All my photographs not in Lightroom

That means that Lightroom knows about them but that they are not there. If you go to the main source for that sub folder - i.e. either another heading or a hard drive - right click on it (in Lightroom) and from the menu that appears, click on 'Synchronise Folder'. This will then copy those files' details into that heading/hard drive. Lightroom does NOT actually have possession of any files - they are not actually in Lightroom - it contains their addresses on your computer. What you see are virtual copies and the 'not high-lighted' just lets you know that Lightroom does not have the address for any photos in that folder.