If you are running Cyclone Interchange or Cyclone Activator with a bundled database (Sybase):

1) Unzip the UpdateRootCerts-xxx.zip file into the cyclone root directory.
2) Change into the newly created UpdateRootCerts directory
3) Make sure the application is running.
4) Run runUpdateRootCert.bat (or runUpdateRootCer.sh if on unix)
5) In the UpdateRootCerts.properties change  
SERIAL_NUMBER=e49efdf33ae80ecfa5113e19a4240232 to
SERIAL_NUMBER=236c971e2bc60d0bf97460def108c3c3
6) Run runUpdateRootCert.bat (or runUpdateRootCer.sh if on unix)
7) Install the attached .p7c certificate (found in the intermediateVersignCert.zip)as a trusted root. This can be found by going to Administrator tool> Tools>certificates> trusted Roots>import
8) Restart your cyclone application

If you are running Cyclone Interchange with an external database (Oracle, MS SQL).

Manual Certificate Replacement (DBA access required):
1) Make sure the application is running
2) Run the following SQL:
DELETE certs WHERE serialnumber='e49efdf33ae80ecfa5113e19a4240232';
DELETE certs WHERE serialnumber='236c971e2bc60d0bf97460def108c3c3';
COMMIT;
3) Install the attached .p7c certificate (found in the intermediateVersignCert.zip)as a trusted root. This can be found by going to Administrator tool> Tools>certificates>trusted Roots>import
4) Restart your cyclone application