We study the time evolution of the test scalar and electromagnetic fields perturbations in configurations of phantom wormholes surrounded by dark energy with $\omega< -1$. We observe obvious signals of echoes reflecting wormholes properties and disclose the physical reasons behind such phenomena. In particular, we find that the dark energy equation of state has a clear imprint in echoes in wave perturbations. When $\omega$ approaches the phantom divide $\omega=-1$ from below, the delay time of echoes becomes longer. The echo of gravitational wave is expected to be detected in the near future, the signature of the dark energy equation of state in the echo spectrum can serve as a local measurement of the dark energy.