scholarly journals A quantitative PCR based environmental DNA assay for detecting Atlantic salmon (Salmo salar L.)

2017 ◽  
Author(s):  
Siobhán Atkinson ◽  
Jeannette E.L. Carlsson ◽  
Bernard Ball ◽  
Damian Egan ◽  
Mary Kelly-Quinn ◽  
...  
Keyword(s):  
Atlantic Salmon ◽  
Quantitative Pcr ◽  
Salmo Salar ◽  
Environmental Dna ◽  
Coi Gene ◽  
List Type ◽  
The Pacific ◽  
Invasive Method ◽  
Species Specific ◽  
A Minor

AbstractThe Atlantic salmon (Salmo salar L.) has worldwide ecological, cultural and economic importance. The species has undergone extensive decline across its native range, yet concerns have been raised about its invasive potential in the Pacific. Knowledge on the distribution of this species is vital for addressing conservation goals.This study presents an eDNA assay to detect S. salar in water samples, using quantitative PCR (qPCR) technology. Species-specific primers and a minor groove binding (MGB) probe were designed for the assay, based on the mitochondrial cytochrome oxidase I (COI) gene.The results of this study indicate that eDNA is a highly sensitive tool for detecting S. salar in situ, and could potentially provide an alternative, non-invasive method for determining the distribution of this species.

scholarly journals A quantitative PCR-based environmental DNA assay for detecting Atlantic salmon (Salmo salar L.)

2018 ◽  
Vol 28 (5) ◽  
pp. 1238-1243 ◽  
Author(s):  
Siobhán Atkinson ◽  
Jeanette E.L. Carlsson ◽  
Bernard Ball ◽  
Damian Egan ◽  
Mary Kelly-Quinn ◽  
...  
Keyword(s):  
Atlantic Salmon ◽  
Quantitative Pcr ◽  
Salmo Salar ◽  
Environmental Dna ◽  
Dna Assay ◽  
Atlantic Salmon Salmo Salar

scholarly journals Field validation of an eDNA assay for the endangered white-clawed crayfish Austropotamobius pallipes

2019 ◽  
Author(s):  
Siobhán Atkinson ◽  
Jeanette E.L. Carlsson ◽  
Bernard Ball ◽  
Mary Kelly-Quinn ◽  
Jens Carlsson
Keyword(s):  
Coi Gene ◽  
Specific Primers ◽  
Austropotamobius Pallipes ◽  
Non Invasive ◽  
Lotic System ◽  
Invasive Method ◽  
Species Specific ◽  
A Minor ◽  
It Knowledge ◽  
Mitochondrial Cytochrome Oxidase

AbstractThe white-clawed crayfish Austropotamobius pallipes has undergone extensive declines within its native range in the last century. Because of its threatened status, European legislation requires the species to be regularly monitored and that Special Areas of Conservation (SACs) be designated for it. Knowledge on the distribution of this species is vital for addressing these needs. This study presents an environmental (e)DNA assay to detect A. pallipes in water samples, based on the mitochondrial cytochrome oxidase I (COI) gene, utilizing species-specific primers, a minor groove binding (MGB) probe and quantitative PCR. The results of this study indicate that eDNA is an effective tool for detecting A. pallipes in a lotic system, and could provide a valuable, non-invasive method for determining the distribution of this species.

scholarly journals Application of Quantitative-PCR to Monitor Netpen Sites in British Columbia (Canada) for Tenacibaculum Species

Pathogens ◽  
2021 ◽  
Vol 10 (4) ◽  
pp. 414
Author(s):  
Joseph P. Nowlan ◽  
Scott R. Britney ◽  
John S. Lumsden ◽  
Spencer Russell
Keyword(s):  
Atlantic Salmon ◽  
Quantitative Pcr ◽  
Salmo Salar ◽  
Bacterial Load ◽  
Temporal Distribution ◽  
Quality Parameters ◽  
Antimicrobial Use ◽  
Live Fish ◽  
Dead Fish ◽  
Pcr Assays

Tenacibaculum are frequently detected from fish with tenacibaculosis at aquaculture sites; however, information on the ecology of these bacteria is sparse. Quantitative-PCR assays were used to detect T. maritimum and T. dicentrarchi at commercial Atlantic salmon (Salmo salar) netpen sites throughout several tenacibaculosis outbreaks. T. dicentrarchi and T. maritimum were identified in live fish, dead fish, other organisms associated with netpens, water samples and on inanimate substrates, which indicates a ubiquitous distribution around stocked netpen sites. Before an outbreak, T. dicentrarchi was found throughout the environment and from fish, and T. maritimum was infrequently identified. During an outbreak, increases in the bacterial load in were recorded and no differences were recorded after an outbreak supporting the observed recrudescence of mouthrot. More bacteria were recorded in the summer months, with more mortality events and antibiotic treatments, indicating that seasonality may influence tenacibaculosis; however, outbreaks occurred in both seasons. Relationships were identified between fish mortalities and antimicrobial use to water quality parameters (temperature, salinity, dissolved oxygen) (p < 0.05), but with low R2 values (<0.25), other variables are also involved. Furthermore, Tenacibaculum species appear to have a ubiquitous spatial and temporal distribution around stocked netpen sites, and with the potential to induce disease in Atlantic salmon, continued research is needed.

