You can use the @DirtiesContext annotation on the test class that modifies the application context.
Java Doc
Spring documentation
By default, this will mark the application context as dirty after the entire test class is run. If you would like to mark the context as dirty after a single test method, then you can either annotate the test method instead or set the classMode property to AFTER_EACH_TEST_METHOD at your class level annotation.
@DirtiesContext(classMode = ClassMode.AFTER_EACH_TEST_METHOD)