Jerry Coyne has replied to the Nature cover story on Intelligent Design. Coyne's letter is short, so I suggest you read the entire thing if you have a subscription to Nature. Here are some of his key points:
I'm glad someone (especially one of the leaders in his field) has called out Nature's absolute ineptitude in reporting the ID "debate."
"[T]he science classroom is the wrong place to teach students how to reconcile science and religion. For one thing, many scientists deem such a reconciliation impossible because faith and science are two mutually exclusive ways of looking at the world . . . The real business of science teachers is to teach science, not to help students shore up worldviews that crumble when they learn science . . . [ID] has no more place in the biology classroom than geocentrism has in the astronomy curriculum . . .
"[S]tudents who cannot handle scientific challenges to their faith should seek guidance from a theologian, not a scientist. Scientists should never have to apologize for teaching science."