Quantification of eDNA shedding rates from invasive bighead carp Hypophthalmichthys nobilis and silver carp Hypophthalmichthys molitrix

Biological Conservation

Volumn 183, Issue , 2015, Pages 77-84

  Klymus, Katy E ^a   Richter, Catherine A ^b   Chapman, Duane C ^b   Paukert, Craig ^a  

^a UNIVERSITY OF MISSOURI   (United States)

^b US Geological Survey Columbia Environmental Research Center ^*  (United States)

Author keywords

Asian carp; EDNA; Invasive species; QPCR; Species detection

Indexed keywords

BIOMASS; CONSERVATION GENETICS; CYPRINID; DETECTION METHOD; DIET; INVASIVE SPECIES; NUCLEIC ACID ANALYSIS; SPECIES OCCURRENCE; SURVEY; TEMPERATURE EFFECT; WILDLIFE MANAGEMENT;

CYPRINIDAE; HYPOPHTHALMICHTHYS; HYPOPHTHALMICHTHYS MOLITRIX; HYPOPHTHALMICHTHYS NOBILIS;

EID: 84921917001     PISSN: 00063207     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biocon.2014.11.020     Document Type: Article

References (36)

1. ACRCC (Asian Carp Regional Coordinating Committee), 2013. Monitoring and response plan, (24.02.14). http://www.asiancarp.us/monitoring.
2. Bar T., Kubista M., Tichopad A. Validation of kinetics similarity in qPCR. Nucleic Acids Res. 2012, 40:1395-1406.
3. Barnes M.A., Turner C.R., Jerde C.L., Renshaw M.A., Chadderton W.L., Lodge D.M. Environmental conditions influence eDNA persistence in aquatic systems. Environ. Sci. Technol. 2014, 48:1819-1827.
4. Bustin S.A., Benes V., Garson J.A., Hellemans J., Huggett J., Kubista M., Mueller R., Nolan T., Pfaffl M., Shipley G.L., Vandesompele J., Wittwer C.T. The MIQE guidelines: minimum information for publication of quantitative real-time PCR experiments. Clin. Chem. 2009, 55:611-622.
5. Coulter A.A., Keller D., Amberg J.J., Bailey E.J., Goforth R.R. Phenotypic plasticity in the spawning traits of bigheaded carps (Hypophthalmichthys spp.) in novel ecosystems. Freshwater Biol. 2013, 58:1029-1037.
6. Crooks J.A., Soulé M.E. Lag times in population explosions of invasive species: causes and implications. Invasive Species and Biodiversity Management 1999, 103-125. Kluwer Academic Press, Dordrecht. O.T. Sandlund, P.J. Schei, A. Viken (Eds.).
7. Darling J.A., Mahon A.R. From molecules to management: adopting DNA-based methods for monitoring biological invasions in aquatic environments. Environ. Res. 2011, 111:978-988.
8. Dejean T., Valentini A., Duparc A., Pellier-cuit S., Pompanon F., Taberlet P., Miaud C. Persistence of environmental DNA in freshwater ecosystems. PLoS ONE 2011, 6:e23398.
9. Dejean T., Valentini A., Miquel C., Taberlet P., Bellemain E., Miaud C. Improved detection of an alien invasive species through environmental DNA barcoding: the example of the American bullfrog Lithobates catesbeianus. J. Appl. Ecol. 2012, 49:953-959.
10. Ficetola G.F., Miaud C., Pompanon F., Taberlet P. Species detection using environmental DNA from water samples. Biol. Lett. 2008, 4:423-425.
11. Foote A.D., Thomsen P.F., Sveegaard S., Wahlberg M., Kielgast J., Kyhn L.A., Salling A.B., Galatius A., Orlando L., Gilbert M.T. Investigating the potential use of environmental DNA (eDNA) for genetic monitoring of marine mammals. PLoS ONE 2012, 7:e41781.
12. Goldberg C.S., Sepulveda A., Ray A., Baumgardt J., Waits L.P. Environmental DNA as a new methods for early detection of New Zealand mudsnails (Potamopyrgus antipodarum). Freshwater Sci. 2013, 32:792-800.
13. Handelsman J. Metagenomics: application of genomics to uncultured microorganisms. Microbiol. Mol. Biol. Rev. 2004, 68:669-685.
14. Hoorfar J., Malorny B., Cook N., Wagner M., Fach P. Practical considerations in design of internal amplification controls for diagnostic PCR assays. J. Clin. Microbiol. 2004, 42:1863-1868.
