Phylogenetic analysis of Alexandrium species and Pyrodinium bahamense (Dinophyceae) based on theca morphology and nuclear ribosomal gene sequence

REFERENCES

• Adachi M., Sako Y. & Ishida Y. 1996. Analysis of Alexandrium (Dinophyceae) species using sequences of the 5.8S ribosomal DNA and internal transcribed spacer regions. Journal of Phycology 32: 424–432.
   Web of Science ®Google Scholar
• Anderson D.M. 1998. Physiology and bloom dynamics of toxic Alexandrium species, with emphasis on life cycle transitions. In: Physiological ecology of harmful algal blooms (Ed. by D.M. Anderson, A.D. Cembella & G.M. Hallegraeff), pp. 13–27. NATO ASI Series Vol. G 41. Springer, Berlin, Germany.
   Google Scholar
• Anderson D.M., Kulis D.M., Doucette G.J., Gallagher J.C. & Balech E. 1994. Biogeography of toxic dinoflagellates in the genus Alexandrium from the northeastern United States and Canada. Marine Biology (Berlin) 120: 467–478.
   Web of Science ®Google Scholar
• Balech E. 1985. A redescription of Pyrodinium bahamense. Plate (Dinoflagellata). Review of Paleaobotany and Palynology 45: 17–34.
   Web of Science ®Google Scholar
• Balech E. 1989. Redescription of Alexandrium minutum Halim (Dinophyceae) type species of the genus Alexandrium. Phycologia 28: 206–211.
   Web of Science ®Google Scholar
• Balech E. 1995. The genus Alexandrium Halim (dinoflagellata). Sherkin Island Marine Station, Cork, Ireland. 151 pp.
   Google Scholar
• Barrett M.J., Donoghue M.J. & Sober E. 1991. Against consensus. Systematic Zoology 40: 486–493.
   Google Scholar
• Daugbjerg N., Hansen G., Larsen J. & Moestrup Ø. 2000. Phylogeny of some of the major genera of dinoflagellates based on ultra-structure and partial LSU rDNA sequence data, including the erection of three new genera of unarmoured dinoflagellates. Phycologia 39: 302–317.
   Web of Science ®Google Scholar
• Destombe C., Cembella A.D., Murphy C.A. & Ragan M.A. 1992. Nucleotide sequence of the 18S ribosomal RNA genes from the marne dinoflagellate Alexandrium tamarense (Gonyaulacales, Dinophyta). Phycologia 31: 121–124.
   Web of Science ®Google Scholar
• Donoghue M.J. & Sanderson M.J. 1992. The suitability of molecular and morphological evidence in reconstructing plant phylogeny. In: Molecular systematics in plants (Ed. by F.S. Soltis, D.E. Soltis & J.J. Doyle), pp. 340–368. Chapman and Hall, New York, USA.
   Google Scholar
• Doyle J.J. 1992. Gene trees and species trees: molecular systematics as one-character taxonomy. Systematic Botany 17: 144–163.
   Web of Science ®Google Scholar
• Farris J.S., Källersjo M., Kluge A.G. & Bult C. 1995. Testing significance of incongruence. Cladistics 10: 315–319.
   Web of Science ®Google Scholar
• Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783–791.
   PubMed Web of Science ®Google Scholar
• Fensome R.A., Taylor F.J.R., Norris G., Sarjeant W.A.S., Wharton D.I. & Williams G.J. 1993. A classification of living and fossil dinoflagellates. Micropaleontology. American Museum Natural History Special Publ. 7. American Museum of Natural History, Washington, DC, USA. 351 pp.
   Google Scholar
• Fukuyo Y. 1985. Morfology of Protogonyaulax tamarensis (Lebour) Taylor and Protogonyaulax catenella (Whedon and Kofoid) Taylor from Japanese coastal waters. Bulletin of Marine Science 37: 529–537.
   Web of Science ®Google Scholar
• Fukuyo Y., Yoshida K. & Inoue H. 1985. Protogonyaulax in Japanese costal waters. In: Toxic Dinoflagellates (Ed. by D.M. Anderson, A.W. White & D.G. Baden), pp. 27–32. Elsevier, North Holland.
   Google Scholar
• Fukuyo Y., Pholpunthin P. & Yoshida K. 1988. Protogonyaulax (Dinophyceae) in the Gulf of Thailand. Bulletin of the Plankton Society of Japan 35: 9–20.
