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A routine method of DNA-extraction from extremely small metazoans, e.g. single rotifer specimens for RAPD-PCR analyses

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Abstract

A simple and efficient method has been developed for isolating genomic DNA from single specimens of extremely small metazoan animals, e.g. rotifers (Rotifera: Monogononta). The amount and quality of the extracted DNA allows the Random Amplified Polymorphic DNA Polymerase Chain Reaction (RAPD-PCR) to be employed with up to three random primers per specimen. Reproducibility of RAPD-fingerprints has been checked and verified. Exemplarily, RAPD patterns of three Brachionus species (B. angularis, B. calyciflorus, B. urceolaris) amplified with the primer OPA 07 are demonstrated.

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References

  • Bahl, A. & M. Pfenniger, 1996. A rapid method of DNA isolation using laundry detergent. Nucleic Acids Res. 24: 1587–1588.

    Google Scholar 

  • Burr, M. D. & I. L. Pepper, 1997. Variability in presence-absence scoring of AP PCR fingerprints affects computer matching of bacterial isolates. J. Microbiol. Meth. 29: 63–68.

    Google Scholar 

  • Cenis, J. L., P. Perez & A. Fereres, 1993. Identification of aphid species and clones by random amplified polymorphic DNA. Ann. ent. Soc. Am. 86: 545–550.

    Google Scholar 

  • Dumont, H. J., 1983. Biogeography of rotifers. Hydrobiologia 104 (Dev. Hydrobiol. 14): 19–30.

    Google Scholar 

  • E.A.S.Y. WIN 32® (Gelanalyses / RAPD-Muster-Erkennung). Herolab, Wiesloch.

  • Efron, B., 1979. Bootstraping methods: another look at the jackknife. Ann. Stat. 7: 1–26.

    Google Scholar 

  • Felsenstein, J., 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783–791.

    Google Scholar 

  • Gomez, A., C. Clabby & G. R. Carvalho, 1998. Isolation and characterization of microsatellite loci in a cyclically parthenogenetic rotifer, Brachionus plicatilis. Molec. Ecol. 7: 1619–1621.

    Google Scholar 

  • Hardrys, H., M. Balick & B. Schierwater, 1992. Applications of random amplified polymorphic DNA (RAPD) in molecular ecology. Molec. Ecol. 1: 55–63.

    Google Scholar 

  • Hardrys, H., B. Schierwater, S. L. Dellaporta, R. Desalle & L. W. Buss, 1993. Determination of paternity in dragonflies by random amplified polymorphic DNA fingerprinting. Molec. Ecol. 2: 79–87.

    Google Scholar 

  • He, Q., M. K. Viljanen & J. Mertsola, 1994. Effects of thermocyclers and primers on the reproducibility of banding patterns in randomly amplified polymorphic DNA analysis. Mol. Cell. Probes 8: 155–160.

    Google Scholar 

  • Hillis, D. M. & J. J. Bull, 1993. An empirical test of bootstrapping as a method for assessing confidence in phylogenetic analysis. Syst. Bot. 42: 182–192.

    Google Scholar 

  • Jersabek, C. D., 1996. Verbreitung, Ökologie und Taxonomie von Rädertieren (Rotifera) in alpinen Gewässern der Hohen Tauern und der nördlichen Kalkalpen. Ber. Nat.-med. Ver. Salzburg 11: 73–145.

    Google Scholar 

  • King, C. E., 1977. Genetics of reproduction, variation, and adaptation in rotifers. Ergeb. Limnol. 8: 187–201.

    Google Scholar 

  • King, C. E., 1980. The genetic structure of zooplankton populations. In Kerfoot, W. C. (ed.), Evolution and Ecology of Zooplankton Populations. Univ. Press of New England, New Hampshire: 315–328.

    Google Scholar 

  • King, C. E., 1989. Molecular genetics of rotifers: preliminary restriction mapping of the mitochondrial genome of Brachionus plicatilis. In Ricci, C., T. W. Snell & C. E. King (eds), Rotifer Symposium V. Hydrobiologia 186/187 (Dev. Hydrobiol. 52): 375–380.

  • King, C. E. & Y. Zhao, 1987. Coexistence of rotifer (Brachionus plicatilis) clones in Lake Soda, Nevada. In May, L., R. Wallace & A. Herzig (eds), Rotifer Symposium IV. Hydrobiologia 147: 57–64.

  • Koste, W., 1978. Die Rädertiere Mitteleuropas (Ñ.-Ordn. Monogononta). Begr von M. Voigt. 2 Vols. Borntraeger, Stuttgart, 673 pp. + 234 pl.

