Using holography we study the evolution of the Wilson loop of a quark-antiquark pair in a dynamical strongly coupled plasma. The time-dependent plasma, whose dynamics is originated from the energy injection, is dual to the anti-de Sitter-Vaidya background. The quark-antiquark pair is represented by the endpoints of a string stretched from the boundary to the bulk. The evolution of the system is studied by evaluating the expectation value of the Wilson loop, throughout the process. Our results show that the evolution of the Wilson loop depends on the speed of the energy injection as well as the final temperature of the plasma. For high enough temperatures and rapid energy injection, it starts oscillating around its equilibrium value, immediately after the injection.