Add bacterial genes to a plant genome file

Dear admin and/or specialists,

I did RNA-seq analysis and I have the plant genome and GFF files. However, I need to add to these files the bacterial sequences that I used to have my transgenes. The genome file is too big (3.6gb) so I don’t know how to open it. Do you have any suggestions?

Thank you.

Hi @brebelo

This recent Q&A explains what is needed: RNA seq analysis on transgenic animal

In short, combine the fasta for the two different organisms, then add in some lines to the existing reference annotation to represent the extra genes/transgenes. This will take some trial and error to get right.

Working with a 4 GB file is fine when doing data manipulations in Galaxy.

Hi @jennaj

Thank you so much for the suggestion. I will try this and hopefully it will work.

1 Like