There is no way in Eclipse too have a light only change a specific layer, object, material, etc. Something like that would require a totally separate render pass.
My suggestion would be to use layer scripts on your background and set a simple shader that takes the day/night values such as intensity as uniforms to change the background.
Currently, if you setup the layers correctly you can have backgrounds that are totally unaffected by Eclipse (covered in basic setup tutorial). So, all you would need to do is setup your background like that and add layers scripts.