My data was inherently hierarchical, but there was not enough content in each level of the hierarchy to justify a relational DB (SQL) with a one-to-many approach. It was also far easier to share data between the frontend (Angular), backend (Node.js) and DB (MongoDB) as they all pass around JSON natively. This allowed me to skip the translation layer from relational to hierarchical. You do need to think about correct indexes in MongoDB, and make sure the objects have finite size. For instance, an object in your DB shouldn't have a property which is an array that grows over time, without limit. In addition, I did use MySQL for other types of data, such as a catalog of products which (a) has a lot of data, (b) flat and not hierarchical, (c) needed very fast queries.