Bopanna, who earned India a direct entry in the men's doubles event courtesy his top-10 rank, issued a statement that he has told AITA about his choice earlier in the day.
"I look forward to representing India at my second Olympics and consider it a privilege, responsibility and honour. A Direct Acceptance provides me the right to nominate my men's doubles partner, an opportunity for me to exercise my judgement as to the best possible partner for me. I am looking forward to the support and good wishes of all concerned in the lead-up to the Olympics," Bopanna said in a statement.
"Yes, he wants to play with Myneni and not Leander," an AITA source said.
Paes, a winner of 18 Grand Slam titles, is eyeing a record seventh Olympics, but Bopanna's choice reflects that he does not bother about the personal milestone of India's most accomplished tennis player.
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Bopanna is justified in picking a partner of his choice since rules permit him to do so but at the same time it holds true that even if Bopanna had ended 11 in the world rankings on the cut-off date, he and Paes with their combined rank would have made the draw, by a margin if not comfortably.
"It's not a wise move. People are not going to forget if Paes happens to miss this Olympics because of Rohan... He will face lots of criticism," said an AITA official.
ITF rules clearly state that a doubles team has to be nominated by the national association. Unless AITA approves Myneni and Bopanna as a team, they can not play.
It will not be a surprise if AITA's selection committee goes ahead with Bopanna, Paes, Sania Mirza and Prarthana Thombare as India's Olympics team.
Sania will play women's doubles with young Thombare, the country's number 2 doubles player ranked 209. She has been traning for the last one year at Sania Mirza Tennis Academy, under the guidance of Sania's father and coach Imran.
AITA had made efforts to convince Bopanna that he accepts Paes as his partner but the 36-year-old stuck to his guns and decided not to pick him as his partner.