Planothidium lanceolatum and Planothidium frequentissimum reinvestigated with molecular methods and morphology: four new species and the taxonomic importance of the sinus and cavum

References

• Abarca N., Jahn R., Zimmermann J. & Enke N. 2014. Does the cosmopolitan diatom Gomphonema parvulum (Kützing) Kützing have a biogeography? PLoS ONE 9: e86885. doi: 10.1371/journal.pone.0086885
   PubMed Web of Science ®Google Scholar
• Álvarez-Blanco I. & Blanco S. 2013. Planothidium galaicum sp. nov. (Bacillariophyta, Achnanthidiaceae), a new diatom species from Galician coast, Spain. Phytotaxa 151: 44–52. doi: 10.11646/phytotaxa.151.1.4
   Web of Science ®Google Scholar
• Bąk M. & Lange-Bertalot H. 2014. Four small-celled Planothidium species from Central Europe proposed as new to science. Oceanological and Hydrobiological Studies 43: 346–359.
   Web of Science ®Google Scholar
• Beijerinck M.W. 1913. De infusies en de ontdekking der backteriën. Jaarboek van de Koninklijke Akademie voor Wetenschappen, Amsterdam (Müller. Reprinted in Verzamelde geschriften van M.W. Beijerinck, vijfde deel, pp. 119–140. Delft, 1921).
   Google Scholar
• Blanco S., Álvarez-Blanco I., Cejudo-Figueiras C., Espejo J.M.R., Barrera C.B., Bécares E., del Olmo F.D. & Artigas R.C. 2013. The diatom flora in temporary ponds of Doñana National Park (southwest Spain): five new taxa. Nordic Journal of Botany 31: 489–499. doi: 10.1111/j.1756-1051.2013.01691.x
   Web of Science ®Google Scholar
• Brinkmann N., Hodač L., Mohr K.I., Hodačová A., Jahn R., Ramm J., Hallmann C., Arp G. & Friedl T. 2015. Cyanobacteria and diatoms in biofilms of two karstic streams in Germany and changes of their communities along calcite saturation gradients. Geomicrobiology Journal 32: 255–274. doi: 10.1080/01490451.2014.901438
   Web of Science ®Google Scholar
• Bukhtiyarova L.M. & Lyakh A.M. 2014. Functional morphology of horseshoe spot in frustule of Planothidium species (Bacillariophyta). Ukrainian Botanical Journal 71: 223–227. doi: 10.15407/ukrbotj71.02.223
   Google Scholar
• Bukhtiyarova L.M. & Round F.E. 1996. Revision of the genus Achnanthes sensu lato section Marginulatae Bukh. sect. nov. of Achnanthidium Kütz. Diatom Research 11: 1–30. doi: 10.1080/0269249X.1996.9705361
   Google Scholar
• Cassie V. 1989. A contribution to the study of New Zealand Diatoms. Bibliotheca Diatomologica 17: 1–266.
   Google Scholar
• Cleve P.T. & Grunow A. 1880. Beiträge zur Kenntniss der arctischen Diatomeen. Kongliga Svenska Vetenskaps-Akademiens Handlingar 17: 1–121.
   Google Scholar
• Cocquyt C. & Jahn R. 2007. Endemic taxa related to Surirella ovalis from Tanzania, East Africa: Typification of O. Müller’s taxa and description of a new species. Cryptogamie Algologie 28: 107–116.
   Web of Science ®Google Scholar
• Compère P. & Van de Vijver B. 2009. Planothidium engelbrechtii (Cholnoky) Round & Bukhtiyarova: identity and lectotypification (Bacillariophyta). Fottea 9: 187–192. doi: 10.5507/fot.2009.019
   Web of Science ®Google Scholar
• Cox E.J. 1995. Studies on the diatom genus Navicula Bory. VII. The identity and typification of Navicula gregaria Donkin, N. cryptocephala Kütz. and related taxa. Diatom Research 10: 91–111. doi: 10.1080/0269249X.1995.9705330
   Google Scholar
• De Wit R. & Bouvier T. 2006. ‘Everything is everywhere, but, the environment selects’: what did Baas Becking and Beijerinck really say? Environmental Microbiology 8: 755–758. doi: 10.1111/j.1462-2920.2006.01017.x
   PubMed Web of Science ®Google Scholar
• Edgar R.C. 2010. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460–2461. doi: 10.1093/bioinformatics/btq461
   PubMed Web of Science ®Google Scholar
• Finlay B.J., Monaghan E.B. & Maberly S.C. 2002. Hypothesis: the rate and scale of dispersal of freshwater diatom species is a function of their global abundance. Protist 153: 261–273. doi: 10.1078/1434-4610-00103
   PubMed Web of Science ®Google Scholar
• Gemeinholzer B., Droege G., Zetzsche H., Knebelsberger T., Raupach M., Borsch T., Klenk H.P., Haszprunar G. & Waegele J.W. 2009. DNA bank network webportal [online]. Botanic Garden and Botanical Museum Berlin-Dahlem, Freie Universitat Berlin. Available from: http://www.ggbn.org/ggbn_portal/.
