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For the preparation of food, Autotrophs obtain CO₂ directly from the atmosphere from the stomata by the process of diffusion

But, they cannot obtain N₂ directly from the atmosphere, or rather they cannot synthesis the N₂ in the air , as they are bonded by triple bonds and hard to break. They obtain N₂ from the soil, where it has already been broken down by the nitrogen-fixing bacteria
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autotrophs obtain CO2  directly from atmosphere through stomata .
they obtain N2 by roots. here nitrogen is absorbed by the soil and it is changed into the N2 by root nodules. thus they obtain CO2 and N2 to make their food
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