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>For more than a decade, Feschotte has pointed to transposons as the ultimate innovators in eukaryotic genomes. To be clear, there is a long history of scienti
by ak217 5y ago
>For more than a decade, Feschotte has pointed to transposons as the ultimate innovators in eukaryotic genomes.
To be clear, there is a long history of scientific theories and studies on how transposable elements are key to eukaryotic genome evolution, regulatory network formation and genome plasticity, predating the review linked in that sentence - in fact, dating all the way back to Barbara McClintock. I would call this an under-studied area of genomics - I think there are still quite a few Nobel prizes to be made in transposon-mediated evolution.
The new Feschotte article (https://science.sciencemag.org/content/371/6531/eabc6405 https://science.sciencemag.org/content/371/6531/eabc6405) demonstrates a transcription factor in bats and uses a reporter assay to link it to signatures of transposon activity, and also uses comparative genomics to identify lineage-specific signatures of transposon activity in tetrapods. This is a big step forward, especially in using reporter assays to link TE activity to TF networks in mammals, but I think the next step would be to do both the in silico and the in vitro experiment together (use a reporter assay to prove that lineage-specific regulatory network patterns are linked to transposon activity).
- dnautics 5y agoalso transposons certainly exist in prokarya too, and probably drive innovation there as well, possibly assisting horizontal gene transfer. When I was in the synthetic genome lab at the venter institute, one of the first things I did was win a bet about the orientation of a transposable element in the syn1.0 genome that was eventually removed from the genome (the bet was not important enough to merit me being on the paper)
- wombatmobile 5y agoWhy was the TE removed from the syn1.0 genome?
- dnautics 5y agoCauses instability when you transfer into yeast as your amplification medium; deleting the TE boosts the correct colony ratio from 50% to nearly 100%. I also identified the gene responsible for the phenomenon: it's RAD42. So if you're ever cloning new genomes that don't have TEs removed yet you might consider using RAD42- yeast.