I take my notes directly in the text of the article I am writing, rather than taking notes on my reading before I begin writing. I will often read without taking notes at all, because it is time-consuming. Later I can go back and remember what the really significant points were, or find the relevant quotations. A lot of reading, unfortunately, is defensive. You might be going through a book just to make sure it's not relevant. You pick up extra knowledge that way, but really it's rapid reading designed to cover your bases.
Since I work on poetry, mostly, I know the poems I'm going to use pretty much by memory. I'm sure if I worked on the novel I would have to take notes on plots and characters in a more systematic way.