The CUT&RUN method can be applied to plant tissue samples. An essential step in addition to those lined out in the protocol is the generation of spheroblasts so that it becomes possible to permeabilize the plasma membrane for the application of the antibodies and the MNase fusion protein. Alternatively, use isolated nuclei as sample material. The CUT&RUN rabbit anti-h4K27me3 positive control antibody ( ABIN6923144) and the CUT&RUN guinea pig anti-rabbit IgG negative control antibody ( ABIN101961) as well as the ConA beads ( ABIN6923139 or ABIN6952467) are suitable for use with plant samples.