   Google Scholar
• Germain H. 1981. Flore des diatomées. Diatomophycées eaux douces et saumâtres du Massif Armoricain et des contrées voisines d’Europe occidentale. Société Nouvelle des Éditions Boubée, Paris.
   Google Scholar
• Guillard R.R.L. & Lorenzen C.J. 1972. Yellow-green algae with chlorophyllide C. Journal of Phycology 8: 10–14.
   Web of Science ®Google Scholar
• Hofmann G., Werum M. & Lange-Bertalot H. 2013. Diatomeen im Süßwasser-Benthos von Mitteleuropa. Koeltz Scientific Books, Königstein.
   Google Scholar
• Hustedt F. 1930. Bacillariophyta (Diatomeae). Verlag von Gustav Fischer, Jena.
   Google Scholar
• Jahn R. & Kusber W.H. 2005. AlgaTerra Information System (online). Botanic Garden and Botanical Museum Berlin-Dahlem, Freie Universität Berlin. Available from: http://www.algaterra.org
   Google Scholar
• Joh G. 2012. Algal flora of Korea, Vol. 3, Nr. 7; Freshwater diatoms V. National Institute of Biological Resources, Incheon.
   Google Scholar
• Keck F., Rimet F., Franc A. & Bouchez A. 2016. Phylogenetic signal in diatom ecology: perspectives for aquatic ecosystems biomonitoring. Ecological Applications 26: 861–872. doi: 10.1890/14-1966
   PubMed Web of Science ®Google Scholar
• Krammer K. & Lange-Bertalot H. 1991. Bacillariophyceae 4. Teil Achnanthaceae. Kritische Ergänzungen zu Navicula (Lineolatae) und Gomphonema. In: Süsswasserflora von Mitteleuropa 2/4 (Ed. by H. Ettl, G. Gärtner, J. Gerloff, H. Heynig & D. Mollenhauer), pp. 1–437. Gustav Fischer Verlag, Stuttgart-Jena.
   Google Scholar
• Krammer K. & Lange-Bertalot H. 2004. Bacillariophyceae 4. Teil Achnanthaceae. Kritische Ergänzungen zu Navicula s. str. und Gomphonema. In: Süsswasserflora von Mitteleuropa 2/4 (Ed. by H. Ettl, G. Gärtner, J. Gerloff, H. Heynig & D. Mollenhauer), 468 pp. Spektrum Akademischer Verlag, Heidelberg.
   Google Scholar
• Kulikovskiy M., Lange-Bertalot H. & Witkowski A. 2013. Gliwiczia gen. nov. a new monoraphid diatom genus from Lake Baikal with a description of four species new for science. Phytotaxa 109: 1–16. doi: 10.11646/phytotaxa.109.1.1
   Web of Science ®Google Scholar
• Kulikovskiy M., Lange-Bertalot H. & Kuznetsova I.V. 2015a. Lake Baikal: Hotspot of endemic diatoms II. Iconographia Diatomologica 26. Koeltz Scientific Books, Oberreifenberg.
   Google Scholar
• Kulikovskiy M., Lange-Bertalot H., Witkowski A., Khursevich G.K. & Kociolek J.P. 2015b. New species of Eunotia (Bacillariophyta) from Lake Baikal with comments on morphology and biogeography of the genus. Phycologia 54: 248–260. doi: 10.2216/14-98.1
   Web of Science ®Google Scholar
• Kützing F.T. 1846. Kurze Mittheilung über einige kieselschalige Diatomeen. Botanische Zeitung 4: 247–248.
   Google Scholar
• Lange-Bertalot H. 1993. 85 Neue Taxa und über 100 weitere neu definierte Taxa ergänzend zur Süßwasserflora von Mitteleuropa Vol. 2/1–4. Bibliotheca Diatomologica 27, 454 pp. J. Cramer, Berlin.
   Google Scholar
• Lange-Bertalot H. 1999. Neue Kombinationen von Taxa aus Achnanthes Bory (sensu lato). Iconographia Diatomologica 6: 270–283.
