I'm a fair-weather commuter only, though my commute isn't particularly exciting (into Foothills industrial area). When I do bike I tend to ride add a few (or 60) km on the way home to have a more scenic route.
As for comfort- lots of people have suggested chamois. If you feel that's a bit too flamin' you can pick up padded mountain bike shorts, or I usually just wear shorts overtop of my kit so I don't have everyone staring at my early morning temperature shrunk package when I walk in