18S rRNA alignments derived from different secondary structure models can produce alternative phylogenies
| Autor: | Thierry Backeljau, B. Winnepenninckx |
|---|---|
| Rok vydání: | 2009 |
| Předmět: |
Inference
Computational biology Biology Protein tertiary structure 18S ribosomal RNA Maximum parsimony Paleontology Tree (data structure) Phylogenetics Molecular phylogenetics Genetics Animal Science and Zoology Molecular Biology Protein secondary structure Ecology Evolution Behavior and Systematics |
| Zdroj: | Journal of zoological systematics and evolutionary research |
| ISSN: | 0947-5745 |
| DOI: | 10.1111/j.1439-0469.1996.tb00819.x |
| Popis: | Molecular sequence data are often aligned on the basis of secondary and/or tertiary structure models. However, these models are regularly updated and sometimes differ depending on the way in which they were constructed. We examined whether the choice of a particular 18S rRNA secondary structure model as alignment basis influences phylogeny inference. We therefore compared 18S rRNA phylogenies derived from alignments based on different models. We used: 1. Maximum parsimony; 2. The neighbour-joining method; 3. The maximum-likelihood approach; and 4. Evolutionary parsimony. This demonstrated that the secondary structure model on which an alignment is based may influence: 1. The tree topologies found by these four methods; 2. The numbers of most parsimonious trees found; and 3. The statistical values calculated by the evolutionary parsimony method. |
| Databáze: | OpenAIRE |
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