With India naming an unchanged 12-man squad on the eve of the Test, Mohammad Shami is the bowler sitting out to allow Thakur to come in.
It's still unclear whether skipper Virat Kohli is picked up for the squad or Rohit Sharma - who led India to Asia Cup triumph in Dubai - would be asked to lead the side.
Rishabh Pant who debuted for India in the fifth Test match against England has been the in-form batsman for India right now and is likely to feature in the side in the first ODI in Guwahati.
Ambati Rayudu, after a good Asia Cup performance, will retain his place even if Kohli decides to play. While Pandya had injured his lower back in the Asia Cup match against Pakistan to be ruled out of the tournament, Jadhav won India the title with an injured hamstring. Delhi wicket-keeper batsman Rishabh Pant has been included in the team.
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Shardul, 26, plays for Mumbai in the Ranji Trophy and is just four days away from his birthday.
In their place are Mohammed Shami, Khaleel Ahmed and Shardul Thakur form India's bowling department. The spin duo of Kuldeep Yadav and Yuzvendra Chahal has been named in the Indian team. "And we can take a call at appropriate time about who is the best among the two".
After the complete one-sided Test in Rajkot, both teams have geared up for the second and final Test of the two match Test series in Hyderabad which will be played from 12th October to 16th October.