I see you have developed pipelines to look for pseudogenes. Is there someone still working on this problem in your lab?
It turns out there is no good method to find pseudogenes in bacteria, which is perhaps a less challenging problem than in eukaryotes, because of the lack of splicing. There is a real need for such a pipeline because genome degradation is a common pathway to specialization in pathogens. We have hundreds of genomes we would like to put through such a pipeline.
turns out we’ve done pgenes in bacteria and have some old lists available. See :