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It's a problem for any software, although opensource is more at risk i suppose since hackers have access to all the source code. All you can do is make sure you stay upto date with patches/upgrades and make sure your server is secure and again all software is updated and files/folders have correct permissions.
Something Matt Cutts mentioned in his SEO video I watched earlier is that some phishing scripts only appear for certain people or only if the referrer is a search engine so you alone might never know it's there.