Despite a convincing victory in Ligue 1, Neymar and Messi were met with embarrassing jeers on Sunday by their home supporters.
The pair was first booed right before kick-off while their names were being read out and the reception remained the same throughout the entire game as the Brazilian was even heckled when he netted in the 52nd minute to give his side a 2-0 lead.
The animosity towards the two is understood to be the result of their UEFA Champions League elimination at the hands of Real Madrid last week.
Their head coach has now revealed that he is saddened by the treatment of the former FC Barcelona duo.
"No one likes this context, it made me sad," Pochettino said after the game, according to Metro.
"Everyone who loves PSG is sad after the disappointment of Madrid. I’m sad with what I experienced today."
Asked if Messi and Neymar were affected by the reaction from the crowd, the Argentine replied: "We were all affected.
"We understand the disappointment and the frustration. We’re all living it together, as a team.
"We have a duty to take responsibility for what happened. We share this disappointment with the supporters."
Meanwhile, defender Presnel Kimpembe said he understood the supporters' anger towards them.
"Inevitably we hear the whistles, even if we’re focused and concentrated on our match.
"We understand their disappointment, we understand their hatred. We’re professional, we know how to stay so too, and it’s now that we must raise our heads and be able to move forward in order to win Ligue 1.
"We are all at fault, no one more than anyone else. We are a team, we must stick together through good and bad.
"It’s time to show that we have character and that we’re a team by staying united and strong together, even if it’s hard, very hard."