The Argentine wanted to leave the Catalan giants at the end of last season as he was unhappy with the former president Josep Maria Bartomeu and the board.
However, Messi changed his mind about after deciding not to go into a legal battle with the club in order to force his departure.
Spanish publication Mundo Deportivo have reported that the transfer saga has 'disrupted' the dressing room while results on the field have not been up to par.
The report is also adds that several members of the first team feel undervalued by the six-time Ballon d'Or winner.
Messi's future remains up for debate as his contract expires at the end of the season while there has been no indication of an extension.
Paris Saint-Germain star Neymar also recently claimed he would like to play alongside Messi once again, fuelling speculation that he could make the switch to French capital.