Acetone preservation for zooplankton molecular studies

Journal of Plankton Research

Volumn 35, Issue 5, 2013, Pages 972-981

  Goetze, Erica ^a   Jungbluth, Michelle J ^a  

^a UNIVERSITY OF HAWAII   (United States)

Author keywords

crustaceans; molecular ecology; mtCOI; nucleic acids; plankton; preservation

Indexed keywords

ACETONE; DNA; ETHANOL; MOLECULAR ECOLOGY; POLYMERASE CHAIN REACTION; PRESERVATION; SEAWATER; ZOOPLANKTON;

EID: 84883471584     PISSN: 01427873     EISSN: 14643774     Source Type: Journal    
DOI: 10.1093/plankt/fbt035     Document Type: Article

References (39)

1. Anbutsu, H. and Fukatsu, T. (2010) Evasion, suppression and tolerance of Drosophila innate immunity by a male-klling Spiroplasma endosymbiont. In sect Mol. Biol., 19, 481-488.
2. Braendle, C., Caillaud, M. C. and Stern, D. L. (2005) Genetic mapping of aphicarus-a sex-linked locus controlling a wing polymorphism in the pea aphid (Acyrthosiphon pisum). Heredity, 94, 435-442.
3. Bucklin, A. (2000) Methods for population genetic analysis of zooplankton. In : Harris, R. P., Wiebe, P. H., Lenz, J., Skjoldal, H. R. and Huntley, M. (eds), ICES Zooplankton Methodology Manual. Academic Press, San Diego, San Francisco, New York, Boston, London, Sydney, Tokyo.
4. Bustin, S. A., Benes, V., Garson, J. A. et al. (2009) The MIQE guidelines: Minimum information for publication of quantitative real-time PCR experiments. Clin. Chem., 55, 611-622.
5. Cleary, A. C., Durbin, E. G. and Rynearson, T. A. (2012) Krill feeding on sediment in the Gulf of Maine (North Atlantic). Mar. Ecol. Prog. Ser., 455, 157-172.
6. Dawson, M. N., Raskoff, K. A. and Jacobs, D. K. (1998) Field preservation of marine invertabrate tissue for DNA analyses. Mol. Mar. Biol. Biotechnol., 7, 145-152.
7. Durbin, E. G., Casas, M. C., Rynearson, T. A. et al. (2008) Measurement of copepod predation on nauplii using qPCR of the cytochrome oxidase I gene. Mar. Biol., 153, 699-707.
8. Frampton, M., Droege, S., Conrad, T. et al. (2008) Evaluation of specimen preservatives for DNA analyses of bees. J. Hym. Res., 17, 195-200.
9. Fukatsu, T. (1999) Acetone preservation: A practical technique for molecular analysis. Mol. Ecol., 8, 1935-1945.
10. Goetze, E. (2005) Global population genetic structure and biogeography of the oceanic copepods, Eucalanus hyalinus and E. spinifer. Evolution, 59, 2378-2398.
11. Goetze, E. (2010) Species discovery through large-scale molecular screening in the planktonic copepod family Eucalanidae. Mol. Ecol., 19, 952-967.
12. Goetze, E. (2011) Population differentiation in the open sea: Insights from the pelagic copepod Pleuromamma xiphias. Integr. Comp. Biol., 51, 580-597.
13. Gorokhova, E. (2003) Relationships between nucleic acid levels and egg production rates in Acartia bifilosa: Implications for growth assessment of copepods in the northern Baltic proper. Mar. Ecol. Prog. Ser., 262, 163-172.
14. Gorokhova, E. (2005) Effects of preservation and storage of microcrustaceans in RNAlater on RNA and DNA degradation. Limnol. Oceanogr. Methods, 3, 143-148.
15. Gusmão, L. F. M. and McKinnon, A. D. (2011) Nucleic acid indices of egg production in the tropical copepod Acartia sinjiensis. J. Exp. Mar. Biol. Ecol., 396, 122-137.
16. Holzmann, M. and Pawlowski, J. (1996) Preservation of foraminifera for DNA extraction and PCR amplification. J. Foramin. Res., 26, 264-267.
17. Ivey, J. L. and Santos, S. R. (2007) The complete mitochondrial genome of the Hawaiian anchialine shrimp Halocaridina rubra Holthuis, 1963 (Crustacea: Decapoda: Atyidae). Gene, 394, 35-44.
18. Jungbluth, M. J., Goetze, E. and Lenz, P. H. (in press) Measuring copepod naupliar abundance in a subtropical bay using quantitative PCR. Mar. Biol.
19. Kikuchi, Y., Hosokawa, T., Nikoh, N. et al. (2009) Host-symbiont co-speciation and reproductive genome evolution in gut symbiotic bacteria of acanthosomatid stinkbugs. BMC Biol., 7. Article No 2. doi 10.1186/1741-7007-7-2.
