I was just describing a fast way to implement this, perhaps through the “Move Block” plugin. The main point is to have comments under a PDF link back to the PDF when inserted into a new note (presumably an outline of your paper).
See here for more thorough ideas: PDF Annotation: Copy Text With Block Ref, Citekey, and Page Number
Generally, we need to 1) Insert a PDF in any block, likely from Zotero and have a citekey 2) have any comments/blocks under that PDF include the citekey when added to a new note. Thus, using the Zettlekasten method we could quickly write new articles by opening a new TOC and adding relevant notes, and they would be “automatically” cited.
To be clear, this is just the fastest way and it could be built up a bit over time, by having preferences in citation type, format, etc.