Ecological variation within traditional diatom morphospecies: diversity of Frustulia rhomboides sensu lato (Bacillariophyceae) in European freshwater habitats

REFERENCES

• Alverson A.J. 2008. Molecular systematics and the diatom species. Protist 159: 339–353.
   PubMed Web of Science ®Google Scholar
• Amato A., Kooistra W.H.C.F., Ghiron L.J.H., Mann D.G., Pröschold T. & Montresor M. 2007. Reproductive isolation among sympatric cryptic species in marine diatoms. Protist 158: 193–207.
   PubMed Web of Science ®Google Scholar
• Battarbee R.W., Jones V.J., Flower R.J., Cameron N.G., Bennion H., Carvalho L. & Juggins S. 2001. Diatoms. In: Tracking environmental change using lake sediments. Volume 3: terrestrial, algal, and siliceous indicators (Ed. by J.P. Smol, H.J.B. Birks & W.M. Last), pp. 155–202. Kluwer Academic Publishers, Dordrecht, the Netherlands.
   Google Scholar
• Behnke A., Friedl T., Chepurnov V.A. & Mann D.G. 2004. Reproductive compatibility and rDNA sequence analyses in the Sellaphora pupula species complex (Bacillariophyta). Journal of Phycology 40: 193–208.
   Web of Science ®Google Scholar
• Beier T. & Lange-Bertalot H. 2007. A synopsis of cosmopolitan, rare and new Frustulia species (Bacillariophyceae) from ombrotrophic peat bogs and minerotrophic swamps in New Zealand. Nova Hedwigia 85: 73–91.
   Web of Science ®Google Scholar
• Beszteri B., Ács E. & Medlin L.K. 2005. Ribosomal DNA sequence variation among sympatric strains of the Cyclotella meneghiniana complex (Bacillariophyceae) reveals cryptic diversity. Protist 156: 317–333.
   PubMed Web of Science ®Google Scholar
• Boenigk J., Jost S., Stoeck T. & Garstecki T. 2007. Differential thermal adaptation of clonal strains of a protist morphospecies originating from different climatic zones. Environmental Microbiology 9: 593–602.
   Web of Science ®Google Scholar
• Bonnet E. & Van de Peer Y. 2002. ZT: a software tool for simple and partial Mantel tests. Journal of Statistical Software 7: 1–12.
   Google Scholar
• Bookstein F.L. 1997. Landmark methods for forms without landmarks: morphometrics of group differences in outline shape. Medical Image Analysis 1: 225–243.
   PubMedGoogle Scholar
• Casteleyn G., Chepurnov V.A., Leliaert F., Mann D.G., Bates S.S., Lundholm N., Rhodes L., Sabbe K. & Vyverman W. 2008. Pseudo-nitzschia pungens (Bacillariophyceae): a cosmopolitan diatom species? Harmful Algae 7: 241–257.
   Web of Science ®Google Scholar
• Clark A.G. 1990. Inference of haplotypes from PCR-amplified samples of diploid populations. Molecular Biology and Evolution 7: 111–122.
   PubMed Web of Science ®Google Scholar
• Créach V., Ernst A., Sabbe K., Vanelslander B., Vyverman W. & Stal L.J. 2006. Using quantitative PCR to determine the distribution of a semicryptic benthic diatom, Navicula phyllepta (Bacillariophyceae). Journal of Phycology 42: 1142–1154.
   Web of Science ®Google Scholar
• D'alelio D., Amato A., Kooistra W.H.C.F., Procaccini G., Casotti R. & Montresor M. 2009. Internal transcribed spacer polymorphism in Pseudo-nitzschia multistriata (Bacillariophyceae) in the Gulf of Naples: recent divergence or intraspecific hybridization? Protist 160: 9–20.
   PubMed Web of Science ®Google Scholar
• de Queiroz, K. 2005. Ersnt Mayr and the modern concept of species. Proceedings of the National Academy of Sciences 102: 6600–6607.
