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Cyber security is becoming an important topic due to the increasing recognition of its potential consequences, both directly to the systems concerned and indirectly to society at large. It is currently being considered generally, however, its effect on a System-of-Systems (SoS) and its engineering in particular needs consideration, both in terms of deliberate attacks as well as accidental threats and misuse of the SoS. This paper surveys existing cyber security work that is particularly relevant to SoS engineering. The potential threats and requirements are described and the state-of-the-art framed in terms of the management and runtime re-engineering of an SoS, where we argue the key issues lie. We finish by identifying key areas for future research.