Small amounts of organics will leach off of roof shingles, which may explain what you noticed about the mosquitoes. However, those same organic molecules are very tasty to the soil fungi in your garden. To the fungi, they look a lot like lignin, and the fungi will eat them for lunch.
If you mulch your garden well, then you have a good deal of fungal activity, and anything in your roof water is going to be digested by the fungi and enter the food chain in the way that it
should.