Messages through SharePoint are marked as ***SPAM*** in the message title.
I'm using the native comments system in Office 365 Web via SharePoint. I'm also using Outlook 365 Web as my primary email client. Whenever I get a notification that a team member has made a comment in one of our collaborative documents, it's tagged in the title as SPAM. These are all Microsoft products. Surely you can do better at integrating between products.