It sounds like you need to spend time reading up on jQuery and AJAX. Your description reads like your boss wants you to use jQuery and AJAX to query a database, via server side Perl. Perhaps he saw your "some thousand lines of code" and doesn't think it's going to be maintainable. jQuery does a lot of heavy lifting for you, it's a widely used framework. If you were concerned by this requirement I suspect you'd have asked your boss about this already. Using Perl, jQuery, and JSON for Web development should be of interest.
Update: added a few words to second sentance.
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