Taxonomy and phylogeny of Tunicothrix (Ciliophora, Stichotrichia), with the description of two novel species, Tunicothrix brachysticha n. sp. and Tunicothrix multinucleata n. sp., and the establishment of Parabirojimidae n. fam.

References

1. Berger H. 2003; Redefinition of Holosticha Wrzesniowski, 1877 (Ciliophora, Hypotricha). Eur J Protistol 39:373–379 [View Article]
   [Google Scholar]
2. Berger H. 2006 Monograph of the Urostyloidea (Ciliophora, Hypotricha) Monographiae Biologicae vol. 85 Dordrecht: Springer;
   [Google Scholar]
3. Chen X., Gao S., Song W., Al-Rasheid K. A. S., Warren A., Gong J., Lin X. 2010; Parabirojimia multinucleata spec. nov. and Anteholosticha scutellum (Cohn, 1866) Berger, 2003, marine ciliates (Ciliophora, Hypotrichida) from tropical waters in southern China, with notes on their small-subunit rRNA gene sequences. Int J Syst Evol Microbiol 60:234–243 [View Article][PubMed]
   [Google Scholar]
4. Felsenstein, J. (2005). phylip (phylogeny inference package), version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
5. Foissner W., Moon-van der Staay S. Y., van der Staay G. W. M., Hackstein J. H. P., Krautgartner W.-D., Berger H. 2004; Reconciling classical and molecular phylogenies in the stichotrichines (Ciliophora, Spirotrichea), including new sequences from some rare species. Eur J Protistol 40:265–281 [View Article]
   [Google Scholar]
6. Gong J., Song W., Li L., Shao C., Chen Z. 2006; A new investigation of the marine ciliate, Trachelostyla pediculiformis (Cohn, 1866) Borror, 1972 (Ciliophora, Hypotrichida), with establishment of a new genus, Spirotrachelostyla nov. gen.. Eur J Protistol 42:63–73 [View Article][PubMed]
   [Google Scholar]
7. Guindon S., Gascuel O. 2003; A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704 [View Article][PubMed]
   [Google Scholar]
8. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
   [Google Scholar]
9. Hu X., Song W., Warren A. 2002; Observations on the morphology and morphogenesis of a new marine urostylid ciliate, Parabirojimia similis nov. gen., nov. spec. (Protozoa, Ciliophora, Hypotrichida). Eur J Protistol 38:351–364 [View Article]
   [Google Scholar]
10. ICZN 1999 International Code of Zoological Nomenclature London: International Trust for Zoological Nomenclature;
    [Google Scholar]
11. Lin X., Song W. 2004; A new marine ciliate, Erniella wilberti sp. n. (Ciliophora: Hypotrichida), from shrimp culturing waters in north China. Acta Protozool 43:55–60
    [Google Scholar]
12. Liu W., Shao C., Gong J., Li J., Lin X., Song W. 2010; Morphology, morphogenesis, and molecular phylogeny of a new marine urostylid ciliate (Ciliophora, Stichotrichia) from the South China Sea, and a brief overview of the convergent evolution of the midventral pattern within the Spirotrichea. Zool J Linn Soc 158:697–710 [View Article]
    [Google Scholar]
13. Lynn D. H. 2008 The Ciliated Protozoa: Characterization, Classification, and Guide to the Literature, 3rd edn. Dordrecht: Springer;
    [Google Scholar]
14. Lynn D. H., Small E. B. 2002; Phylum Ciliophora Doflein, 1901. In An Illustrated Guide to the Protozoa, 2nd edn. pp. 371–656 Edited by Lee J. J., Leedale G. F., Bradbury P. C. Lawrence, KS: Society of Protozoologists;
    [Google Scholar]
15. 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 [View Article][PubMed]
    [Google Scholar]
16. Page R. D. M. 1996; TreeView: an application to display phylogenetic trees on personal computers. Comput Appl Biosci 12:357–358[PubMed]
    [Google Scholar]
17. Posada D., Crandall K. A. 1998; modeltest: testing the model of DNA substitution. Bioinformatics 14:817–818 [View Article][PubMed]
    [Google Scholar]
18. Ronquist F., Huelsenbeck J. P. 2003; MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574 [View Article][PubMed]
    [Google Scholar]
19. Schmidt S. L., Bernhard D., Schlegel M., Foissner W. 2007; Phylogeny of the Stichotrichia (Ciliophora; Spirotrichea) reconstructed with nuclear small subunit rRNA gene sequences: discrepancies and accordances with morphological data. J Eukaryot Microbiol 54:201–209 [View Article][PubMed]
    [Google Scholar]
20. Shao C., Song W., Yi Z., Gong J., Li J., Lin X. 2007; Morphogenesis of the marine spirotrichous ciliate, Trachelostyla pediculiformis (Cohn, 1866) (Ciliophora, Stichotrichia), with consideration of its phylogenetic position. Eur J Protistol 43:255–264 [View Article][PubMed]
    [Google Scholar]
21. Skibbe O. 1994; An improved quantitative protargol stain for ciliates and other planktonic protists. Arch Hydrobiol 130:339–347
    [Google Scholar]
22. Tamura K., Dudley J., Nei M., Kumar S. 2007; mega4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24:1596–1599 [View Article][PubMed]
    [Google Scholar]
23. Thompson J. D., Higgins D. G., Gibson T. J. 1994; clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680 [View Article][PubMed]
    [Google Scholar]
24. Wilbert N. 1975; Eine verbesserte Technik der Protargolimprägnation für Ciliaten. Mikrokosmos 64:171–179 (in German)
    [Google Scholar]
25. Xu K., Lei Y., Choi J. K. 2006; Tunicothrix rostrata n. g., n. sp., a new urostylid ciliate (Ciliophora, Stichotrichia) from the Yellow Sea. J Eukaryot Microbiol 53:485–493 [View Article][PubMed]
    [Google Scholar]
26. Yi Z., Song W., Warren A., Roberts D. McL., Al-Rasheid K. A. S., Chen Z., Al-Farraj S. A., Hu X. 2008; A molecular phylogenetic investigation of Pseudoamphisiella and Parabirojimia (Protozoa, Ciliophora, Spirotrichea), two genera with ambiguous systematic positions. Eur J Protistol 44:45–53 [View Article][PubMed]
    [Google Scholar]