We propose a method to infer the coupling structure in networks of nonlinear oscillatory systems with multiple time scales. The method of partial phase synchronization allows us to infer the coupling structure for coupled nonlinear oscillators with one well-defined time scale. The case of oscillators with multiple time scales has remained a challenge until now. Here, we introduce partial recurrence based synchronization analysis to tackle this challenge. We successfully apply the proposed method to model systems and experimental data from coupled electrochemical oscillators. The statistical significance of the results is evaluated based on a surrogate hypothesis test.