The Indians alleged that Brad Hogg referred to an Indian player, allegedly Kumble, as a ''ba***rd", which is considered to be a highly offensive term in India.
The development has given a new twist to the tale and intensified the already charged atmosphere between the two teams.
The charge appears to be an attempt to pick apart Australia's argument that ''monkey'' is a racially charged word, a stance the Indians have challenged.
Indian skipper Anil Kumble criticised the behaviour of the Australian players, although the counter-charge against Hogg is believed to have taken the Australian camp by surprise.
The atmosphere already marred by some horrendous umpiring decisions in the second Test, and infuriated with Kumble, who even went on to say at the post-match press conference that ''only one team played in the true spirit of the game.''
The Australian delegation consisting of Matthew Hayden, Michael Clarke, Adam Gilchrist, Ricky Ponting and Andrew Symonds told match referee Mike Procter that Harbhajan called Symonds a ''monkey'' during the 116th over of India's first innings.
Ponting is also understood to have told Procter that Harbhajan made an identical taunt toward Symonds during a one-day match at Mumbai's Wankhede Stadium in October.
Symonds was subjected to 'monkey' chants during that game, won by India, and were subsequently arrested. The Australians though made no formal complaint of Harbhajan's actions at the at time.