   Google Scholar
• Maddison W. & Maddison D. 2016. Mesquite: a modular system for evolutionary analysis. Version 3.10. Available from: http://mesquiteproject.org
   Google Scholar
• Mann D.G. 1999. The species concept in diatoms. Phycologia 38: 437–495. doi: 10.2216/i0031-8884-38-6-437.1
   Web of Science ®Google Scholar
• Mann D.G. & Droop S.J.M. 1996. 3. Biodiversity, biogeography and conservation of diatoms. Hydrobiologia 336: 19–32. doi: 10.1007/BF00010816
   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. doi: 10.2216/i0031-8884-43-3-245.1
   Web of Science ®Google Scholar
• Miller M.A., Pfeiffer W. & Schwartz T. 2010. Creating the CIPRES Science Gateway for inference of large phylogenetic trees, GCE, New Orleans, LA. pp. 1–8. doi: 10.1109/GCE.2010.5676129.
   Google Scholar
• Morales E.A. 2006. Small Planothidium Round et Bukhtiyarova (Bacillariophyceae) taxa related to P. daui (Foged) Lange-Bertalot from the United States. Diatom Research 21: 325–342. doi: 10.1080/0269249X.2006.9705673
   Web of Science ®Google Scholar
• Moser G., Lange-Bertalot H. & Metzeltin D. 1998. Insel der Endemiten: Geobotanisches Phänomen Neukaledonien. Bibliotheca Diatomologica 38: 464 p.
   Google Scholar
• Moss M.O. & Carter J.R. 1982. The resurrection of Achnanthes rostrata Østrup. Bacillaria 5: 157–164.
   Google Scholar
• Müller J., Müller K., Neinhuis C. & Quandt D. 2010. PhyDE®–Phylogenetic data editor. Computer program.
   Google Scholar
• N’Guessan K.R., Wetzel C.E., Ector L., Coste M., Cocquyt C., Van de Vijver B., Yao S.S., Ouattara A., Kouamelan E.P. & Tison-Rosebery J. 2014. Planothidium comperei sp. nov. (Bacillariophyta), a new diatom species from Ivory Coast. Plant Ecology and Evolution 147: 455–462. doi: 10.5091/plecevo.2014.981
   Web of Science ®Google Scholar
• Novis P., Braidwood J. & Kilroy C. 2012. Small diatoms (Bacillariophyta) in cultures from the Styx River, New Zealand, including descriptions of three new species. Phytotaxa 64: 11–45. doi: 10.11646/phytotaxa.64.1.3
   Web of Science ®Google Scholar
• Patrick R. & Reimer C. 1966. The diatoms of the United States. Exclusive of Alaska and Hawaii. Volume 1: Fragilariaceae, Eunotiaceae, Achnanthaceae, Naviculaceae. Monographs of the Academy of Natural Sciences of Philadelphia, pp. 1–688.
   Google Scholar
• Posada D. & Crandall K.A. 1998. MODELTEST: testing the model of DNA substitution. Bioinformatics 14: 817–818. doi: 10.1093/bioinformatics/14.9.817
   PubMed Web of Science ®Google Scholar
• Potapova M. 2010a. Planothidium biporomum. In Diatoms of the United States. Available from: http://westerndiatoms.colorado.edu/taxa/species/planothidium_biporomum [Accessed 18 May 2016].
   Google Scholar
• Potapova M. 2010b. Planothidium frequentissimum. In Diatoms of the United States. Available from: http://westerndiatoms.colorado.edu/taxa/species/planothidium_frequentissimum [Accessed 13 July 2016].
   Google Scholar
• Potapova M. 2010c. Planothidium lanceolatum. In Diatoms of the United States. Available from: http://westerndiatoms.colorado.edu/taxa/species/planothidium_lanceolatum [Accessed 13 July 2016].
   Google Scholar
• Potapova M. 2011. Planothidium dubium. In Diatoms of the United States. Available from: http://westerndiatoms.colorado.edu/taxa/species/planothidium_dubium [Accessed 13 July 2016].
