Looking for recommendations: Transposon and evolution.
Hello everyone. I am currently trying to perfom some analysis on transposable elements and needing some recommendation on what type of analysis I could perform to establish that certain vertebrates had evolved from certain ancestors using either the transposons present in both or one of the organism or using RNAi in the organisms. is this achievable? what can I do? one of my organism is a basal organism and the other is a vertebrate. I would appreciate your contributions. Thanks
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Why do you want to use transposons? Unless I'm missing something thats the absolute last thing you'd want to perform evolutionary analyses with. Your trees would be meaningless as the sequences jump around - though this should be less of an issue in vertebrates than in, say, bacteria.
So I have an small RNA seq data and have identified small RNAs that map to and would possibly control TEs in the basal organism, My thought is, the TE populations that are not being repressed could have resulted in the evolution of the vertebrate if that makes sense. So I am exploring other analysis I can do with the TEs to tell if they actually contributed to the evolution of the vertebrate.