Formation of synapses by neurons onto specific targets is essential to the function of a nervous system. The isolation and analysis of Caenorhabditis elegans and Drosophila mutants with synaptogenesis defects has provided insight into the functions of evolutionarily conserved molecules at single-synapse resolution. Importantly, such studies have uncovered novel molecules and signaling mechanisms. Here, recent progress on synaptic target recognition and synaptic assembly are reviewed.