Hello,
Thank you for your post. After trying the kobo desktop in windows, with the hope that it could help to manage the collections on the device (what it does not really), I installed calibre (the version from their website, not a linux distribution package), and calibre is just fantastic. It does everything I need to manage my ebooks. And it runs smoothly in linux. I will probably make a donation to the project.
PS: anyway, let's remind to software companies every time we can the existence of linux users