This dataset contains information on the trap-setting operations and the number and species of animals captured during systematic sampling surveys in natural habitats of Czechia, Germany, Italy and Poland in 2019-2023. The trapping data include dates of setting, checking and removal at multiple locations. Trapping at each location typically involved 3-5 nights per trap line, but this could vary. The trap lines typically comprised 12 pairs of traps each set 10 metres apart along a transect line, with geographical coordinates for the centre of a pair of traps along the trap line. Animals were primarily captured for tissue collection for genetic analysis (not included in this dataset) to investigate the effectiveness of habitat corridors for promoting movement. Full details about this dataset can be found at https://doi.org/10.5285/97528815-bd0b-484d-8e68-a1184828631d