Morphology and life history of Amphora commutata (Bacillariophyta) I: the vegetative cell and phylogenetic position

REFERENCES

• Ács É Ector L., Kiss K.T., Cserháti C., Morales E.A. & Levkov Z. 2011. Morphological observations and emended description of Amphora micrometra from the Bolivian Altiplano, South America. Diatom Research 26: 199–212.
   Web of Science ®Google Scholar
• Archibald R.E.M. & Schoeman F.R. 1984. Amphora coffeaeformis (Agardh) Kützing: a revision of the species under light and electron microscopy. South African Journal of Botany 3: 83–102.
   Web of Science ®Google Scholar
• Bruder K. & Medlin L.K. 2008. Morphological and molecular investigations of naviculoid diatoms. II. Selected genera and families. Diatom Research 23: 283–329.
   Web of Science ®Google Scholar
• Chepurnov V.A. & Mann D.G. 1997. Variation in the sexual behaviour of natural clones of Achnanthes longipes. European Journal of Phycology 32: 147–154.
   Web of Science ®Google Scholar
• Cleve P.T. 1895. Synopsis of naviculoid diatoms. Part 2. In: Kongliga Svenska Vetenskaps-Akademiens Handlingar, Ny Följd vol. 27(3): pp. 1–219. Nordstedt, Stockholm.
   Google Scholar
• Danielidis D.B. & Mann D.G. 2002. The systematics of Seminavis (Bacillariophyta): the lost identities of Amphora angusta, A. ventricosa and A. macilenta. European Journal of Phycology 37: 429–448.
   Web of Science ®Google Scholar
• Elwood H.J., Olsen G.J. & Sogin M.L. 1985. The small subunit ribosomal DNA gene sequences from the hypotrichous ciliates Oxytricha nova and Stylonichia pustulata. Molecular Biology and Evolution 2: 399–410.
   PubMed Web of Science ®Google Scholar
• Gregory W. 1857. New forms of marine Diatomaceae found in the Firth of Clyde and in Loch Fyne. Transactions of the Royal Society of Edinburgh 21: 473–542.
   Google Scholar
• Guillard R.R.L. & Lorenzen C.L. 1972. Yellow-green algae with chlorophyllide c. Journal of Phycology 8: 10–14.
   Web of Science ®Google Scholar
• Hamsher S.E., Evans K.M., Mann D.G., Poulíčková A. & Saunders G.W. 2011. Barcoding diatoms: exploring alternatives to COI-5P. Protist 162: 405–422.
   PubMed Web of Science ®Google Scholar
• Hasle G.R. & Syvertsen E.E. 1996. Marine diatoms. In: Identifying marine diatoms and dinoflagellates (Ed. by C.R. Tomas), pp. 5–385. Academic Press, San Diego.
   Google Scholar
• Huelsenbeck J.P. & Ronquist F. 2001. MRBAYES: Bayesian inference of phylogeny. Bioinformatics 17: 754–755.
   PubMed Web of Science ®Google Scholar
• Jones H.M., Simpson G. E., Stickle A.J. & Mann D.G. 2005. Life history and systematics of Petroneis (Bacillariophyta), with special reference to British waters. European Journal of Phycology 40: 43–71.
   Web of Science ®Google Scholar
• Jong K. 1997. Laboratory manual of plant cytological techniques. Royal Botanic Garden, Edinburgh. 87 pp.
   Google Scholar
• Karayeva N.I. 1987. Some species of the genus Amphora Ehr. in the Caspian Sea. Archiv für Protistenkunde 133: 93–109.
   Google Scholar
• Katoh K., Kuma K., Toh H. & Miyata T. 2005. MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Research 33: 511–518.
   PubMed Web of Science ®Google Scholar
• Krammer K. 1980. Morphologic and taxonomic investigations of some freshwater species of the diatom genus Amphora Ehr. Bacillaria 3: 197–225.
   Google Scholar
• Krammer K. & Lange-Bertalot H. 1986. Bacillariophyceae 1. Teil: Naviculaceae. In: Süsswasserflora von Mitteleuropa (Ed. by H. Ettl, J. Gerloff, H. Heynig & D. Mollenhauer), vol. 2/1. G. Fischer, Stuttgart & New York. xvi + 876 pp.
   Google Scholar
• Levkov Z. 2009. Amphora sensu lato. In: Diatoms of Europe (Ed. by H. Lange-Bertalot), Vol. 5. A.R.G. Gantner Verlag K.G., Ruggell, Liechtenstein. 916 pp.
   Google Scholar
• Mann D.G. 1981. Sieves and flaps: siliceous minutiae in the pores of raphid diatoms. In: Proceedings of the 6th Symposium on Recent and Fossil Diatoms (Ed. by R. Ross), 279–300. O. Koeltz, Koenigstein, Germany.
   Google Scholar
• Mann D.G. 1984. Observations on copulation in Navicula pupula and Amphora ovalis in relation to the nature of diatom species. Annals of Botany 54: 429–438.
   Web of Science ®Google Scholar
• Mann D.G. 1994. The systematics of amphoroid diatoms; the life history of Amphora arcus. Nova Hedwigia 58: 335–352.
   Web of Science ®Google Scholar
• Mann D.G., Sato S., Trobajo R., Vanormelingen P. & Souffreau C. 2010. DNA barcoding for species identification and discovery in diatoms. Cryptogamie: Algologie 31: 557–577.
