This doesn't seem like such a bad thing. SEGA puts out some great games, and I am sure they will take full advantage of this.
Sega also hates tasking risks on localizations.
Best example being Valkyria Chronicles 3. A guaranteed success at the time. All because VC2 (a much lesser title in all aspects) didn't do so well.
They fail at business.
Considering how niche most Atlus titles are, we probably wont see anything outside of the big, main titles like Persona or established series.