You can model your environment into one or more business applications. When you have multiple business applications within the same Splunk AppDynamics account, you can use the cross application flow map to view relationships between the different applications.

Since access permissions in the Controller UI can be assigned by business application, organizing business application by teams in your organization may make the most sense. Keep in mind that configuration settings such as Health Rules are scoped to a business application, avoid having more business applications than needed to ease configuration.