Hey! I also developed really severe depression in school, though mine was during my BA and lasted into my MA. While I know it wasn't my fault, I still feel pretty angry with myself because of how it impacted and hindered certain parts of my life, including my ability to network/form relationships/stay motivated in independent research. However, the most important thing I've learned from GradCafe though is that GPA is not the only factor, or even the most important factor, in your application. I would focus on finding schools that are good fits with your interests, and trying to reach out to any potential advisors before you apply. If you write a fantastic Statement of Purpose, have a great writing sample, and have good LoCs? I think you'll be just fine. And it sounds like you have a wonderful relationship with your advisor, so that's really really good!