Darwinism is essentially over as far as the evidence is concerned, as Casey Luskin explains. But it is not over as far as the popular story sold to the public by people whose careers depend on it is concerned. This article in Nature is a foray into honest discussion.
At The Scientist: Monroe and his colleagues found evidence of specific epigenetic characteristics such as cytosine methylation that prevent mutations from occurring in those regions, not unlike protective barriers. These structures and the variability in mutation rates within a single organism’s genome, Monroe says, suggest that “evolution created mechanisms that changed how evolution works.”