The striker found the back of the net for the first time in Europe on Tuesday with an exquisite chip over Napoli No.1 Pepe Reina and hopes it will prove to be a crucial strike
A Marco Reus penalty put BVB in front before Jakub Blaszczykowski made it 2-0 to the home side on the hour mark. Lorenzo Insigne pulled a goal back with 20 minutes remaining but the former Saint-Etienne attacker put the game beyond doubt with his first goal in European football - an exquisite dink over Partenopei shot-stopper Pepe Reina.
The result leaves Jurgen Klopp's side level on nine points with Napoli ahead of the final round of Champions League fixtures and Aubameyang was thrilled to have opened his account on the continent.
"It's a beautiful thing to score because this is my first in the Champions League," the 24-year-old told reporters.
"I waited for this purpose for a while. Just before I scored I had a chance I missed. I stayed focused and it's great. A decisive goal? Perhaps. We had a one goal lead over Napoli and that was good."
Dortmund boss Klopp was equally upbeat after the game and singled out three of his players for individual praise.
He said: "Arsenal will also fight in Naples. It was clear that this was a spectacular event. We're back in the race. [Robert] Lewandowski was sensational even if he missed two great chances to score. The intervention of [Roman] Weidenfeller at 2-1 was a key moment in the match.
"[Henrikh] Mkhitaryan played an amazing game but that is no surprise to me. This victory is important to continue our adventure in the Champions League."