Intelligence services are playing an increasingly important role in the operation of our society. Exploring the evolution mechanism, boundaries and challenges of service ecosystem is essential to our ability to realize smart society, reap its benefits and prevent potential risks. We argue that this necessitates a broad scientific research agenda to study service ecosystem that incorporates and expands upon the disciplines of computer science and includes insights from across the sciences. We firstly outline a set of research issues that are fundamental to this emerging field, and then explores the technical, social, legal and institutional challenges on the study of service ecosystem.