   PubMed Web of Science ®Google Scholar
• de Queiroz, K. 2007. Species concepts and species delimitation. Systematic Biology 56: 879–886.
   PubMed Web of Science ®Google Scholar
• Edgar S.M. & Theriot E.C. 2004. Phylogeny of Aulacoseira (Bacillariophyta) based on molecules and morphology. Journal of Phycology 40: 772–788.
   Web of Science ®Google Scholar
• Edlund M.B. & Stoermer E.F. 1997. Ecological, evolutionary, and systematic significance of diatom life histories. Journal of Phycology 33: 897–918.
   Web of Science ®Google Scholar
• Evans K.M., Wortley A.H., Simpson G.E., Chepurnov V.A. & Mann D.G. 2008. A molecular systematic approach to explore diversity within the Sellaphora pupula species complex (Bacillariophyta). Journal of Phycology 44: 215–231.
   PubMed Web of Science ®Google Scholar
• Fenchel T. 2005. Cosmopolitan microbes and their “cryptic” species. Aquatic Microbial Ecology 41: 49–54.
   Web of Science ®Google Scholar
• Fenchel T. & Finlay B.J. 2006. The diversity of microbes: resurgence of the phenotype. Philosophical Transactions of the Royal Society B 361: 1695–1973.
   Web of Science ®Google Scholar
• Fránková M., Poulíčková A., Neustupa J., Pichrtová M. & Marvan P. 2009. Geometric morphometrics — a sensitive method to distinguish diatom morphospecies: a case study on the sympatric populations of Reimeria sinuata and Gomphonema tergestinum (Bacillariophyceae) from the River Bečva, Czech Republic. Nova Hedwigia 88: 81–95.
   Web of Science ®Google Scholar
• Hammer Ø., Harper D.A.T. & Ryan P.D. 2001. PAST: paleontological statistics software package for education and data analysis. Palaeontologia Electronica 4: 1–9.
   Google Scholar
• Huelsenbeck J.P. & Ronquist F. 2001. MRBAYES: Bayesian inference of phylogeny. Bioinformatics 17: 754–755.
   PubMed Web of Science ®Google Scholar
• Kociolek J.P. & Stoermer E.F. 2010. Variation and polymorphism in diatoms: the triple helix of development, genetics and environment. A review of the literature. Vie Et Milieu 60: 75–87.
   Web of Science ®Google Scholar
• Kooistra W.H.C.F., Sarno D., Balzano S., Gu H., Andersen R.A. & Zingone A. 2008. Global diversity and biogeography of Skeletonema species (Bacillariophyta). Protist 159: 177–193.
   PubMed Web of Science ®Google Scholar
• Krammer K. & Lange-Bertalot H. 1986. Bacillariophyceae 1. Teil: Naviculaceae. In: Süsswasserflora von Mitteleuropa, Vol. 2/1 (Ed. by H. Ettl, J. Gerloff, H. Heynig & D. Mollenhauer), G. Fischer, Stuttgart, Germany. 876 pp.
   Google Scholar
• Kumar S., Dudley J., Nei M. & Tamura K. 2008. MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Briefings in Bioinformatics 9: 299–306.
   PubMed Web of Science ®Google Scholar
• Lange-Bertalot H. 2001. Navicula sensu stricto. 10 genera separated from Navicula sensu lato. Frustulia. In: Diatoms of Europe, Vol. 2 (Ed. by H. Lange-Bertalot), A.R.G. Gantner, Ruggell, Liechtenstein. 526 pp.
   Google Scholar
• Lange-Bertalot H. & Jahn R. 2000. On the identity of Navicula (Frustulia) rhomboides and Frustulia saxonica (Bacillariophyceae). Systematics and Geography of Plants 70: 255–261.
   Google Scholar
• Lange-Bertalot H. & Metzeltin D. 1996. Indicators of oligotrophy. In: Iconographia Diatomologica, Vol. 2 (Ed. by H. Lange-Bertalot), Koeltz, Königstein, Germany. 390 pp.
