Entrepreneurial ecosystems are now central to the economic policies of nations, with particular relevance in Europe. This chapter intends to explore the evolution of the studies on innovation and entrepreneurship ecosystems in order to identify gaps and new perspectives of research that can serve as a reflection to universities, political decisions, and the business fabric. Extensive research was conducted using the Web of Science database. Six clusters were found in the literature on entrepreneurship and innovation ecosystems: ecosystems of innovation, entrepreneurship, region, new ventures, technology, and entrepreneurial university. New theoretical perspectives based on bibliometric analysis and new research paths have been identified.