I think that differnt types of wood would only affect the sustain, because pickups(on an electric guitar) are essentialy elctro-magnets which pick up the vibrating strings. Microhonic pickups however do pick up how the wood changes the sound.
Unplugged, electric guitars will sound different even if they are the same wood, the same as an acoustic.
Uhhh... please tell me if that makes sense BTW