Skill trees never affect other skills or similarly named things unless explicitly stated. The void rift nodes in various Void Knight skills are a good example of this.
Sadly it makes them completely useless after about lvl 20ish, personally I believe they should be completely affected by it. Would make getting the three different ones actually meaningfull. there seems to be a lot of stuff in place to hamstring a lot of otherwise good skills. Minions should use skills based off your skill tree (sacrifice, ripblood) just to name a few but they dont so using it makes them trash.