I lost all my pdfs files! I haven't sync them but I backed up my ipad. How can i get them back?

HEllo
AFter updating my ios and then my ibooks app, i found out that all my pdf files were gone!
SInce i didn't synced them, but i backed up my ipad,is there a way to get them back?
THanks for reading this.

IN my ibooks, I have one book and a lot of pdf files. I don't mind deleting the book as it was free but I'd rather save my pdf files.
I tried both but still, nothing appears.
CAn you tell me how to back up one app? I know how to back up all of them. But in that case, I think you're suggesting me just to back up Ibooks...
ANd does it matter that i haven't sync my Ibooks in itunes? I mean, I have backed up my ipad, is it enough?
ANd is it because of my app update or my ios update? I wouldn't like to do the same mistake in the future...
THanks so much for your quick help!

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