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The Serbo-Macedonian Massif (SMM) represents a composite crystalline belt within the Eastern European Alpine orogen, outcropping from the Pannonian basin in the north to the Aegean Sea in the south. The central parts of this massif (south-eastern Serbia) consist of the medium- to high-grade Lower Complex and the low-grade Vlasina Unit. Outcrop- and micro-scale ductile structures in this area document three major stages of ductile deformation. The earliest stage D1 is related to isoclinal folding, commonly preserved as up to decimetre-scale quartz–feldspar rootless fold hinges. D2 is associated with general south-eastward tectonic transport and refolding of earlier structures into recumbent metre- to kilometre-scale tight to isoclinal folds. Stages D1 and D2 could not be temporally separated and probably took place in close sequence. The age of these two ductile deformation stages was constrained to the Variscan orogeny based on indirect geological evidence (i.e. ca. 408-ca. 328). During this period, the SMM was involved in a transpressional amalgamation of the western and eastern parts of the Galatian super-terrane and subsequent collision with Laurussia. Outcrop-scale evidence of the final stage D3 is limited to spaced and crenulation cleavage, which are probably related to formation of large-scale open upright folds as reported previously. 40Ar/39Ar thermochronology was applied on hornblende, muscovite, and biotite samples in order to constrain the age of tectonothermal events and activity along major shear zones. These 40Ar/39Ar data reveal three major cooling episodes affecting the central SMM. Cooling below greenschist facies conditions in the western part of the Vlasina Unit took place in a post-orogenic setting (extensional or transtensional) in the early Permian (284 ± 1 Ma). The age of activity along the top-to-the-west shear zone formed within the orthogneiss in the Božica area of the Vlasina Unit was constrained to Middle Triassic (246 ± 1 Ma). This age coincides with widespread extension related to the opening of the Mesozoic Tethys. The greenschist facies retrogression in the Lower Complex probably occurred in the Early Jurassic (195 ± 1 Ma), and it was related to the thermal processes in the overriding plate above the subducting slab of the Mesozoic Tethys Ocean. © 2016, Springer-Verlag Berlin Heidelberg.