   Google Scholar
• Hall, T. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41: 95–98.
   Google Scholar
• Hansen G., Daugbjerg N. & Franco J.M. 2003. Morphology, toxin composition and LSU rDNA phylogeny of Alexandrium minutum (Dinophyceae) from Denmark, with some morphological observations on other European strains. Harmful Algae 2: 317–335.
   Web of Science ®Google Scholar
• Hasegawa M. & Hashimoto T. 1993. Ribosomal RNA trees misleading. Nature 361: 23.
   PubMed Web of Science ®Google Scholar
• Higman W.A., Stone D.M. & Lewis J.M. 2001. Sequence comparison of toxic and non-toxic Alexandrium tamarense (Dinophyceae) isolates from UK waters. Phycologia 40: 256–262.
   Web of Science ®Google Scholar
• Huelsenbeck J.P. & Ronquist F. 2001. MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17: 754–755.
   PubMed Web of Science ®Google Scholar
• John U., Fensome R.A. & Medlin L.K. 2003. The application of a molecular clock based on molecular sequences and the fossil record to explain biogeographic distributions within the Alexandrium tamarense “species complex” (Dinophyceae). Molecular Biology and Evolution 20: 1015–1027.
   PubMed Web of Science ®Google Scholar
• Kluge A.G. 1989. A concern for evidence and a phylogenetic hypothesis of relationships among Epicrates (Boidae, Serpentes). Systematic Zoology 9: 183–199.
   Google Scholar
• Kokinos J.P. & Anderson D.M. 1995. Morphological development of resting cysts in cultures of the marine dinoflagellate Lingulodinium polyedrum (= L. machaerophorum). Palynology 19: 143–166.
   Google Scholar
• MacKenzie L. & Todd K. 2002. Alexandrium camurascutulum sp. nov. (Dinophyceae): a new dinoflagellate species from New Zealand. Harmful Algae 1: 295–300.
   Web of Science ®Google Scholar
• MacKenzie L., De Salas M., Adamson J. & Beuzenberg V. 2004. The dinoflagellate genus Alexandrium (Halim) in New Zealand coastal waters: comparative morphology, toxicity and molecular genetics. Harmful Algae 3: 71–92.
   Web of Science ®Google Scholar
• Maddison W.P. & Maddison D.R. 2004. Mesquite: a modular system for evolutionary analysis. Version 1.01. http://mesquiteproject.org.
   Google Scholar
• Medlin L.K., Lange M., Wellbrock U., Donner G., Elbrächter M., Hummert C. & Luckas B. 1998. Sequence comparisons link toxic European isolates of Alexandrium tamarense from the Orkney Islands to toxic American stocks. European Journal of Protistology 34: 329–335.
   Web of Science ®Google Scholar
• Montresor M., John U., Beran A. & Medlin L.K. 2004. Alexandrium tamutum sp. nov. (Dinophyceae): a new nontoxic species in the genus Alexandrium. Journal of Phycology 40: 398–411.
   Web of Science ®Google Scholar
• Moore W.S. 1995. Inferring phylogenies from mtDNA variation: mitochondrial-gene trees versus nuclear-gene trees. Evolution 49: 718–726.
   PubMed Web of Science ®Google Scholar
• Posada D. & Crandall K.A. 1998. Modeltest: testing the model of DNA substitution. Bioinformatics 14: 817–818.
   PubMed Web of Science ®Google Scholar
• Posada D. & Crandall K.A. 2001. Selecting the best-fit model of nucleotide substitution. Systematic Biology 50: 580–601.
   PubMed Web of Science ®Google Scholar
• Sako Y., Uchida A. & Ishida Y. 1985. Electrophoretic analysis of isozymes in red tide dinoflagellates (Gymnodinium nagasakiense, Protogonyaulax tamarensis, and Peridinium bipes). In: Red Tides: biology, environmental science and toxicology (Ed. by T. Okaichi, D.M. Anderson & T. Nemoto), pp. 325–328. Elsevier, New York, USA.
   Google Scholar
• Sako Y., Kim C.M., Ninomiya H., Adachi M. & Ishida Y. 1990. Isozyme and cross analysis of mating populations in the Alexandrium catenella/tamarense species complex. In: Toxic marine phytoplankton (Ed. by E. Graneli, B. Sundstrom, L. Edler & D.M. Anderson), pp. 320–323. Elsevier, New York, USA.
