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ARTICLE

Comparison of American Fisheries Society (AFS) Standard Fish Sampling Techniques and Environmental DNA for Characterizing Fish Communities in a Large Reservoir

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Pages 1010-1027 | Received 26 Oct 2016, Accepted 09 Jun 2017, Published online: 10 Aug 2017

References

  • ADWR (Arizona Department of Water Resources). 2014a. Active management area surface water hydrology. ADWR, Phoenix. Available: http://www.azwater.gov/azdwr/StatewidePlanning/WaterAtlas/ActiveManagementAreas/PlanningAreaOverview/SurfaceWaterHydrology.htm. ( June 2014).
  • ADWR (Arizona Department of Water Resources). 2014b. Salt River watershed. ADWR, Phoenix.
  • AZGFD (Arizona Game and Fish Department). 2013. Where to fish? Central Arizona. Available: https://www.azgfd.com/fishing/locations/central. ( October 2013).
  • Barnes, M. A., C. R. Turner, C. L. Jerde, M. A. Renshaw, W. L. Chadderton, and D. M. Lodge. 2014. Environmental conditions influence eDNA persistence in aquatic systems. Environmental Science and Technology 48:1819–1827.
  • Bonar, S. A., W. A. Hubert, and D. W. Willis. 2009. Standard methods for sampling North American freshwater fishes. American Fisheries Society, Bethesda, Maryland.
  • Coble, D. W. 1992. Predicting population density of Largemouth Bass from electrofishing catch per effort. North American Journal of Fisheries Management 12:650–652.
  • Dejean, T., A. Valentini, A. Duparc, S. Pellier-Cuit, F. Pompanon, P. Taberlet, and C. Miaud. 2011. Persistence of environmental DNA in freshwater ecosystems. PLOS (Public Library of Science) ONE [online serial] 6(8):e23398.
  • Dejean, T., A. Valentini, C. Miquel, P. Taberlet, E. Bellemain, and C. Miaud. 2012. Improved detection of an alien invasive species through environmental DNA barcoding: the example of the American bullfrog Lithobates catesbeianus. Journal of Applied Ecology 49:953–959.
  • Engelsma, M. Y., S. Hougee, D. Nap, M. Hofenk, J. H. Rombout, W. B. van Muiswinkel, and B. L. Verburg-van Kemenade. 2003. Multiple acute temperature stress affects leucocyte populations and antibody responses in Common Carp, Cyprinus carpio L. Fish and Shellfish Immunology 15:397–410.
  • Fago, D. 1998. Comparison of littoral fish assemblages sampled with a mini-fyke net or with a combination of electrofishing and small-mesh seine in Wisconsin lakes. North American Journal of Fisheries Management 18:731–738.
  • Farrington, H. L., C. E. Edwards, X. Guan, M. R. Carr, K. Baerwaldt, and R. F. Lance. 2015. Mitochondrial genome sequencing and development of genetic markers for the detection of DNA of invasive Bighead and Silver carp (Hypophthalmichthys nobilis and H. molitrix) in environmental water samples from the United States. PLOS (Public Library of Science) ONE [online serial] 10(2):e0117803.
  • Ficetola, G. F., C. Miaud, F. Pompanon, and P. Taberlet. 2008. Species detection using environmental DNA from water samples. Biology Letters 4:423–425.
  • Goldberg, C. S., A. Sepulveda, A. Ray, J. Baumgardt, and L. P. Waits. 2013. Environmental DNA as a new method for early detection of New Zealand mudsnails (Potamopyrgus antipodarum). Freshwater Science 32:792–800.
  • Google Earth. 2014. Theodore Roosevelt Lake, 33°42ʹ47.97ʹʹN, 111°16ʹ37.58ʹʹW ( October 2015). Available: https://earth.google.com/web/@33.70096515,-111.10932555,651.8385223a,38680.4631989d,35y,0h,0t,0r/data=CloaWBJSCiUweDg3MmJlNzJkN2QzYjE0Mzc6MHhlODA5YTM1ZTg1MjlmMWQ1GRYNvtXf10BAIaEzxAzox1vAKhdUaGVvZG9yZSBSb29zZXZlbHQgTGFrZRgCIAE. (July 2017).
  • Hall, T. J. 1986. Electrofishing catch per hour as an indicator of Largemouth Bass density in Ohio impoundments. North American Journal of Fisheries Management 6:397–400.
