Environmental DNA metabarcoding as an effective and rapid tool for fish monitoring in canals:

McDevitt, Allan D.; Sales, Naiara Guimarães; Browett, Samuel S.; Sparnenn, Abbie O; Mariani, Stefano; Wangensteen, Owen S.; Coscia, Ilaria; Benvenuto, Chiara

doi:10.1101/498451

Cited by 12 publications

(18 citation statements)

References 19 publications

(10 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Previous studies have clearly shown that eDNA metabarcoding is a highly sensitive method for the detection of freshwater fish, which outperforms traditional survey techniques in lentic environments (Handley et al, 2019;Hänfling et al, 2016;Li et al, 2019). This study adds to the mounting evidence that this is also true in lotic environments with unregulated (Bylemans et al, 2018; and regulated flows (McDevitt et al, 2019). Despite the underestimation of true species richness in traditional surveys, when compared to eDNA metabarcoding there was a strong positive correlation between both methods, and thus, the relative importance of sites based on species richness for both methods was related.…”

Section: Fish Community Detection In Pumped Catchmentsmentioning

confidence: 52%

“…Knowledge of the eel distribution and fish community present at these sites is therefore valuable to water managers (Solomon & Wright, 2012), yet due to sampling difficulties the probability of detecting rare and elusive species using traditional methods is lowparticularly in large river systems . Nonetheless, numerous studies in freshwater habitats have demonstrated that environmental DNA (eDNA) monitoring methods can achieve higher detection sensitivity than traditional monitoring techniques (Hänfling et al, 2016;Itakura et al, 2019;McDevitt et al, 2019;Strickland & Roberts, 2018). These molecular monitoring methods are ideal for detecting species with patchy distributions or low abundances, often overlooked by traditional catch methods (Turner et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Environmental DNA metabarcoding provides enhanced detection of the European eel Anguilla anguilla and fish community structure in pumped river catchments

Griffiths

Bolland

Wright

et al. 2020

Journal of Fish Biology

View full text Add to dashboard Cite

The European eel Anguilla anguilla (eel hereafter) is critically endangered and has a catadromous life cycle, which means adult eels that live in pumped catchments must pass through pumps during their downstream spawning migration. Policy makers are currently lacking detailed site-by-site eel distribution information to estimate the overall impact of individual pumping stations on eel escapement, and as such lack the data to enable informed prioritisation of pumping station management and targeted mitigation. This study investigated whether environmental DNA (eDNA) metabarcoding can provide increased detection sensitivity for eel and fish community structure in highly regulated pumped catchments, when compared directly to current standard practice fish survey protocols (seine netting/electric fishing). Eels were detected in 14 of 17 sites (82.4%) using eDNA metabarcoding in contrast to 3 of 17 sites (17.6%) using traditional catch methods. In addition, when using eDNA monitoring, species richness was higher in 16 of 17 sites (94.1%), and site occupancy was greater than or equal to traditional methods for 23 of 26 of the fish species detected (88.5%). Although eDNA methods presented significantly higher average species richness and species site occupancy overall, eDNA and catch methods were positively correlated in terms of species richness and site occupancy. It was therefore found that eDNA metabarcoding was a high-sensitivity method for detecting eels in pumped catchments while also increasing the detection of overall fish community structure compared to traditional catch methods. In addition, this study highlights how eDNA monitoring is especially suited to increase the detection of particular species, with traditional methods sufficient for others. This high sensitivity, coupled with the ability to sample multiple sites in a short time frame, suggests that eDNA metabarcoding workflows could be invaluable tools when prioritising pumping station management.

show abstract

Section: Fish Community Detection In Pumped Catchmentsmentioning

confidence: 52%

Section: Introductionmentioning

confidence: 99%

Environmental DNA metabarcoding provides enhanced detection of the European eel Anguilla anguilla and fish community structure in pumped river catchments

Griffiths

Bolland

Wright

et al. 2020

Journal of Fish Biology

View full text Add to dashboard Cite

show abstract

“…During the past decade, environmental DNA (eDNA) emerged as a rapid, reliable and non‐invasive tool for inventorying fish richness (Pawlowski et al ., 2018; Rees et al ., 2014). Tracing eDNA allows a better species detection compared to traditional EF methods in diverse habitats (Bohmann et al ., 2014; McDevitt et al ., 2019; Valentini et al ., 2016), reducing sampling effort and cost (Evans et al ., 2017). Nonetheless, a major constraint of the eDNA method is its limited ability for the quantitative estimation of fish assemblages.…”

Section: Introductionmentioning

confidence: 99%

Monitoring freshwater fish communities in large rivers using environmental DNA metabarcoding and a long‐term electrofishing survey