   Google Scholar
• Scholin C.A. 1993. Analysis of toxic and non-toxic Alexandrium (Dinophyceae) species using ribosomal RNA gene sequences. PhD thesis. WHOI, Woods Hole, Massachusetts, USA.
   Google Scholar
• Scholin C.A. 1998. Morphological, genetic, and biogeographic relationships of the toxic dinoflagellates Alexandrium tamarense, A. catenella, and A. fundyense. In: Physiological ecology of harmful algal blooms (Ed. by D.M. Anderson, A.D. Cembella & G.M. Hallegraeff), pp. 13–27. NATO ASI Series Vol. G 41. Springer, Berlin, Germany.
   Google Scholar
• Scholin C.A. & Anderson D.M. 1996. LSU rDNA-based assays for discriminating species and strains of Alexandrium (Dinophyceae). Journal of Phycology 32: 1022–1035.
   Web of Science ®Google Scholar
• Scholin C.A., Herzog M., Sogin M. & Anderson D.M. 1994. Identification of group and strain specific genetic markers for globally distributed Alexandrium (Dinophyceae). II. Sequence analysis of a fragment of the LSU rRNA gene. Journal of Phycology 30: 999–1011.
   Web of Science ®Google Scholar
• Scholin C.A., Hallegraeff G.M. & Anderson D.M. 1995. Molecular evolution of the Alexandrium tamarense species complex (Dinophyceae): dispersal in the North American and West Pacific region. Phycologia 34: 472–485.
   Web of Science ®Google Scholar
• Steidinger K.A. & Tangen K. 1985. Taxonomy and systematics. In: Toxic dinoflagellates (Ed. by D.M. Anderson, A.W. White & D.G. Baden), pp. 534–537. Elsevier, North Holland, New York, USA.
   Google Scholar
• Steidinger K.A., Tester L.S. & Taylor F.J.R. 1980. A redescription of Pyrodinium bahamense var. compressa (Böhm) stat. nov. from Pacific red tides. Phycologia 19: 329–337.
   Web of Science ®Google Scholar
• Swofford D.L. 2000. PAUP*: phylogenetic analysis using parsimony (*and other methods). Version 4.0b10. Sinauer Associates, Sunderland, Massachusetts, USA.
   Google Scholar
• Taylor F.J.R. 1976. Dinoflagellates from the Indian Ocean Expedition. Bibliotheca Botanica 132: 1–234 + 46 pls.
   Google Scholar
• Taylor F.J.R. 1984. Toxic dinoflagellates: taxonomic and biogeographic aspects with emphasis on Protogonyaulax. In: Seafood toxins (Ed. by E.P. Ragelis), pp. 77–97. American chemical Society Symposium Series No. 262, Washington, DC, USA.
   Google Scholar
• Taylor F.J.R. 1987. The biology of dinoflagellates. Blackwell, Oxford, UK. 785 pp.
   Google Scholar
• Taylor F.J.R. & Fukuyo Y. 1998. The neurotoxigenic dinoflagellate genus Alexandrium Halim: general introduction. In: Physiological ecology of harmful algal blooms (Ed. by D.M. Anderson, A.D. Cembella & G.M. Hallegraeff), pp. 81–94. NATO ASI Series Vol. G 41. Springer, Berlin, Germany.
   Google Scholar
• Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F. & Higgin D.G. 1997. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nuclei Acid Research 24: 4876–4882.
   Web of Science ®Google Scholar
• Usup G., Leaw C.P., Asmat A. & Lim P.T. 2002a. Alexandrium (Dinophyceae) species in Malaysian waters. Harmful Algae 1: 265–275.
   Web of Science ®Google Scholar
• Usup G., Leaw C.P., Ahmad A. & Lim P.T. 2002b. Phylogenetic relationship of Alexandrium tamiyavanichii (Dinophyceae) to other Alexandrium species based on ribosomal RNA gene sequences. Harmful Algae 1: 59–68.
   Google Scholar
• Yang Z. & Roberts D. 1995. On the use of nucleic acid sequences to infer early branchings in the tree of life. Molecular Biology and Evolution 12: 451–458.
   Web of Science ®Google Scholar