fish catches

TLDR
Comparison results from daily fyke catches in the Marsdiep tidal inlet on two locations and results from weekly fish eDNA analyses on three locations show patterns in eDNA concentration corresponded to patterns in wet mass for the eight most abundant fish species in the fykes despite changes in water temperature and changes in fish size class.

Environmental DNA metabarcoding primers for freshwater fish detection and quantification: In silico and in tanks

TLDR
A case study targeting six freshwater fish species supports the potential for eDNA metabarcoding to assess species diversity in natural ecosystems and provides an alternative strategy to evaluate the performance of candidate primers before application of e DNA metabarcode innatural ecosystems.
...

References

SHOWING 1-10 OF 92 REFERENCES

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

TLDR
This study demonstrates that eDNA reads can be used as a qualitative and quantitative proxy for marine fish assemblages in deepwater oceanic habitats as well as to monitoring effects of ongoing climate change on marine biodiversity—especially in polar ecosystems.

Detection of a Diverse Marine Fish Fauna Using Environmental DNA from Seawater Samples

TLDR
It is demonstrated that even small samples of seawater contain eDNA from a wide range of local fish species, which indicates the potential of using metabarcoding of environmental DNA (eDNA) obtained directly from seawater samples to account for marine fish biodiversity.

Quantitative monitoring of multispecies fish environmental DNA using high-throughput sequencing

TLDR
The calculated copy numbers showed significant positive correlation with those determined by quantitative PCR, suggesting that eDNA metabarcoding with standard DNA enabled useful quantification of eDNA, and for samples that show a high level of PCR inhibition, the method might allow more accurate quantification than qPCR.

Tracing European eel in the diet of mesopelagic fishes from the Sargasso Sea using DNA from fish stomachs

TLDR
It is documents that mesopelagic fishes in the Sargasso Sea to some extent predate the A. anguilla larvae, motivating further studies on upper-level trophic interactions in this oceanic ecosystem.

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

TLDR
It is concluded that eDNA generally provides a ‘snapshot’ of fish distribution and biomass in a large area and a best-fit model included echo intensity obtained within 10–150 m from water sampling sites, indicating that the estimated eDNA concentration most likely reflects fish biomass within 150 m in the bay.

Species detection using environmental DNA from water samples

TLDR
A novel approach, based on the limited persistence of DNA in the environment, to detect the presence of a species in fresh water, using specific primers that amplify short mitochondrial DNA sequences to track the existence of a frog in controlled environments and natural wetlands.

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

TLDR
It is suggested that eDNA analysis is a useful tool to estimate fish abundance/biomass as well as their spatial distribution in rivers.

Estimation of Fish Biomass Using Environmental DNA

TLDR
An eDNA method to estimate the biomass of common carp using laboratory and field experiments and demonstrates that the distribution of carp eDNA concentration was explained by water temperature, suggesting that biomass data estimated from e DNA concentration reflects the potential distribution ofCommon carp in the natural environment.

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

TLDR
The results illustrate the potential for eDNA sampling and metabarcode approaches to improve quantification of aquatic species diversity in natural environments and point the way towards using eDNA metabarcoding as an index of macrofaunal species abundance.
...