Advertisement

Journal of Molecular Evolution

, Volume 45, Issue 1, pp 84–90 | Cite as

Complete large subunit ribosomal RNA sequences from the heterokont algae ochromonas danica, nannochloropsis salina, and tribonema aequale, and phylogenetic analysis

  • Gert Van der Auwera
  • Rupert De Wachter
Article

Abstract

The large subunit ribosomal RNA sequences from the heterokont algae Ochromonas danica, Nannochloropsis salina, and Tribonema aequale were determined. These sequences were combined with small subunit ribosomal RNA sequences in order to carry out a phylogenetic analysis based on neighbor-joining, maximum parsimony, and maximum likelihood methods. Our results indicate that heterokont fungi and heterokont algae each are monophyletic, and confirm that they together form a monophyletic group called “stramenopiles.” Within the heterokont algae, the eustigmatophyte Nannochloropsis salina either clusters with the chrysophyte Ochromonas danica or forms a sister group to a cluster comprising the phaeophyte Scytosiphon lomentaria and the xanthophyte Tribonema aequale. The alveolates were identified as the closest relatives of the stramenopiles, but the exact order of divergence between the eukaryotic crown taxa could not be established with confidence.

Key words

Heterokonta Stramenopiles Algae Eustigmatophytes Xanthophytes Chrysophytes rRNA phylogeny Nannochloropsis salina Tribonema aequale Ochromonas danica 