    Google Scholar 

  • Koste, W. & R. J. Shiel, 1983. Morphology, systematics and ecology of new monogonont Rotifera (Rotatoria) from the Alligator Rivers Region, Northern Territory. Trans. R. Soc. S. Aust. 107: 109–121.

    Google Scholar 

  • Markevich, G. I. & Kutikova, L.A., 1989. Mastax morphology under SEM and its usefulness in reconstructing rotifer phylogeny & systematics. Hydrobiologia 186/187 (Dev. Hydrobiol. 52): 285–289.

    Google Scholar 

  • Nei, M. & W. H. Li, 1979. Mathematical model for studying genetic variation in terms of restriction endonucleases. Proc. nat. Acad. Sci. U.S.A. 76: 5269–5273.

    Google Scholar 

  • Nipkow, R., 1952. Die Gattung Polyarthra Ehrenberg im Plankton des Zürichsees und einiger anderer Schweizer Seen. Schweiz. Zeitschrift Hydrologie 14: 135–181.

    Google Scholar 

  • Ruttner-Kolisko, A., 1974. Plankton Rotifers. Biology and taxonomy. Die Binnengewässer Suppl.: 1–146.

    Google Scholar 

  • Sambrook, J., E. F. Fritsch & T. Maniatis, 1989. Molecular Cloning-a Laboratory Manual. Cold Spring Harbor, Laboratory Press, Cold Spring Harbor, New York.

    Google Scholar 

  • Schierwater, B., 1995. Arbitrarily amplified DNA in systematics and phylogenetics. Electrophoresis 16: 1643–1647.

    Google Scholar 

  • Schirmacher, A., H. Schmidt & W. Westheide, 1998. RAPD-PCR investigations on sibling species of terrestrial Enchytraeus (Annelida: Oligochaeta). Biochem. Syst. Ecol. 26: 35–44.

    Google Scholar 

  • Schmidt, H. & W. Westheide, 1998. RAPD-PCR Experiments confirm the distinction between three morphologically similar species of Nerilla (Polychaeta: Nerillidae). Zool. Anz. 236: 277–285.

    Google Scholar 

  • Segers, H., G. Murugan & H. J. Dumont, 1993. On the taxonomy of Brachionidae: description of Plationus n. gen. (Rotifera, Monogononta). Hydrobiologia 268: 1–8.

    Google Scholar 

  • Shangkuan, Y. H. & H. C. Lin, 1998. Application of random amplified plymorphic DNA analysis to differentiate strains of Salmonella typhi and other Salmonella species. J. appl. Microb. 85: 693–702.

    Google Scholar 

  • Sneath, P. H. A. & R. R. Sokal, 1973. Numerical taxonomy. W. H. Freeman, San Francisco, California.

    Google Scholar 

  • Starkweather, P. L., 1993. Hierarchal gene trees and molecular phylogeny of the Rotifera: use of the Polymerase Chain Reaction (PCR) to dissect ecological and evolutionary patterns. Hydrobiologia 255/256 (Dev. Hydrobiol. 83): 551–555.

    Google Scholar 

  • Von Soosten, C., H. Schmidt & W. Westheide, 1998. Genetic variability and relationship among geographically widely separated populations of Petitia amphophthalma (Polychaeta: Syllidae). Results from RAPD-PCR investigations. Mar. Biol. 131: 659–669.

    Google Scholar 

  • Walsh, E. J. & P. L. Starkweather, 1993. Analysis of rotifer gene structure using the Polymerase Chain Reaction (PCR). Hydrobiologia 255/256 (Dev. Hydrobiol. 83): 219–224.

    Google Scholar 

  • Welsh, J. & M. Mc Clelland, 1990. Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acid Res. 19: 303–306.

    Google Scholar 

  • Williams, J. K. G., A. R. Kubelik, K. J. Livak, J. A. Rafalski & V. T. Scott, 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res. 18: 6531–6535.

    Google Scholar 

  • Williams, D. J., S. Kazianis & R. B. Walter, 1998. Use of random amplified polymorphic DNA (RAPD) for identification of largemouth bass subspecies and their intergrades. Trans. am. Fish. Soc. 127: 825–832.

    Google Scholar 

  • Zhao, Y. & C. E. King, 1989. Ecological genetics of the rotifer, Brachionus plicatilis in Soda Lake, Nevada. Hydrobiologia 185: 147–181.

    Google Scholar 

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Leutbecher, C. A routine method of DNA-extraction from extremely small metazoans, e.g. single rotifer specimens for RAPD-PCR analyses. Hydrobiologia 437, 133–137 (2000). https://doi.org/10.1023/A:1026546705582

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