The former Arsenal midfielder believes that his Argentine team-mate must rest to recover from his latest injury to make sure that it does not end up ruining his season
The 26-year-old went off midway through the first half of the Catalans' 4-1 win over Betis with a hamstring problem, in the process making it five Primera Division games without a goal for the Argentina international.
Fabregas, who is also set to undergo tests after complaining of discomfort in his knee, starred in his team-mate's absence with two goals following a starting berth and is wary of rushing Messi back into action.
"[Messi] has to stop to take the time that he needs to emphasise his explosiveness," the midfielder told Canal Plus on Sunday after the match. "Something similar happened to me and I was badly affected.
"You believe you're okay at first but you're not. I was disappointed to miss out on some games but I know I'm at Barcelona and I will continue to grow.
"I spent the injury out of action and even spent half a year with the ordeal, which was not good; it was a very bad injury. Messi has to stop as it takes time to recover if it does not heal properly."
Fabregas also alleviated fears that the knock which he picked up against Betis could see him sidelined for some time, though admitted that it has been hindering him since the Champions League win over AC Milan in midweek.
"It will not be serious," the former Arsenal man added. "Just a minor annoyance.
"I had a major injury in the region not long ago, so I preferred to come off the pitch early. I was already not comfortable against Milan."