Sam,

If you have different email accounts for each queue, then go into Pop3 Account Management in the Admin Console.
When you set up the pop3 account, you need to fill out these fields:

Account username: support@domain.com   
Account Password: passcode
Host: mail.domain.com
Trusted: yes (so otrs reads the email header info)
Dispatching:  Dispatching by email To: field  (******this will read the to address and dispatch to appropriate queue)
Queue:  (Set the queues you want it to go to)
Valid: yes
Comment:  Whatever you want to say

As an example:  If your organization has email for sales@domain.com, support@domain.com, hr@domain.com, etc then set up queues: Sales, Support, Human Resources, etc.

Aris