   Google Scholar
• Lowe C.D., Day A., Kemp S.J. & Montagnes D.J.S. 2005a. There are high levels of functional and genetic diversity in Oxyrrhis marina. Journal of Eukaryotic Microbiology 52: 250–257.
   PubMed Web of Science ®Google Scholar
• Lowe C.D., Kemp S.J. & Montagnes D.J.S. 2005b. An interdisciplinary approach to assess the functional diversity of free-living microscopic eukaryotes. Aquatic Microbial Ecology 41: 67–77.
   Web of Science ®Google Scholar
• Mann D.G. 1999. The species concept in diatoms. Phycologia 38: 437–495.
   Web of Science ®Google Scholar
• Mann D.G. 2010. Discovering diatom species: is a long history of disagreements about species-level taxonomy now at the end? Plant Ecology and Evolution 143: 251–264.
   Web of Science ®Google Scholar
• Mann D.G. & Evans K. 2007. Molecular genetics and the neglected art of diatomics. In: Unravelling the algae: the past, present, and future of algal systematics (Ed. by J. Brodie & J. Lewis), pp. 231–265. CRC Press, Taylor & Francis group, Boca Raton, Florida.
   Google Scholar
• Mann D.G., McDonald S.M., Bayer M.M., Droop S.J.M., Chepurnov V.A., Loke R.E., Ciobanu A. & du Buf J.M.H. 2004. The Sellaphora pupula species complex (Bacillariophyceae): morphometric analysis, ultrastructure and mating data provide evidence for five new species. Phycologia 43: 459–482.
   Web of Science ®Google Scholar
• Mann D.G., Thomas S.J. & Evans K.M. 2008. Revision of the diatom genus Sellaphora: a first account of the larger species in the British Isles. Fottea 8: 15–78.
   Web of Science ®Google Scholar
• Neustupa J., Šťastný, J., Nemjová K., Mazalová P., Goodyer E., Poulíčková A. & Škaloud, P. 2011. A novel, combined approach to assessing species delimitation and biogeography within the well-known desmid species Micrasterias fimbriata and M. rotata (Desmidiales, Steptophyta). Hydrobiologia 667: 223–239.
   Web of Science ®Google Scholar
• Nylander J.A.A. 2004. MrModeltest v2. Available at: http://www.abc.se/~nylander (12 March 2011).
   Google Scholar
• Philippe H., Sorhannus U., Baroin A., Perasso R., Gasse F. & Adoutte A. 1994. Comparison of molecular and paleontological data in diatoms suggests a major gap in the fossil record. Journal of Evolutionary Biology 7: 247–265.
   Web of Science ®Google Scholar
• Potapova M. & Hamilton P.B. 2007. Morphological and ecological variation within the Achnanthidium minutissimum (Bacillariophyceae) species complex. Journal of Phycology 43: 561–575.
   Web of Science ®Google Scholar
• Poulíčková A., Špačková, J., Kelly M.G., Duchoslav M. & Mann D.G. 2008. Ecological variation within Sellaphora species complexes (Bacillariophyceae) — specialists or generalists? Hydrobiologia 614: 373–386.
   Web of Science ®Google Scholar
• Poulíčková A., Veselá J., Neustupa J. & Škaloud, P. 2010. Pseudocryptic diversity versus cosmopolitanism in diatoms: a case study on Navicula cryptocephala Kütz. (Bacillariophyceae) and morphologically similar taxa. Protist 161: 353–369.
   PubMed Web of Science ®Google Scholar
• Pröschold T. & Leliaert F. 2007. Systematics of the green algae: conflict of classic and modern approaches. In: Unravelling the algae: the past, present, and future of algal systematics (Ed. by J. Brodie & J. Lewis), pp. 123–153. CRC Press, Taylor & Francis group, Boca Raton, Florida.
   Google Scholar
• R Development Core Team. 2008. R: A Language and Environment for Statistical Computing. Available at: http://www.R-project.org (4 April 2009).
   Google Scholar
• Rohlf F.J. 2010. TPS Series. Available at: http://life.bio.sunysb.edu/morph/ (1 May 2012).
