base - Install base MATE Desktop applications that are recommended for the most common usage; for example, this installs the file manager. Disable this and other USE flags if you want a more minimal MATE Desktop.
extras - Install additional MATE Desktop applications that are recommended for extended usage of the MATE Desktop as upstream sees it; for example, this installs MATE Desktop's office related applications. Disable this if you plan to use your own non-MATE Desktop alternatives or a custom mixture of MATE and non-MATE packages.
help - Install gnome-extra/yelp to handle in application help menus and documentation browsing
notification - Force notification daemon to default to MATE's notification daemon. Enabled by default. Disable if it causes conflicts with other installed desktop environments.
themes - Install MATE Desktop's themes; if you use other themes, you can disable this to spare some space and time.