Ground penetrating radar is non-invasive technology suitable for mapping moisture content variations since it shows high sensitivity to changes in water saturation. In this work we used a GPR tomography approach to estimate moisture content within two small-leaved lime (Tilia cordata) and two Scots pine (Pinus sylvestris) trunks. Additional information was derived using the method of GPR zero-offset. GPR data was collected in Moscow (diurnal monitoring in September 2021) using a shielded GPR antenna working at 1500 MHz. Moisture values derived from GPR data were compared with the values obtained directly by measuring sampled wood cores gravimetrically. A good agreement was observed between GPR-derived moisture content and core sample-derived values. Notwithstanding GPR-derived moisture content is about two times higher than core sample-derived values, a strong linear relation with a determination coefficient more than 0.8 is observed. Diurnal monitoring did not reveal any significant changes in moisture content inside the trunks. It can be concluded that the period of early autumn in the Moscow region is characterized by a constant moisture content of the small-leaved lime trunk during the day.