Neymar, the world's most expensive footballer, was stretchered off 10 minutes from time at the Parc des Princes as PSG opened up a 14-point lead in Ligue 1.
The 26-year-old was on his own when he innocuously rolled his ankle and flopped to the ground in pain.
"The first examination in the locker room revealed that it was a twist to the ankle. Now we will do a medical examination to find out what this twist is," said Emery, whose team face Real at home on March 6 in the Champions League last 16 where they need to overturn a 3-1 deficit.
PSG skipper Thiago Silva told Canal: "Neymar already had a swollen ankle. I am not a doctor, but I don't think he'll be available on Wednesday (when PSG face Marseille again in the French Cup). He has to rest."
It was an otherwise easy night for the big-spending Parisians as teenager Kylian Mbappe became the youngest scorer in the French 'Classique'.
Uruguayan goal-machine Edinson Cavani was also on the scoresheet while Neymar had a hand in PSG's other goal.
Monaco remain second with Marseille third, two points behind, and Lyon a further five adrift.
This result was never in doubt and Emery even had the luxury of bringing off Mbappe, 19, after an hour to give Argentine international Angel Di Maria a half-hour run out.
PSG were off to a flying start through Mbappe but Marseille were in part the architects of their own downfall.
France midfielder Adrien Rabiot tried to thread a through ball on 10 minutes to Mbappe, cutting in from the right.
As expected, the hosts were dictating the tempo and dominating the ball, but Neymar was off target with a header from a Dani Alves cross.
The second came before the half hour mark, though, and again it owed much to poor Marseille defending.
Layvin Kurzawa slipped Rabiot into the inside left channel in the visitors' box and he picked out Brazilian Neymar with a cut-back.
- Showboating -
===============
The match was as good as over and PSG had barely needed to break sweat. Ten minutes before half time and the men in blue were already breaking out the showboating tricks and flicks, with Rabiot's backheel setting up Neymar to curl a long-range strike just past the post.
Marseille barely had a sniff and when midfielder Andre Anguissa got up to meet a header in the box, it looped up harmlessly and landed in goalkeeper Alphonse Areola's arms.
His cross picked out Cavani, whose first touch with his left was sublime to turn marker Rolando, while his right-footed finish was unstoppable.
Marseille were barely putting up a fight, but substitute Clinton N'Jie managed to get himself booked for needlessly lashing out at Marquinhos and then clashing with Dani Alves, who also saw yellow.
After Neymar was stretchered off, the pacey N'Jie almost gave Marseille hope but having rounded Areola, his goal-bound effort was cleared off the line by sliding PSG captain Thiago Silva.
Disclaimer: No Business Standard Journalist was involved in creation of this content
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