<abstract><p>Smart coordination of production, logistics, transport and governance aims to move, store, supply and use physical objects throughout the world in a manner that is economically, environmentally and socially efficient, secure and sustainable. To achieve this, intelligent Logistics Systems (iLS) are needed, providing for transparency and interoperability in Society 5.0's smart environments by Augmented Logistics (AL) services. iLS are high-quality Autonomous Systems (AS), represented by intelligent agents that can easily take part in and learn from their environments. Smart logistics entities, such as smart facilities, vehicles, intermodal containers and distribution hubs represent the infrastructure of the Physical Internet (PhI). In this article the role of iLS in e-commerce and transportation is discussed. New behavioural, communication and knowledge models of iLS and their AL services in relation to the PhI OSI model are presented.</p></abstract>