The remarks drew flak from the CPI(M), NCP and AAP, whose leaders targeted the BJP MP for the "insensitive" remarks.
The MP from Mumbai North Central said it was the responsibility of the BJP-led Maharashtra government to sit with the protesters, who were being "captured" by Maoists, to solve their problems.
"Sadly, tribals have been captured by the Maoists and their centre is in Pune. The government can do a lot for them, but the (Maoists') ideology is stopping them.
"We have seen urban Maoists in many cities of India. They go to districts which are called Maoists affected areas," Mahajan told reporters outside Parliament.
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The farmers, who banded together under the Left-affiliated All India Kisan Sabha (AIKS), reached Mumbai last afternoon and called off their protest this evening after the BJP-led government in Maharashtra accepted their demands.
The main demand on the farmers' list includes an unconditional loan waiver and transfer of forest land to tribal farmers who have been tilling it for years.
NCP leader Supriya Sule also lambasted Mahajan over the remarks, asking the BJP MP not to belittle the farmers.
"The blood which comes out of the foot after a thorn is embedded is not Maoist just because it is red. There is no politics attached to the toil and sweat of farmers. This was a morcha of those who toil hard. I condemn those who call people struggling for their just demands as Maoists," Sule tweeted.
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