Goutte

Molbert

Guérin³

et al. 2020

Journal of Fish Biology

View full text Add to dashboard Cite

Monitoring freshwater fish communities in a large human-impacted river is a challenging task. The structure of fish assemblages has been monitored yearly in the Marne and the Seine Rivers, across the Paris conurbation, France, using traditional electrofishing (EF) surveys since 1990, in accordance with the European Water Framework Directive. In addition, metabarcoding of DNA extracted from environmental samples (eDNA) was concomitantly conducted in nine sampling sites in 2017 and in 2018 to compare the estimates of species richness and relative abundance among three methods: annual, long-term EF monitoring and eDNA. The present study confirms better detection of fish species using eDNA compared to annual EF. eDNA metabarcoding was also more efficient for species detection than a 3-6-year EF survey but was similar or less efficient than a long-term EF survey of 14 years of monitoring. In addition, the numbers of reads per species relative to the total number of reads significantly increased with (a) increasing relative abundance (relative percentage of individuals caught per species) and (b) increasing number of years that a fish species was detected during the 2000-2018 period. These results suggest that eDNA could reflect local population persistence.

show abstract

“…Previous studies have clearly shown that eDNA metabarcoding is a highly sensitive method for detection of freshwater fish which outperforms traditional survey techniques in lentic environments (Hänfling et al, 2016;Handley et al, 2019;Li et al, 2019). This study adds to the mounting evidence that this is also true in lotic environments with unregulated (Bylemans et al, 2018;Pont et al, 2018) and regulated flows (McDevitt et al, 2019). Despite the underestimation of true species richness in traditional surveys, when compared to eDNA metabarcoding there was a strong positive correlation between both methods, and thus the relative importance of sites based on species richness for both methods were related.…”

Section: Fish Community Detection In Pumped Catchmentsmentioning

confidence: 52%

“…However, numerous studies in freshwater habitats have demonstrated that environmental DNA (eDNA) monitoring methods can achieve higher detection sensitivity than traditional monitoring techniques (Hänfling et al, 2016;Pont et al, 2018;Strickland & Roberts, 2018;Itakura et al, 2019;McDevitt et al, 2019). These molecular monitoring methods are ideal for detecting species with patchy distributions or low abundances, often overlooked by traditional catch methods (Turner et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

Environmental DNA metabarcoding provides enhanced detection of the European eelAnguilla anguillaand fish community structure in pumped river catchments

Griffiths

Bolland

Wright

et al. 2020

Preprint

View full text Add to dashboard Cite

The European eel Anguilla anguilla (eel hereafter) is critically endangered and has a catadromous lifecycle, which means adult eels that live in pumped catchments must pass through pumps during their downstream spawning migration. We are currently lacking detailed site-by-site eel distribution information in order to estimate the overall impact of individual pumping stations on eel escapement, and as such lack the data to enable informed prioritisation of pumping station management and targeted mitigation. In this study, we investigated whether environmental DNA (eDNA) metabarcoding can provide increased detection sensitivity for eel and fish community structure in highly regulated pumped catchments, when compared directly to current standard practice fish survey protocols (seine netting/electric fishing). Eels were detected in 14/17 sites (82.4%) using eDNA metabarcoding in contrast to 3/17 (17.6%) using traditional catch methods. Additionally, when using eDNA monitoring species richness was higher in 16/17 sites (94.1%) and site occupancy ≥ traditional methods for 23/26 of the fish species detected (88.5%). While eDNA methods presented significantly higher average species richness and species site occupancy overall, eDNA and Catch methods were positively correlated in terms of species richness and site occupancy. We therefore found that eDNA metabarcoding was a high sensitivity method for detecting eels in pumped catchments, while also increasing the detection of overall fish community structure compared to traditional catch methods. In addition, we highlight how eDNA monitoring is especially suited to increased detection of particular species, with traditional methods sufficient for others. This high sensitivity, coupled with the ability to sample multiple sites in a short time frame suggests eDNA metabarcoding could be an invaluable tool when prioritising pumping station management.

show abstract

Environmental DNA metabarcoding as an effective and rapid tool for fish monitoring in canals:

Cited by 12 publications

References 19 publications

Environmental DNA metabarcoding provides enhanced detection of the European eel Anguilla anguilla and fish community structure in pumped river catchments

Environmental DNA metabarcoding provides enhanced detection of the European eel Anguilla anguilla and fish community structure in pumped river catchments

Monitoring freshwater fish communities in large rivers using environmental DNA metabarcoding and a long‐term electrofishing survey

Environmental DNA metabarcoding provides enhanced detection of the European eelAnguilla anguillaand fish community structure in pumped river catchments

Contact Info

Product

Resources

About