Data comprise soil microbial and biogeochemical data collected during a climate and vegetation change experiment conducted across three valleys in Tyrol, in the Austrian Alps. Sites were located near the villages of Obergurgl (lat., long. = 46.844833, 11.023783; mean elevation = 2279m), Soelden (46.978367, 10.972217, mean elevation = 2469m) and Vent (46.863217, 10.896800, mean elevation = 2472m). Soil microbial data include phospholipid fatty acid (PLFA) analyses, and bacterial (16S Small subunit ribosomal RNA) and fungal (internal transcribed spacer region 2) high throughput sequences. Soil biogeochemical data include soil extracellular enzyme activities, soil pH, gravimetric moisture content and various C and N pools and fluxes. The experiment was funded by NERC project NE/N009452/1.