Novel approach using flocculation to concentrate edna to search for early invasions of specific aquatic invasive species Active
Early detection systems for aquatic nuisance species have been improved by the advancement of polymerase chain reactions that amplify DNA sequences for decoding.
These methods have been used to identify prey of invasive fishes and detect occurrence of nuisance species when macro-organism survey methods fail. In some cases, detection of nuisance species that could reproduce require molecular methods, such as in the case with triploid grass carp that are caught in Maryland but stocked in neighboring states. While broadly useful, molecular methods have not been evaluated as early detection tools in tidal or non-tidal waters of Maryland. Such evaluation is necessary to: 1) ensure that well-established protocols used elsewhere are effectively assimilated by state agencies in Maryland; 2) develop infrastructure for conducting the work in the State; 3) provide relevant, regional information to statewide constituents; and 4) establish the limitations of the results in managing aquatic nuisance species in Maryland. Results of this study will be useful beyond Maryland’s needs as the invasive species targeted for investigation in this study are problematic in other areas and nationally.
Objectives:
- The primary objective is to analyze molecular data to examine the relationship of relative abundance and concentration of a suite of invasive plant, animal, and microbe environmental DNA in water samples using a novel concentration method.
- Published eDNA analysis may not exist for some target species of interest. Methods will be developed for these.
References:
Bronnenhuber, J.E., and Wilson, C.C., 2013, Combining species-specific COI primers with environmental DNA analysis for targeted detection of rare freshwater species: Conservation Genetics Resources, v. 5, no. 4, p. 971-975.
Cary, S.C., Coyne, K.J., Rueckert, A., Wood, S.A., Kelly, S., Gemmill, C.E.C., Vieglais, C., and Hicks, B.J., 2014, Development and validation of a quantitative PCR assay for the early detection and monitoring of the invasive diatom Didymosphenia geminata: Harmful Algae, v. 36, p. 63-70.
Dorazio, R.M., and Erickson, R.A., 2018, ednaoccupancy: An r package for multiscale occupancy modelling of environmental DNA data: Molecular Ecology Resources, v. 18, no. 2, p. 368-380.
Dougherty, M.M., Larson, E.R., Renshaw, M.A., Gantz, C.A., Egan, S.P., Erickson, D.M., and Lodge, D.M., 2016, Environmental DNA (eDNA) detects the invasive rusty crayfish Orconectes rusticus at low abundances: J Appl Ecol, v. 53, no. 3, p. 722-732.
Galluzzi, L., Bertozzini, E., Penna, A., Perini, F., Pigalarga, A., Graneli, E., and Magnani, M., 2008, Detection and quantification of Prymnesium parvum (Haptophyceae) by real-time PCR: Letters in Applied Microbiology, v. 46, no. 2, p. 261-266.
Gingera, TD, Bajno, R., Docker, MF, and Reist, JD , 2017, Environmental DNA as a detection tool for zebra mussels Dreissena polymorpha (Pallas, 1771) at the forefront of an invasion event in Lake Winnipeg, Manitoba, Canada. Management of Biological Invasions (2017) Volume 8, Issue 3: 287–300 DOI: https://doi.org/10.3391/mbi.2017.8.3.03
Mahon, A.R., Jerde, C.L., Galaska, M., Bergner, J.L., Chadderton, W.L., Lodge, D.M., Hunter, M.E., and Nico, L.G., 2013, Validation of eDNA Surveillance Sensitivity for Detection of Asian Carps in Controlled and Field Experiments: PLOS ONE, v. 8, no. 3, p. e58316.
Matsuhashi, S., Doi, H., Fujiwara, A., Watanabe, S., and Minamoto, T., 2016, Evaluation of the Environmental DNA Method for Estimating Distribution and Biomass of Submerged Aquatic Plants: PLOS ONE, v. 11, no. 6, p. e0156217.
Christopher M. Merkes, Keith N. Turnquist, Christopher B. Rees, and Jon J. Amberg. Validation of eDNA Markers for New Zealand Mudsnail Surveillance and Initial eDNA Monitoring at Mississippi River Basin Sites. Open-File Report 2015-1037.
JEREMY NEWTON, ADAM SEPULVEDA, KEVIN SYLVESTER, AND RYAN A. THUM*,2016. Potential utility of environmental DNA for early detection of Eurasian watermilfoil (Myriophyllum spicatum). J. Aquat. Plant Manage. 54: 46–49.
Turner, C.R., Miller, D.J., Coyne, K.J., and Corush, J., 2014, Improved methods for capture, extraction, and quantitative assay of environmental DNA from Asian bigheaded carp (Hypophthalmichthys spp.): PLoS One, v. 9, no. 12, p. e114329.
