He made the remarks during a Facebook video interaction organised by Canadian MP Bardish Chagger to mark Gurupurab or the 551st birth anniversary of Guru Nanak, the Founder of Sikhism.
The Canadian Prime Minister said: "I would be remiss if I didn't start by recognising the news coming from India about the protest by farmers. The situation is concerning. We are all very worried about family and friends. We know that's a reality for many of you.
"Let me remind you, Canada will always be there to defend the rights of peaceful protesters. We believe in the process of dialogue. We've reached out through multiple means to the Indian authorities to highlight our concerns. This is a moment for all of us to pull together."
However, the Indian Ministry of External Affairs spokesperson Anurag Srivastava said: "We have seen some ill-informed comments by Canadian leaders relating to farmers in India.
"Such comments are unwarranted, especially when pertaining to the internal affairs of a democratic country. It's also best that diplomatic conversations are not misrepresented for political purposes."
Trudeau later added: "Canada will always stand up for the right of peaceful protest anywhere around the world. And we're pleased to see moves toward de-escalation and dialogue."
Sources: The Globe and Mail, The New Indian Express, Reuters