As for the missing em-dashes, I looked at your chapter and don't see the proper characters either. That's odd, as I've always used the same dashes in my own work and never had issue. You can go through and manually replace them. If you use a Windows OS, then you can make one by using Alt0151 (yes, with the zero in it), or with a Mac OS, use Alt dash/underscore key. You could also try to resubmit the chapter and see if this has remedied itself and was only a solitary glitch.