Early detection systems for aquatic nuisance species have been improved by the advancement of polymerase chain reactions that amplify DNA sequences for decoding.
These methods have been used to identify prey of invasive fishes and detect occurrence of nuisance species when macro-organism survey methods fail. In some cases, detection of nuisance species that could reproduce require molecular methods, such as in the case with triploid grass carp that are caught in Maryland but stocked in neighboring states. While broadly useful, molecular methods have not been evaluated as early detection tools in tidal or non-tidal waters of Maryland. Such evaluation is necessary to: 1) ensure that well-established protocols used elsewhere are effectively assimilated by state agencies in Maryland; 2) develop infrastructure for conducting the work in the State; 3) provide relevant, regional information to statewide constituents; and 4) establish the limitations of the results in managing aquatic nuisance species in Maryland. Results of this study will be useful beyond Maryland’s needs as the invasive species targeted for investigation in this study are problematic in other areas and nationally.
Objectives:
- The primary objective is to analyze molecular data to examine the relationship of relative abundance and concentration of a suite of invasive plant, animal, and microbe environmental DNA in water samples using a novel concentration method.
- Published eDNA analysis may not exist for some target species of interest. Methods will be developed for these.
References:
Bronnenhuber, J.E., and Wilson, C.C., 2013, Combining species-specific COI primers with environmental DNA analysis for targeted detection of rare freshwater species: Conservation Genetics Resources, v. 5, no. 4, p. 971-975.
Cary, S.C., Coyne, K.J., Rueckert, A., Wood, S.A., Kelly, S., Gemmill, C.E.C., Vieglais, C., and Hicks, B.J., 2014, Development and validation of a quantitative PCR assay for the early detection and monitoring of the invasive diatom Didymosphenia geminata: Harmful Algae, v. 36, p. 63-70.
Dorazio, R.M., and Erickson, R.A., 2018, ednaoccupancy: An r package for multiscale occupancy modelling of environmental DNA data: Molecular Ecology Resources, v. 18, no. 2, p. 368-380.
Dougherty, M.M., Larson, E.R., Renshaw, M.A., Gantz, C.A., Egan, S.P., Erickson, D.M., and Lodge, D.M., 2016, Environmental DNA (eDNA) detects the invasive rusty crayfish Orconectes rusticus at low abundances: J Appl Ecol, v. 53, no. 3, p. 722-732.
Galluzzi, L., Bertozzini, E., Penna, A., Perini, F., Pigalarga, A., Graneli, E., and Magnani, M., 2008, Detection and quantification of Prymnesium parvum (Haptophyceae) by real-time PCR: Letters in Applied Microbiology, v. 46, no. 2, p. 261-266.
Gingera, TD, Bajno, R., Docker, MF, and Reist, JD , 2017, Environmental DNA as a detection tool for zebra mussels Dreissena polymorpha (Pallas, 1771) at the forefront of an invasion event in Lake Winnipeg, Manitoba, Canada. Management of Biological Invasions (2017) Volume 8, Issue 3: 287–300 DOI: https://doi.org/10.3391/mbi.2017.8.3.03
Mahon, A.R., Jerde, C.L., Galaska, M., Bergner, J.L., Chadderton, W.L., Lodge, D.M., Hunter, M.E., and Nico, L.G., 2013, Validation of eDNA Surveillance Sensitivity for Detection of Asian Carps in Controlled and Field Experiments: PLOS ONE, v. 8, no. 3, p. e58316.
Matsuhashi, S., Doi, H., Fujiwara, A., Watanabe, S., and Minamoto, T., 2016, Evaluation of the Environmental DNA Method for Estimating Distribution and Biomass of Submerged Aquatic Plants: PLOS ONE, v. 11, no. 6, p. e0156217.
Christopher M. Merkes, Keith N. Turnquist, Christopher B. Rees, and Jon J. Amberg. Validation of eDNA Markers for New Zealand Mudsnail Surveillance and Initial eDNA Monitoring at Mississippi River Basin Sites. Open-File Report 2015-1037.
JEREMY NEWTON, ADAM SEPULVEDA, KEVIN SYLVESTER, AND RYAN A. THUM*,2016. Potential utility of environmental DNA for early detection of Eurasian watermilfoil (Myriophyllum spicatum). J. Aquat. Plant Manage. 54: 46–49.
Turner, C.R., Miller, D.J., Coyne, K.J., and Corush, J., 2014, Improved methods for capture, extraction, and quantitative assay of environmental DNA from Asian bigheaded carp (Hypophthalmichthys spp.): PLoS One, v. 9, no. 12, p. e114329.