Fast evolving 18S rRNA sequences from Solenogastres (Mollusca) resist standard PCR amplification and give new insights into mollusk substitution rate heterogeneity
1 Institute of Zoology, Johannes Gutenberg University, Müllerweg 6, 55099 Mainz, Germany
2 Department of Biology, University of Bergen, Thormøhlens gate 53a, 5008 Bergen, Norway
3 The Natural History Collections, Bergen Museum, University of Bergen, Muséplass 3, 5007 Bergen, Norway
BMC Evolutionary Biology 2010, 10:70 doi:10.1186/1471-2148-10-70Published: 9 March 2010
Additional file 1:
Blast result table. BLASTn results from previously published Solenogastres sequences using strings within regions of strong secondary structure (helices 1-3; see figure 1a). The short fragments of Epimenia babai 18S lie outside of helix regions and do not contain alien DNA. For the two published helix regions of Epimenia sp., the query results in Cnidaria (27 matches within Octocorallia). In all Helicoradomenia fragments the 18S of the polychaete Amphisamytha galapagensis was found within the six best BLASTn hits (excluding Helicoradomenia; mean = 3), while the first hit for Mollusca was on rank 16 (mean = 35).
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Additional file 2:
Likelihood traces from four chains using the heterogeneous model and sampling 10,000,000 generations each.
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