Accompanied by a group of sanyasins of the mutt, Modi spent about a few minutes at the Sivagiri hillock, located around 50 kms away from Thiruvananthapuram, and offered obeisance at the 'maha samadhi mandapam', the final resting place of the legendary Guru.
The Prime minister also touched the feet and took the blessings of swami Prakashananda, Sree Narayana Dharma Sangham Trust President and the senior most swami of the mutt.
A quality of the Hindu religion was that whenever there is lot of evil prevailing, great people are born to save the society. Narayana guru had awakened and united the people to fight against untouchability and other ills in the society, he said.
Modi also remembered the contributions of Adi Sankara, the early eighth century philosopher, who consolidated the doctrine of 'Advaita' philosphy.
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Modi, on his maiden visit to the Mutt after becoming Prime Minister, planted a sapling at the campus.
He also unveiled a bilingual plaque of 'Daiva Dasakam', a universal prayer song penned by Guru, to mark the centenary of its composition.
The Prime Minister went round the 'Vaidika Mutt' in the Sivagiri campus, a more than 100-year-old building where Mahatma Gandhi and Rabindranath Tagore had met the Guru.
Modi had earlier visited Sivagiri in April, 2013 when he was Chief Minister of Gujarat.
AICC chief Sonia Gandhi is scheduled to visit the Mutt later this month as part of the annual Sivagiri pilgrimage.