  • Ham, L. K. 1995. Historical overview and limnological reconnaissance of Theodore Roosevelt Lake, Arizona. U.S. Geological Survey, Report 95-4053, Tucson, Arizona.
  • Hayes, M. L. 1983. Active fish capture methods. Pages 123–145 in L. A. Nielsen and D. L. Johnson, editors. Fisheries techniques. American Fisheries Society, Bethesda, Maryland.
  • Hickley, P., and A. Starkie. 1985. Cost effective sampling of fish populations in large water bodies. Journal of Fish Biology 27:151–161.
  • Hill, T. D., and D. W. Willis. 1994. Influence of water conductivity on pulsed AC and pulsed DC electrofishing catch rates for Largemouth Bass. North American Journal of Fisheries Management 14:202–207.
  • Hubert, W. A. 1983. Passive capture techniques. Pages 95–122 in L. A. Nielsen and D. L. Johnson, editors. Fisheries techniques. American Fisheries Society, Bethesda, Maryland.
  • Jacks, S., S. Sharon, R. E. Kinnunen, D. K. Britton, D. Jensen, and S. S. Smith. 2009. Controlling the spread of invasive species while sampling. Pages 217–221 in S. A. Bonar, W. A. Hubert, and D. W. Willis, editors. Standard methods for sampling North American freshwater fishes. American Fisheries Society, Bethesda, Maryland.
  • Jackson, J. R., and R. L. Noble. 1995. Selectivity of sampling methods for juvenile Largemouth Bass in assessments of recruitment processes. North American Journal of Fisheries Management 15:408–418.
  • Jerde, C. L., A. R. Mahon, W. L. Chadderton, and D. M. Lodge. 2011. “Sight‐unseen” detection of rare aquatic species using environmental DNA. Conservation Letters 4:150–157.
  • Lacoursière-Roussel, A., M. Rosabal, and L. Bernatchez. 2016. Estimating fish abundance and biomass from eDNA concentrations: variability among capture methods and environmental conditions. Molecular Ecology Resources 16:1401–1414.
  • Laramie, M. B., D. S. Pilliod, and C. S. Goldberg. 2015. Characterizing the distribution of an endangered salmonid using environmental DNA analysis. Biological Conservation 183:29–37.
  • Leung, B., D. M. Lodge, D. Finnoff, J. F. Shogren, M. A. Lewis, and G. Lamberti. 2002. An ounce of prevention or a pound of cure: bioeconomic risk analysis of invasive species. Proceedings of the Royal Society of London B: Biological Science 269:2407–2413.
  • Mahon, A. R., C. L. Jerde, M. Galaska, J. L. Bergner, W. L. Chadderton, D. M. Lodge, M. E. Hunter, and L. G. Nico. 2013. Validation of eDNA surveillance sensitivity for detection of Asian carps in controlled and field experiments. PLOS (Public Library of Science) ONE [online serial] 8(3):e58316.
  • McInerny, M. C., and D. J. Degan. 1993. Electrofishing catch rates as an index of Largemouth Bass population density in two large reservoirs. North American Journal of Fisheries Management 13:223–228.
  • Michaletz, P. H. 1998. Population characteristics of Gizzard Shad in Missouri reservoirs and their relation to reservoir productivity, mean depth, and sport fish growth. North American Journal of Fisheries Management 18:114–123.
  • Miller, R. R. 1960. Systematics and biology of the Gizzard Shad (Dorosoma cepedianum) and related fishes. U.S. Fish and Wildlife Service Fishery Bulletin 173.
  • Minamoto, T., H. Yamanaka, T. Takahara, M. N. Honjo, and Z. I. Kawabata. 2012. Surveillance of fish species composition using environmental DNA. Limnology 13:193–197.
  • Miranda, L. E., and J. Boxrucker. 2009. Warmwater fish in large standing waters. Pages 29–40 in S. A. Bonar, W. A. Hubert, and D. W. Willis, editors. Standard methods for sampling North American freshwater fishes. American Fisheries Society, Bethesda, Maryland.
  • Person-Le Ruyet, J., K. Mahe, N. Le Bayon, and H. Le Delliou. 2004. Effects of temperature on growth and metabolism in a Mediterranean population of European Sea Bass, Dicentrarchus labrax. Aquaculture 237:269–280.