   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. doi: 10.1016/j.protis.2009.12.003
   PubMed Web of Science ®Google Scholar
• Rambaut A. 2008. Figtree v1.2.2. Insitute of Evolutionary Biology, University of Edinburgh. Available from: http://tree.bio.ed.ac.uk/software/figtree
   Google Scholar
• Romero O.E. & Jahn R. 2013. Typification of Cocconeis lineata and Cocconeis euglypta (Bacillariophyta). Diatom Research 28: 175–184. doi: 10.1080/0269249X.2013.770801
   Web of Science ®Google Scholar
• Souffreau C., Verbruggen H., Wolfe A.P., Vanormelingen P., Siver P.A., Cox E.J., Mann D.G., Vijver B.V.d., Sabbe K. & Vyverman W. 2011. A time-calibrated multi-gene phylogeny of the diatom genus Pinnularia. Molecular Phylogenetics and Evolution 61: 866–879. doi: 10.1016/j.ympev.2011.08.031
   PubMed Web of Science ®Google Scholar
• Spaulding S.A., Edlund M.B. & Metzeltin D. 2008. Planothidium. In: Diatoms of the United States. Available from: http://westerndiatoms.colorado.edu/taxa/genus/Planothidium [Accessed 3 March 2015].
   Google Scholar
• Stamatakis A. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688–2690. doi: 10.1093/bioinformatics/btl446
   PubMed Web of Science ®Google Scholar
• Stamatakis A. 2014. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30: 1312–1313. doi: 10.1093/bioinformatics/btu033
   PubMed Web of Science ®Google Scholar
• Stamatakis A., Hoover P. & Rougemont J. 2008. A rapid bootstrap algorithm for the RAxML web servers. Systematic Biology 57: 758–771. doi: 10.1080/10635150802429642
   PubMed Web of Science ®Google Scholar
• Straub F. 1985. Variabilité comparée d’Achnanthes lanceolata (Bréb.) Grun. et d’Achnanthes rostrata Östrup (Bacillariophyceae) dans huit populations naturelles du Jura suisse I: aproche morphologique. Bulletin de la Société Neuchâteloise des Sciences Naturelles 108: 135–150.
   Google Scholar
• Straub F. 1990. Compared variability of Achnanthes lanceolata (Bréb.) Grunow. 2. Biometrical approach of several races of the sub-species frequentissima Lange-Bertalot. In: Ouvrage dedie à la memoire du Professeur Henry Germain (1903–1989) (Ed. by M. Ricard), pp. 243–250. Koeltz Scientific Books, Königstein.
   Google Scholar
• Tamura K., Stecher G., Peterson D., Filipski A. & Kumar S. 2013. MEGA6: molecular evolutionary genetics analysis version 6.0. Molecular Biology and Evolution 30: 2725–2729. doi: 10.1093/molbev/mst197
   PubMed Web of Science ®Google Scholar
• Tavaré S. 1986. Some probabilistic and statistical problems in the analysis of DNA sequences. Lectures on Mathematics in the Life Sciences 17: 57–86.
   Google Scholar
• Van de Vijver B., Wetzel C.E., Kopalová K., Zidarova R. & Ector L. 2013. Analysis of the type material of Achnanthidium lanceolatum Brébisson ex Kützing (Bacillariophyta) with the description of two new Planothidium species from the Antarctic Region. Fottea 13: 105–117. doi: 10.5507/fot.2013.010
   Web of Science ®Google Scholar
• Wetzel C.E. & Ector L. 2014. Taxonomy, distribution and autecology of Planothidium bagualensis sp. nov. (Bacillariophyta) a common monoraphid species from southern Brazilian rivers. Phytotaxa 156: 201–210. doi: 10.11646/phytotaxa.156.4.2
   Web of Science ®Google Scholar
• Wetzel C.E., De Vijver B.V., Hoffmann L. & Ector L. 2013. Planothidium incuriatum sp. nov. a widely distributed diatom species (Bacillariophyta) and type analysis of Planothidium biporomum. Phytotaxa 138: 43–57. doi: 10.11646/phytotaxa.138.1.6
   Web of Science ®Google Scholar
• Wetzel C.E., Van de Vijver B., Kopalová K., Hoffmann L., Pfister L. & Ector L. 2014. Type analysis of the South American diatom Achnanthes haynaldii (Bacillariophyta) and description of Planothidium amphibium sp. nov., from aerial and aquatic environments in Oregon (USA). Plant Ecology and Evolution 147: 439–454. doi: 10.5091/plecevo.2014.1058
   Web of Science ®Google Scholar
• Zimmermann J., Jahn R. & Gemeinholzer B. 2011. Barcoding diatoms: evaluation of the V4 subregion on the 18S rRNA gene, including new primers and protocols. Organisms Diversity & Evolution 11: 173–192. doi: 10.1007/s13127-011-0050-6
   Web of Science ®Google Scholar
• Zimmermann J., Abarca N., Enke N., Skibbe O., Kusber W.-H. & Jahn R. 2014. Taxonomic reference libraries for environmental barcoding: a best practice example from diatom research. PLoS ONE 9: e108793. doi: 10.1371/journal.pone.0108793
   PubMed Web of Science ®Google Scholar