Ribosomal RNA phylogenetics: the third dimension |
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Authors: | Alexander Keller Matthias Wolf Thomas Dandekar |
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Institution: | 1.Department of Bioinformatics,University of Würzburg,Würzburg,Germany |
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Abstract: | With integration of secondary structures, ribosomal genes have once again become very popular for phylogenetic analyses. This
additional source of information to the nucleotide sequence provides a massive boost for taxonomic inferences. Herein, we
propose that in the near future a further benefit for phylogenetics with such genes will be very likely by inclusion of the
third dimension. For the first time, we determined the tertiary structure of the ribosomal internal transcribed spacer 2 for
Chlamydomonas rheinhardtii by application of two different in silico prediction algorithms. We compared these methods with focus on phylogenetic usability. Further, we determined the tertiary
structures for closely related green algae to provide a small phylogenetic example. The results suggest that the tertiary
structure inherits evolutionary information observable neither within the sequence nor in the secondary structure. |
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