Is the there a way I can reload the whitelist from the server console ?
unfortunately not you need to restart the server for the new list to take effect, as far as I am aware.
Also is there a list of commands somewhere that can be run from the actual server console not from the in-game console ?
There is no list of commands on the forum about that but the server is using steam CMD so I bet there is a list of available commands somewhere on the steam forums
Actually the server supports certain "input commands" (i.e. commands which can be run from the server console) 
These commands can be used to kick a player, change the time or shutdown the server. Here is an overview of all supported commands (see "Input commands" section at the bottom): Dedicated Server Setup
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