You don't. The point of a tracker is that it tracks who entered a comment. If an agent is doing it, then it's based on a call or email from a client (who should be encouraged to use the portal) and they should say that in the comment.
The problem is ,I need to pass my application's username to JIRA while adding a comment
Same point - it's logging the agent who actually makes the comment because that's what it's for.
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