20. Koski, M., Yebra, L., Dutz, J. et al. (2012) The effect of egg versus seston quality on hatching success, naupliar metabolism and survival of Calanus finmarchicus in mesocosms dominated by Phaeocystis and diatoms. Mar. Biol., 159, 643-660.
21. Larionov, A., Krause, A. and Miller, W. (2005) A standard curve based method for relative real time PCR data processing. BMC Bioinformatics, 6, 62.
22. Lenz, P. H., Unal, E., Hassett, R. P. et al. (2012) Functional genomics resources for the North Atlantic copepod, Calanus finmarchicus: EST database and physiological microarray. Comp. Biochem. Physiol. D Genomics Proteomics, 7, 110-123.
23. Mancini, E., De Biase, A., Mariotinni, P. et al. (2008) Structure and evolution of the mitochondrial control region of the pollen beetle Meligethes thalassophilus (Coleoptera: Nitidulidae). Genome Res., 51, 196-207.
24. Matsuura, Y., Kikuchi, Y., Meng, X. Y. et al. (2012) Novel clade of alphaproteobacterial endosymbionts associated with stinkbugs and other arthropods. Appl. Environ. Microb., 78, 4149-4156.
25. McKinnon, A. D., Duggan, S., Nichols, P. D. et al. (2003) The potential of tropical paracalanid copepods as live feeds in aquaculture. Aquaculture, 223, 89-106.
26. Nagy, Z. T. (2010) A hands-on overview of tissue preservation methods for molecular genetic analyses. Org. Divers Evol., 10, 91-105.
27. Nejstgaard, J. C., Frischer, M. E., Simonelli, P. et al. (2008) Quantitative PCR to estimate copepod feeding. Mar. Biol., 153, 565-577.
28. Peijnenburg, K. T. C. A., Breeuwer, J. A. J., Pierrot-Bults, A. C. et al. (2004) Phylogeography of the planktonic chaetognath Sagitta setosa reveals isolation in European seas. Evolution, 58, 1472-1487.
29. Peijnenburg, K. T. C. A., Fauvelot, C., Breeuwer, J. A. J. et al. (2006) Spatial and temporal genetic structure of the planktonic Sagitta setosa (Chaetognatha) in European seas as revealed by mitochondrial and nuclear DNA markers. Mol. Ecol., 15, 3319-3338.
30. Reiss, R., Schwert, D. P. and Ashworth, A. C. (1995) Field preservation of Coleoptera for molecular genetic analyses. Environ. Entomol., 24, 716-719.
31. Remerie, T., Vierstrate, A., Weekers, P. H. H. et al. (2009) Phylogeography of an estuarine mysid, Neomysis integer (Crustacea, Mysida), along the north-east Atlantic coasts. J. Biogeogr., 36, 39-54.
32. Rynearson, T. A. and Armbrust, E. V. (2005) Maintenance of clonal diversity during a spring bloom of the centric diatom Ditylum brightwellii. Mol. Ecol., 14, 1631-1640.
33. Santos, S. R. andWeese, D. A. (2011) Rocks and clocks: Linking geologic history and rates of genetic differentiation in anchialine organisms. Hydrobiologia, 677, 53-64.
34. Scheinberg, R. D. (2004) Food web structure and trophic dynamics of a subtropical plankton community, with an emphasis on appendicularians. PhD Thesis. University of Hawaii at Manoa, Honolulu.
35. Simonelli, P., Troedsson, C., Nejstgaard, J. C. et al. (2009) Evaluation of DNA extraction and handling procedures for PCR-based copepod feeding studies. J. Plankton Res., 31, 1465-1474.
36. VanderLugt, K., Cooney, M. J., Lechner, A. et al. (2009) Cultivation of the Paracalanid Copepod, Bestiolina similis (Calanoida: Crustacea). J.World Aquacult. Soc., 40, 616-628.
37. VanderLugt, K. and Lenz, P. H. (2008) Management of nauplius production in the paracalanid, Bestiolina similis (Crustacea : Copepoda): Effects of stocking densities and culture dilution. Aquaculture, 276, 69-77.
38. Vrede, T., Perrson, J. and Aronsen, G. (2002) The influence of food quality (P:C) ratio on RNA:DNA ratio and somatic growth rate of Daphnia. Limnol. Oceanogr., 47, 487-494.
39. Wagner, M., Durbin, E. G. and Buckley, L. B. (1998) RNA:DNA ratios as indicators of nutritional condition in the copepod Calanus finmarchicus. Mar. Ecol. Prog. Ser., 162, 173-181.