In addition to hop utilization, the boil has other uses in brewing. One important result is the volatilization of DMS. This is especially important in using pilsner malt. 90 minutes is often the recommended time with these malts. DMS can give a cooked corn flavor and isn't really very pleasant. The boil is one of those places you should just make the commitment and go all the way.
Also, a 60 minute boil should not be from the point of boil to the end. It should be from the point you start seeing hot break in the kettle. It is at that point you add the 60 minute hops and the timer. This means you really have a 75 to 80 minute boil.
It is also important to have a strong, rolling boil with good ventilation. A covered boil or a whimsy one is not as effective at volatilizing the elements you want to remove.