The ISE built-in CA can be used to issue certificates to devices:
1. Automatically - Done via the Client Provisioning/Onboarding flow/process.
2. Manually - Done via manually generating a CSR and submitting it to ISE for signing
The CA itself can be deployed as a:
1. Standalone CA
2. Subordinate/Issuing CA to an existing CA such as Microsoft PKI. That way, the ISE CA can be used to issue certificates to BYODs while the existing Microsoft CA can issue certificates to domain joined machines and domain based users.
By integrating ISE with an existing CA you can configure OCSP as well
For more information I would recommend you reference the Admin Guide for ISE:
http://www.cisco.com/c/en/us/td/docs/security/ise/2-0/admin_guide/b_ise_admin_guide_20/b_ise_admin_guide_20_chapter_0111.html
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