The Plant-Climate Interaction Lab houses a new Nikon stereomicroscope, supported by iCRAG and ERC-TERRAFORM, configured to create high-resolution maps of complex materials. The system uses a high optical magnification (>300x) single-optic system with a large working distance (>60 mm), a motorized stage and focus. The Discipline of Botany is the first in Ireland to procure Nikon’s Extended Depth of Focus (EDF) software, which allows micron-scale topographic reconstruction, for example, of fossiliferous rocks and leaf surfaces. These outstanding and state-of-the-art capabilities can also be combined with large image scans and modular epifluorescence to create a variety of true-to-scale spatially integrated high-quality datasets for relatively large samples (~70 mm).