Natarajan's victory came against the backdrop of former Neemuch district Congress president and Lok Sabha aspirant Surendra Sethi's allegation that the primary was rigged. Sethi had boycotted the election.
The concept of primary is aimed at decentralisation of power and encouraging inner-party democracy in Congress.
A total of 1,501 persons were eligible to cast vote in the primary election, which was held at hotel Harsh Vilas in Mandsaur today.
Sethi had alleged at least 500 Congress workers registered for voting did not belong to either Neemuch or Mandsaur, which according to him has cast a serious doubt on authenticity of the entire process.
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"It is sad that Rahul's pilot project was being sabotaged by those who claim to be close to him," he had said.
Under the project being steered by Rahul, nominees in 15 Lok Sabha constituencies across the country, will be chosen through primaries or inner party elections in a bid to strengthen "democracy" in Congress.