I used to have a small DVR (digital voice recorder) that was connected to a start source to trigger it. The audio out went to the air chain, and mixed with program audio.
However, in the days of hard disk it's easier.
The automation that I use (WireReady/NSI) has a spare deck that is ideal for setting up this routine. I use deck 8 as my time source.
The audio from this deck is routed to a spare input on the mix buss for programming.
The computer runs a program called D4, which is a free download. This keeps the automation/computer in time, all the time.
A file was recorded using (6) "ticks" of the WWV clock, that was recorded off the radio, then a 880 hz tone for 1/2 second. The file is loaded into the automation.
On the spare deck I program a series of "Wait Till" commands, then a play command.
So at 19:56:54, the file will play with the 880 hz tone playing right at the T.O.H.
Works flawlessly every time.