No, they share the clutch and transmission lubrication.
Not to start ANOTHER arguement about transmission lubes, but there are many options for transmission fluid. The yamaha service manual recommends non "energy conservation" 10w-30 motor oil. You'll be hard pressed to find "non-energy conservation" motor oil in a regular auto parts store. Motorcycle oils are usually 10W-40 for wet clutches which will work but most are more expensive than a quart of ATF.
There are a few other options, however.
You can use standard automatic transmission fluid (type F if you can find it, regular if not)
You can use specialized gear lubes (belray and others) as long as the gear lube is specifically formulated for wet clutches.
I run ATF in my transmission with no side-effects at all.