  • Peterson, J. T., and C. P. Paukert. 2009. Converting nonstandard fish sampling data to standardized data. Pages 195–212 in S. A. Bonar, W. A. Hubert, and D. W. Willis, editors. Standard methods for sampling North American freshwater fishes. American Fisheries Society, Bethesda, Maryland.
  • Pilliod, D. S., C. S. Goldberg, R. S. Arkle, and L. P. Waits. 2013. Estimating occupancy and abundance of stream amphibians using environmental DNA from filtered water samples. Canadian Journal of Fisheries and Aquatic Sciences 70:1123–1130.
  • Pimentel, D., L. Lach, R. Zuniga, and D. Morrison. 2000. Environmental and economic costs of nonindigenous species in the United States. BioScience 50:53–65.
  • Pope, K. L., and D. W. Willis. 1996. Seasonal influences on freshwater fisheries sampling data. Reviews in Fisheries Science 4:57–73.
  • R Core Team. 2012. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna. Available: http://www.R-project.org/ (July 2017).
  • Rudstam, L. G., J. J. Magnuson, and W. M. Tonn. 1984. Size selectivity of passive fishing gear: a correction for encounter probability applied to gill nets. Canadian Journal of Fisheries and Aquatic Sciences 41:1252–1255.
  • Ruetz, C. R. III, D. G. Uzarski, D. M. Krueger, and E. S. Rutherford. 2007. Sampling a littoral fish assemblage: comparison of small-mesh fyke netting and boat electrofishing. North American Journal of Fisheries Management 27:825–831.
  • Savino, J. F., and R. A. Stein. 1989. Behavior of fish predators and their prey: habitat choice between open water and dense vegetation. Environmental Biology of Fishes 24:287–293.
  • SRP (Salt River Project). 2015. Theodore Roosevelt Dam. SRP, Tempe, Arizona. Available: http://www.srpnet.com/water/dams/roosevelt.aspx. (January 2015).
  • Strickler, K. M., A. K. Fremier, and C. S. Goldberg. 2015. Quantifying effects of UV-B, temperature, and pH on eDNA degradation in aquatic microcosms. Biological Conservation 183:85–92.
  • Sutherland, W. J. 2006. Ecological census techniques: a handbook. Cambridge University Press, Cambridge, UK.
  • Takahara, T., T. Minamoto, H. Yamanaka, and H. Doi. 2013. Using environmental DNA to estimate the distribution of an invasive fish species in ponds. PLOS (Public Library of Science) ONE [online serial] 8(2):e56584.
  • Takahara, T., T. Minamoto, H. Yamanaka, H. Doi, and Z. I. Kawabata. 2012. Estimation of fish biomass using environmental DNA. PLOS (Public Library of Science) ONE [online serial] 7(4):e35868.
  • Takahara, T., H. Yamanaka, A. A. Suzuki, M. N. Honjo, T. Minamoto, R. Yonekura, T. Itayama, Y. Kohmatsu, T. Ito, and Z. I. Kawabata. 2011. Stress response to daily temperature fluctuations in Common Carp, Cyprinus carpio L. Hydrobiologia 675:65–73.
  • Thomsen, P. F., J. Kielgast, L. L. Iversen, C. Wiuf, M. Rasmussen, M. T. P. Gilbert, L. Orlando, and E. Willerslev. 2012. Monitoring endangered freshwater biodiversity using environmental DNA. Molecular Ecology 21:2565–2573.
  • Turner, C. R., K. L. Uy, and R. C. Everhart. 2015. Fish environmental DNA is more concentrated in aquatic sediments than surface water. Biological Conservation 183:93–102.
  • USFWS (U.S. Fish and Wildlife Service). 2013. Quality assurance project plan eDNA monitoring of Bighead and Silver carps. USFWS, Region 3, Bloomington, Minnesota.
  • Weaver, M. J., J. J. Magnuson, and M. K. Clayton. 1993. Analyses for differentiating littoral fish assemblages with catch data from multiple sampling gears. Transactions of the American Fisheries Society 122:1111–1119.
  • Wilcox, T. M., K. S. McKelvey, M. K. Young, S. F. Jane, W. H. Lowe, A. R. Whiteley, and M. K. Schwartz. 2013. Robust detection of rare species using environmental DNA: the importance of primer specificity. PLOS (Public Library of Science) ONE [online serial] 8(3):e59520.

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