I think the concept you are missing is system calls. Each operating system provides an enormous amount of resources and functionality that you can tap into to do low-level operating system related things. Even when you call a regular library function, it is probably making a system call behind the scenes.
System calls are a low-level way of making use of the power of the operating system, but can be complex and cumbersome to use, so are often "wrapped" in APIs so that you don't have to deal with them directly. But underneath, just about anything you do that involves O/S related resources will use system calls, including printing, networking and sockets, etc.
In the case of windows, Microsoft Windows has its GUI actually written into the kernel, so there are system calls for making windows, painting graphics, etc. In other operating systems, the GUI may not be a part of the kernel, in which case as far as I know there wouldn't be any system calls for GUI related things, and you could only work at an even lower level with whatever low-level graphics and input related calls are available.
