This is a Review for the special issue "Pre synaptic Dysfuntion and Disease". Abbreviations: abFP, acid brightening fluorescent protein; ADBE, activity-dependent bulk endocytosis; APEX, ascorbate peroxidase; BONCAT, biorthogonal noncanonical amino acid tagging; CLARITY, cleared lipid-extracted acryl-hybridized rigid immunostaining/in situ hybridization-compatible tissue hydrogel; CME, clathrin-mediated endocytosis; DAB, diaminobenzidine; dSTORM, direct stochastic optical reconstruction microscopy; EM, electron microscopy; FKBP, FK504-binding protein; FLIM, fluorescence lifetime imaging; FRB, FKBP-rapamycin binding; FRET, forster resonance energy transfer; GFP, green fluorescent protein; GRAB, G-protein coupled receptor activation based; HRP, horse radish peroxidase; iGluSnFR, intensity-based glutamate fluorescent reporter; iSnFR, intensity-based fluorescent reporter; miniSOG, mini singlet oxygen generator; mTOR, mammalian target of rapamycin; PALM, photo-activated localization microscopy; pH, potential of hydrogen; sdTIM, subdiffractional tracking of internalized molecules; SILAC, stable isotope labelling by amino acids in cell culture; SILAM, stable istope labelling in mammals; smFRET, single-molecule FRET; SNARE, soluble N-ethylmaleimide-sensitive factor Attachment Receptor; STED, stimulated emission depletion microscopy; uPAINT, universal point accumulation imaging in nanoscale topography; vGAT, vesicular gamma aminobutyric acid transporter; vGLUT, vesicular glutamate transporter.