During Domino installation, you can add the contents of PEM bundle to the domino.yml configuration file with the top-level key custom_certificates.
The following is an example:
...
custom_certificates: |
-----BEGIN CERTIFICATE-----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-----END CERTIFICATE-----
-----BEGIN CERTIFICATE-----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-----END CERTIFICATE-----The installer copies the contents of the custom certificates into the domino-custom-certificates ConfigMap.