Abbreviations

PCR

polymerase chain reaction

SAG

Sammlung von Algenkulturen, Pflanzenphysiologisches Institut, Göttingen, Germany

SSU rRNA

small subunit rRNA, viz. 18S rRNA

LSU rRNA

Large subunit rRNA, viz. 5.8S and 28S rRNA

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Andersen RA (1991) The cytoskeleton of chromophyte algae. Protoplasma 164:143–159CrossRefGoogle Scholar
  2. Ariztia EV, Andersen RA, Sogin ML (1991) A new phytogeny for chromophyte algae using 16S-like rRNA sequences from Mallomonas papillosa (Synurophyceae) and Tribonema aequale (Xanthophyceae). J Phycol 27:428–436CrossRefGoogle Scholar
  3. Bhattacharya D, Stickel SK, Sogin ML (1991) Molecular phylogenetic analysis of actin genic regions from Achlya bisexualis (Oomycota) and Costaria costata (Chromophyta). J Mol Evol 33:525–536PubMedCrossRefGoogle Scholar
  4. Bhattacharya D, Medlin L, Wainright PO, Ariztia EV, Bibeau C, Stickel SK, Sogin ML (1992) Algae containing chlorophylls a + c are polyphyletic: molecular evolutionary analysis of the Chromophyta. Evolution 46:1801–1817. Erratum (1993) Evolution 47: 986CrossRefGoogle Scholar
  5. Cavalier-Smith T (1989) The kingdom Chromista. In: Green JC, Lead-beater BSC, Diver WL (eds) The chromophyte algae: problems and perspectives. Clarendon Press, Oxford, pp 381–407Google Scholar
  6. Cavalier-Smith T, Allsopp MTEP, Chao EE (1994a) Thraustochytrids are chromists, not Fungi: 18s rRNA signatures of Heterokonta. Philos Trans R Soc Lond Biol 346:387–397CrossRefGoogle Scholar
  7. Cavalier-Smith T, Allsopp MTEP, Chao EE (1994b) Chimeric conundra: are nucleomorphs and chromists monophyletic or polyphyletic? Proc Natl Acad Sci USA 91:11368–11372PubMedCrossRefGoogle Scholar
  8. De Rijk P, Van de Peer Y, De Wachter R (1996) Database on the structure of large ribosomal subunit RNA. Nucleic Acids Res 24:92–97CrossRefGoogle Scholar
  9. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376PubMedCrossRefGoogle Scholar
  10. Felsenstein J (1985) Confidence limits on phytogenies: an approach using the bootstrap. Evolution 39:783–791CrossRefGoogle Scholar
  11. Förster H, Coffey MD, Elwood H, Sogin ML (1990) Sequence analysis of the small subunit ribosomal RNAs of three zoosporic fungi and implications for fungal evolution. Mycologia 82:306–312CrossRefGoogle Scholar
  12. Green JC, Leadbeater BSC, Diver WL (1989) The chromophyte algae: problems and perspectives. Clarendon Press, OxfordGoogle Scholar
  13. Hibberd DJ (1990a) Phylum Eustigmatophyta. In: Margulis L, Corliss JO, Melkonian M, Chapman DJ (eds) Handbook of Protoctista. Jones and Bartlett, Boston, pp 326–333Google Scholar
  14. Hibberd DJ (1990b) Phylum Xanthophyta. In: Margulis L, Corliss JO, Melkonian M, Chapman DJ (eds) Handbook of Protoctista. Jones and Bartlett, Boston, pp 686–697Google Scholar
  15. Jukes TH, Cantor CR (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian protein metabolism, vol. 3. Academic Press, New York, pp 21–132Google Scholar
  16. Kawai H, Muto H, Fujii T, Kato A (1995) A linked 5S rRNA gene in Scytosiphon lomentaria (Scytosiphonales, Phaeophyceae). J Phycol 31:306–311CrossRefGoogle Scholar
  17. Knoll AH (1992) The early evolution of eukaryotes: a geological perspective. Science 256:622–627PubMedCrossRefGoogle Scholar
  18. Lee RE, Kugrens P (1992) Relationship between the flagellates and the ciliates. Microbiol Rev 56:529–542PubMedGoogle Scholar
  19. Leipe DD, Wainright PO, Gunderson JH, Porter D, Patterson DJ, Valois F, Himmerich S, Sogin ML (1994) The stramenopiles from a molecular perspective: 16S-like rRNA sequences from Labyrinthuloides minuta and Cafeteria roenbergensis. Phycologia 33:369–377Google Scholar
  20. Medlin LK, Cooper A, Hill C, Wrieden S, Wellbrock U (1995) Phylogenetic position of the Chromista plastids based on small subunit rRNA coding regions. Curr Genet 28:560–565PubMedCrossRefGoogle Scholar
  21. Moestrup O (1992) Taxonomy and phytogeny of the Heterokontophyta. In: Stabenau H (ed) Phylogenetic changes in peroxisomes of algae-phytogeny of plant peroxisomes. University of Oldenburg, Oldenburg, pp 383–399Google Scholar
  22. Olsen GJ, Matsuda H, Hagstrom R, Overbeek R (1994) FastDNAml: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood. Comput Appl Biosci 10:41–48PubMedGoogle Scholar
  23. Patterson DJ (1989) Stramenopiles: chromophytes from a protistan perspective. In: Green JC, Leadbeater BSC, Diver WL (eds) The chromophyte algae: problems and perspectives. Clarendon Press, Oxford, pp 357–379Google Scholar
  24. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425PubMedGoogle Scholar
  25. Swofford DL (1993) PAUP: phylogenetic analysis using parsimony, version 3.1. Illinois Natural History Survey, Champaign, ILGoogle Scholar
  26. Van de Peer Y, De Wachter R (1994) TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows Environment. Comput Appl Biosci 10:569–570PubMedGoogle Scholar
  27. Van de Peer Y, Nicolaï S, De Rijk P, De Wachter R (1996a) Database on the structure of small ribosomal subunit RNA. Nucleic Acids Res 24:86–91PubMedCrossRefGoogle Scholar
  28. Van de Peer nY, Van der Auwera G, De Wachter R (1996b) The evolution of stramenopiles and alveolates as derived by “substitution rate calibration” of small ribosomal subunit RNA. J Mol Evol 42:201–210PubMedCrossRefGoogle Scholar
  29. Van der Auwera G, Chapelle S, De Wachter R (1994) Structure of the large ribosomal subunit RNA of Phytophthora megasperma, and phytogeny of the oomycetes. FEBS Lett 338:133–136PubMedCrossRefGoogle Scholar
  30. Van der Auwera G, De Baere R, Van de Peer Y, De Rijk P, Van den Broeck I, De Wachter R (1995) The phytogeny of the Hyphochytriomycota as deduced from ribosomal RNA sequences of Hyphochytrium catenoides. Mol Biol Evol 12:671–678PubMedGoogle Scholar
  31. Whatley JM (1989) Chromophyte chloroplasts: a polyphyletic origin? In: Green JC, Leadbeater BSC, Diver WL (eds) The chromophyte algae: problems and perspectives. Clarendon Press, Oxford, pp 125–144Google Scholar
  32. Wolters J (1991) The troublesome parasites—molecular and morphological evidence that Apicomplexa belong to the dinoflagellateciliate clade. Biosystems 25:75–83PubMedCrossRefGoogle Scholar

Copyright information

© Springer-Verlag New York Inc 1997

Authors and Affiliations

  1. 1.Department of BiochemistryUniversity of Antwerp (UIA), Universiteitsplein 1Belgium

Personalised recommendations