The latest generation of Micromegas detectors show a good energy resolution, spatial resolution and low threshold, which make them idoneous in low energy applications. Two micromegas detectors have been built for dark matter experiments: CAST, which uses a dipole magnet to convert axion into detectable x-ray photons, and MIMAC, which aims to reconstruct the tracks of low energy nuclear recoils in a mixture of CF4 and CHF3. These readouts have been respectively built with the microbulk and bulk techniques, which show different gain, electron transmission and energy resolutions. The detectors and the operation conditions will be described in detail as well as their discrimination capabilities for low energy photons will be discussed.