15. Hulme P.E. Beyond control: wider implications for the management of biological invasions. J. Appl. Ecol. 2006, 43:835-847.
16. Jerde C.L., Mahon A.R., Chadderton W.L., Lodge D.M. "Sight-unseen" detection of rare aquatic species using environmental DNA. Cons. Lett. 2011, 4:150-157.
17. Ke Z., Xie P., Guo L. Phenotypic plasticity in gut length in the planktivorous filter feeding silver carp (Hypophthalmichthys molitrix). Sci. World J. 2008, 8:169-175.
18. Kolar C.S., Chapman D.C., Courtenay W.R., Housel C.M., Williams J.D., Jennings Q.P. Bigheaded Carps: A Biological Synopsis and Environmental Risk Assessment 2007, American Fisheries Society Special Publication 33, Bethseda, Maryland.
19. Lodge D.M., Turner C.R., Jerde C.L., Barnes M.A., Chadderton L., Egan S.P., Feder J.L., Mahon A.R., Pfrender M.E. Conservation in a cup of water: estimating biodiversity and population abundance from environmental DNA. Mol. Ecol. 2012, 21(2555):2558.
20. Mount Donald I., Brungs W.A A simplified dosing apparatus for fish toxicology studies. Water Res. 1967, 1:21-29.
21. Nichols R.V., Königsson H., Danell K., Spong G. Browsed twig environmental DNA: Diagnostic PCR to identify ungulate species. Mol. Ecol. Resour. 2012, 12:983-989.
22. Olsson J., Quevedo M., Colson C., Svanbäck R. Gut length plasticity in perch: into the bowels of resource polymorphisms. Biol. J. Linn. Soc. 2007, 90:517-523.
23. Pilliod D.S., Goldberg C.S., Arkle R.S., Waits L.P. Estimating occupancy and abundance of stream amphibians using environmental DNA from filtered water samples. Can. J. Fish. Aquat. Sci. 2013, 70:1123-1130.
24. Pilliod D.S., Goldberg C.S., Arkle R.S., Waits L.P. Factors influencing detection of eDNA from stream-dwelling amphibians. Mol. Ecol. Resour. 2014, 14:109-116.
25. Sakai A.K., Allendorf F.W., Holt J.S., Lodge D.M., Molofsky J., With K.A., Baughman S., Cabin R.J., Cohen J.E., Ellstrand N.C., McCauley D.E., O'Neil P., Parker I.M., Thompson J.N., Weller S.G. The population biology of invasive species. Annu. Rev. Ecol. Syst. 2001, 32:305-332.
26. Spear, S.F., Groves, J.D., Williams, L.A., Waits, L.P., 2015. Using environmental DNA methods to improve detectability in a hellbender (Cryptobranchus alleganiensis) monitoring program. Biol. Cons. 183, 38-45.
27. Taberlet P., Coissac E., Hajibabaei M., Riesberg L.H. Environmental DNA. Mol. Ecol. 2012, 21:1789-1793.
28. Takahara T., Minamoto T., Yamanaka H., Kawabata Z. Estimation of fish biomass using environmental DNA. PLoS ONE 2012, 7:e35868.
29. Thomsen, P.F., Willerslev, E., 2015. Environmental DNA - an emerging tool in conservation for monitoring past and present biodiversity. Biol. Cons. 183, 4-18.
30. Thomsen P.F., Kieglast J., Iversen L.L., Møller P.R., Rasmussen M., Willerslev E. Detection of a diverse marine fish fauna using environmental DNA from seawater samples. PLOS One 2012, 7:e41732.
31. Thomsen P.F., Kielgast J., Iversen L.L., Wiuf C., Rasmussen M., Gilbert M.T.P., Orlando L., Willerslev E. Monitoring endangered freshwater biodiversity using environmental DNA. Mol. Ecol. 2012, 21:2565-2573.
32. Travis J.M.J., Dytham C. Dispersal evolution during invasions. Evol. Ecol. Res. 2002, 4(1119):1129.
33. Turner C.R., Barnes M.A., Xu C.C.Y., Jones S.E., Jerde C.L., Lodge D.M. Particle size distribution and optimal capture of aqueous macrobial eDNA. Methods Ecol. Evol. 2014, 5(7):676-684.
34. USACE (U.S. Army Corps of Engineers), 2012. Archived USACE 2012 eDNA sampling results. (24.02.14). http://www.lrc.usace.army.mil.
35. USFWS (U.S. Fish and Wildlife Service), 2013. eDNA results: Chicago area waterway system, (24.02.14). http://www.fws.gov.
36. Willerslev E., Cooper A. Ancient DNA. Proc. R. Soc. B: Biol. Sci. 2005, 272:3-16.