   Web of Science ®Google Scholar
• Medlin L.K. & Kaczmarska I. 2004. Evolution of the diatoms: V. Morphological and cytological support for the major clades and a taxonomic revision. Phycologia 43: 245–270.
   Web of Science ®Google Scholar
• Medlin L., Elwood H.J., Stickel S. & Sogin M.L. 1988. The characterization of enzymatically amplified eukaryotic 16S-like rRNA coding regions. Gene 71: 491–499.
   PubMed Web of Science ®Google Scholar
• Mereschkowsky C. 1903. Les types de l'endochrome chez les Diatomées. Botanicheskii Zapiski 21: 107–193.
   Google Scholar
• Nagumo T. 2003. Taxonomic studies of the subgenus Amphora Cleve of the genus Amphora (Bacillariophyceae) in Japan. Bibliotheca Diatomologica 49: 1–265.
   Google Scholar
• Peragallo H. & Peragallo M. 1897–1908. Diatomées marines de France. Koeltz Scientific Books, Koenigstein, Germany. 493 pp.
   Google Scholar
• Pruesse E., Quast C., Knittel K., Fuchs B., Ludwig W., Peplies J. & Glöckner F.O. 2007. SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Research 35: 7188–7196.
   PubMed Web of Science ®Google Scholar
• Ronquist F. & Huelsenbeck J.P. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572–1574.
   PubMed Web of Science ®Google Scholar
• Round F.E., & Crawford R.M. 1981. The lines of evolution of the Bacillariophyta I. Origin. Proceedings of the Royal Society of London B 211: 237–260.
   Web of Science ®Google Scholar
• Round F.E., Crawford R.M. & Mann D.G. 1990. The diatoms: biology and morphology of the genera. Cambridge University Press, Cambridge. 747 pp.
   Google Scholar
• Ruck E.C. & Theriot E.C. 2011. Origin and evolution of the canal raphe system in diatoms. Protist 162: 723–737.
   PubMed Web of Science ®Google Scholar
• Sato S. 2010. Valve and girdle band morphogenesis in a bipolar centric diatom Plagiogrammopsis vanheurckii (Cymatosiraceae, Bacillariophyta). European Journal of Phycology 45: 167–176.
   Web of Science ®Google Scholar
• Schoeman F.R. & Archibald R.E.M. 1976. The diatom flora of southern Africa. C.S.I.R. Special Report WAT 50, Pretoria, South Africa.
   Google Scholar
• Shimodaira H. 2002. An approximately unbiased test of phylogenetic tree selection. Systematic Biology 51: 492–508.
   PubMed Web of Science ®Google Scholar
• Shimodaira H. & Hasegawa M. 2001. CONSEL: for assessing the confidence of phylogenetic tree selection. Bioinformatics 17: 1246–1247.
   PubMed Web of Science ®Google Scholar
• Sims P.A., Mann D.G. & Medlin L.K. 2006. Evolution of the diatoms: insights from fossil, biological and molecular data. Phycologia 45: 361–402.
   Web of Science ®Google Scholar
• Smith H.L. 1873. Conspectus of the Diatomaceae. Analysis of the species of the genus Amphora. The Lens; Transactions of the State Microscopical Society of Illinois 2: 65–91.
   Google Scholar
• Stamatakis A. 2006. RaxML-VI-HPC; Maximum likelihood based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688–2690.
   PubMed Web of Science ®Google Scholar
• Tamura K. 1992. Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G + C-content biases. Molecular Biology and Evolution 9: 678–687.
   PubMed Web of Science ®Google Scholar
• Tamura K., Peterson D., Peterson N., Stecher G., Nei M. & Kumar S. 2011. MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Molecular Biology and Evolution 28: 2731–2739.
   PubMed Web of Science ®Google Scholar
• Theriot E.C., Ashworth M., Ruck E.C., Nakov T. & Jansen R.K. 2010. A preliminary multigene phylogeny of the diatoms (Bacillariophyta): challenges for future research. Plant Ecology and Evolution 143: 278–296.
   Web of Science ®Google Scholar
• Tiffany M.A. 2005. Diatom auxospore scales and early stages in diatom frustule morphogenesis: their potential for use in biotechnology. Journal for Nanoscience and Nanotechnology 5: 131–139.
   PubMed Web of Science ®Google Scholar
• Vanelslander B., Creach V., Vanormelingen P., Ernst A., Chepurnov V.A., Sahan E., Muyzer G., Stal L.J., Vyverman W. & Sabbe K. 2009. Ecological differentiation between sympatric pseudocryptic species in the estuarine benthic diatom Navicula phyllepta (Bacillariophyceae). Journal of Phycology 45: 1278–1289.
   PubMed Web of Science ®Google Scholar
• Van Heurck H. 1880. Synopsis des Diatomées de Belgique. Brouwers & Co, Anvers, Belgium. 235 pp.
   Google Scholar
• VanLandingham S.L. 1967. Catalogue of the fossil and recent genera and species of diatoms and their synonyms. Vol. 1. J. Cramer, Lehre, Germany.
   Google Scholar
• Von Stosch H.A. 1975. An amended terminology of the diatom girdle. Nova Hedwigia, Beiheft 53: 1–35.
   Google Scholar
• Witkowski A., Lange-Bertalot H. & Metzeltin D. 2000. Diatom flora of marine coasts I. Iconographia diatomologica, Vol. 7. A.R.G. Gantner Verlag K.G., Ruggell, Liechtenstein. 925 pp.
   Google Scholar