   Google Scholar
• Round F.E., Crawford R.M. & Mann D.G. 1990. The diatoms: biology and morphology of the genera. Cambridge university Press, Cambridge, UK. 758 pp.
   Google Scholar
• Sato S., Kooistra W.H.C.F., Watanabe T., Matsumoto S. & Medlin L.K. 2008. A new araphid diatom genus Psammoneis gen. nov. (Plagiogrammaceae, Bacillariophyta) with three new species based on SSU and LSU rDNA sequence data and morphology. Phycologia 47: 510–528.
   Web of Science ®Google Scholar
• Seibel P.N., Müller T., Dandekar T., Schultz J. & Wolf M. 2006. 4SALE — a tool for synchronous RNA sequence and secondary structure alignment and editing. BMC Bioinformatics 7: 498.
   PubMed Web of Science ®Google Scholar
• Seibel P.N., Müller T., Dandekar T. & Wolf M. 2008. Synchronous visual analysis and editing of RNA sequence and secondary structure alignments using 4SALE. BMC Research Notes 1: 91.
   PubMedGoogle Scholar
• Siver P.A. & Baskette G. 2004. A morphological examination of Frustulia (Bacillariophyceae) from the Ocala National Forest, Florida, USA. Canadian Journal of Botany 82: 629–644.
   Google Scholar
• Škaloud P. & Peksa O. 2010. Evolutionary inferences based on ITS rDNA and actin sequences reveal extensive diversity of the common lichen alga Asterochloris (Trebouxiophyceae, Chlorophyta). Molecular Phylogenetics and Evolution 54: 36–46.
   PubMed Web of Science ®Google Scholar
• Sonnenberg R., Nolte A.W. & Tautz D. 2007. An evaluation of LSU rDNA D1–D2 sequences for their use in species identification. Frontiers in Zoology 4: 6.
   PubMed Web of Science ®Google Scholar
• Swofford D.L. 2001. PAUP*: phylogenetic analysis using parsimony (*and other methods), Version 4. Sinauer Associates, Sunderland, Massachusetts.
   Google Scholar
• Trobajo R., Clavero E., Chepurnov V.A., Sabbe K., Mann D.G., Ishihara S. & Cox E.J. 2009. Morphological, genetic and mating diversity within the widespread bioindicator Nitzschia palea (Bacillariophyceae). Phycologia 48: 443–459.
   Web of Science ®Google Scholar
• Vanelslander B., Créach 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
• Veselá J., Neustupa J., Pichrtová M. & Poulíčková A. 2009. Morphometric study of Navicula morphospecies (Bacillariophyta) with respect to diatom life cycle. Fottea 9: 307–316.
   Web of Science ®Google Scholar
• Wehr J.D. & Sheath R.G. 2002. Freshwater habitats of algae. In: Freshwater algae from North America; ecology and classification (Ed. by J.D. Wehr & R.G. Sheath), pp. 11–57. Elsevier Science, San Diego, California, USA.
   Google Scholar
• Weisse T. 2008. Distribution and diversity of aquatic protists: an evolutionary and ecological perspective. Biodiversity and Conservation 17: 243–259.
   Web of Science ®Google Scholar
• Weisse T., Strüder-Kypke M.C., Berger H. & Foissner W. 2008. Genetic, morphological, and ecological diversity of spatially separated clones of Meseres corlissi Petz & Foissner, 1992 (Ciliophora, Spirotrichea). Journal of Eukaryotic Microbiology 55: 257–270.
   Web of Science ®Google Scholar
• Yeung P.K.K., Kong K.F., Wong F.T.W. & Wong J.T.Y. 1996. Sequence data for two large-subunit rRNA genes from an Asian strain of Alexandrium catenella. Applied and Environmental Microbiology 62: 4199–4201.
   Web of Science ®Google Scholar
• Zwickl D.J. 2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion. Ph.D. dissertation. University of Texas at Austin USA. 115 pp.
   Google Scholar