Yikes!!
That's too bad. Before I upgraded to 4.9.27 I was told to make copies of all the folders, along with the files that I share just in case I lost them during the installation process. What has happened to you has happened to me when I first installed LimeWire. From what I've heard, when files are deleted in LimeWire they are permenantly gone but if you are lucky enough to find them, let me know where they ended up!