To characterize the connectome gradient changes of subcortical system in drug-naive first-episode schizophrenia and the longitudinal treatment effect, we calculated the functional gradient and conducted the group comparisons. The principal gradient of subcortex demonstrated the fundamental functional segregation differences between patients at baseline and healthy controls, and the longitudinal analyses indicated that the treatment would gradually normalize the altered gradients with significant improvement of symptoms. This study provided the new perspective on the abnormal subcortical hierarchy organization in schizophrenia and its longitudinal gradient changes could be sensitive to reflect the antipsychotic treatment effect.
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