The human gut microbiota plays a foundational role in health, particularly influencing physical performance, metabolism, and cognitive well-being. This paper explores how insights from gut microbiota science can be integrated with physical education, especially in the Indian context where nutrition, hygiene, and exercise patterns vary widely across regions. With rising rates of non-communicable diseases (NCDs) and mental health challenges among Indian youth, a multidisciplinary model linking microbiome awareness with physical education is both timely and transformative. The study also emphasizes the role of AI, digital health platforms, and indigenous health knowledge systems in promoting sustainable well-being, aligned with India's National Education Policy (NEP 2020) and the UN Sustainable Development Goals (SDGs).