Phylogenetic analysis of slippage-like sequence variation in the V4 rRNA expansion segment in tiger beetles (Cicindelidae)

Molecular Biology and Evolution
A P VoglerJ M Hancock

Abstract

Sequence variation in the middle part of the small-subunit rRNA was studied for representatives of the major groups in the family Cicindelidae (Coleoptera). All taxa exhibited a much expanded segment in variable region V4 compared to D. melanogaster. This expanded segment was not found in other groups of beetles, including three taxa in the closely related Carabidae. Secondary structure predictions indicate that the expanded segment folds into a single stem-loop structure in all taxa. Despite its structural conservation, the fragment differs strongly in primary sequence, even between closely related sister taxa. Several features of these sequences are consistent with slippage replication as the mechanism that has generated this sequence variation: the level of internal sequence repetition as measured by the relative simplicity factor (RSF), its variation in length between close relatives, and the strong nucleotide bias compared to the remainder of the gene. With few exceptions, there was also a correlation between sequence length and the level of sequence repetition, frequently interpreted as the result of slippage. Phylogenies inferred from the expansion segment were not consistent with existing hypotheses from other molecular...Continue Reading

Citations

Feb 21, 1998·Nucleic Acids Research·Y Van de PeerR De Wachter
Apr 13, 2000·Annual Review of Entomology·M S CaterinoF A Sperling
Sep 25, 2002·Molecular Biology and Evolution·Jose GaliánAlfried P Vogler
Oct 6, 2000·Molecular Biology and Evolution·B BilloudJ S Deutsch
Jun 26, 2017·Molecular Phylogenetics and Evolution·Alejandro López-López, Alfried P Vogler
Apr 17, 2015·Biology Letters·Thomas W Pike

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