scholarly journals Development of species-specific Cichla species eDNA primers for alien invasive species (AIS) monitoring in Malaysia

2021 ◽  
Vol 4 ◽  
Author(s):  
O. Nurul Fizatul Nabilah ◽  
A. R. Ramizah ◽  
A. B. Adibah ◽  
S. Syazwan ◽  
A.G. Intan Faraha ◽  
...  
Keyword(s):  
Dna Sequences ◽  
Environmental Dna ◽  
Coi Gene ◽  
Alien Invasive Species ◽  
Survey Method ◽  
Specific Primers ◽  
Invasive Fishes ◽  
Specific Amplification ◽  
Species Specific ◽  
High Level

Peacock bass or the cichlids are known locally as top predator fishes which are invasive in Malaysia freshwater system. Detection probabilities for these fishes are typically low, especially using conventional capture-survey method due to the fish’s behaviour of hiding beneath the water’s surface. Hence, the environmental DNA (eDNA) monitoring is a relatively new approach that can be used to assess the distribution of these invasive fishes. Here, we report the strategy to develop small fragment (280- 400 bp) specific-specific primers for three selected invasive Cichla species namely, C. ocellaris, C. monoculus, and C. kelberi based on mitochondrial DNA (mtDNA) sequences. Current research showed that the developed species-specific primers from cytochrome oxidase I (COI) gene has high resolution at species level. Species-specific amplification tests also proved the specificity of the developed primers, securing the high- level species identification potential which may help in controlling the spread of alien invasive fish species.

scholarly journals Piscirickettsia salmonis shedding and tissue burden, and hematological responses during cohabitation infections in chum Oncorhynchus keta, pink O. gorbuscha and Atlantic salmon Salmo salar

PLoS ONE ◽  
2021 ◽  
Vol 16 (3) ◽  
pp. e0248098
Author(s):  
Amy Long ◽  
Simon R. M. Jones
Keyword(s):  
Atlantic Salmon ◽  
Salmo Salar ◽  
Chum Salmon ◽  
Infected Fish ◽  
Pathogen Transmission ◽  
Oncorhynchus Keta ◽  
Tissue Burden ◽  
Piscirickettsia Salmonis ◽  
Species Specific ◽  
Tank Water

Background Salmonid rickettsial septicemia is an emergent and geographically widespread disease of marine-farmed salmonids caused by infection with the water-borne bacterium Piscirickettsia salmonis. Very little is known about the route, timing, or magnitude of bacterial shedding from infected fish. Methodology/principal findings A cohabitation challenge model was used to assess shedding from chum Oncorhynchus keta, pink O. gorbuscha and Atlantic salmon Salmo salar. Infections in donor fish were established by intraperitoneal injection of P. salmonis. Naïve recipients were cohabitated with donor fish after which cumulative percent morbidity and mortality (CMM) was monitored, and bacterial burdens in kidney and in tank water were measured by qPCR. All donor fish died with mean days-to-death (MDD) among species ranging from 17.5 to 23.9. Among recipients, CMM ranged from 42.7% to 77.8% and MDD ranged from 49.7 to 56.4. In each trial, two peaks of bacterial DNA concentrations in tank water closely aligned with the MDD values of donor and recipient fish. Bacterial tissue burden and shedding rate, and plasma physiological parameters were obtained from individual donors and recipients. Statistically significant positive correlations between the shedding rate and P. salmonis kidney burden were measured in donor pink and in donor and recipient chum salmon, but not in donor or recipient Atlantic salmon. In Atlantic salmon, there was a negative correlation between kidney bacterial burden and hematocrit, plasma Ca++ and Mg++ values, whereas in infected chum salmon the correlation was positive for Na+ and Cl- and negative for glucose. Conclusions A dependency of bacterial shedding on species-specific patterns of pathogenesis was suggested. The coincidence of bacterial shedding with mortality will inform pathogen transmission models.

Lack of species-specific primer effects of odours from female Atlantic salmon, Salmo salar , and brown trout, Salmo trutta

Oikos ◽  
2000 ◽  
Vol 88 (1) ◽  
pp. 213-220 ◽  
Author(s):  
K. Håkan Olsén ◽  
Rickard Bjerselius ◽  
Erik Petersson ◽  
Torbjörn Järvi ◽  
Ian Mayer ◽  
...  
Keyword(s):  
Atlantic Salmon ◽  
Salmo Salar ◽  
Brown Trout ◽  
Salmo Trutta ◽  
Specific Primer ◽  
Atlantic Salmon Salmo Salar ◽  
Brown Trout Salmo Trutta ◽  
Species Specific
Sign in / Sign up

Export Citation Format

Share Document