This rapid evolutionary change is one reason why much of the reasoning for "Paleo" diets is flawed. Humans have changed since Paleo times.
Of course that's not the way the popular press and fitness industry approach the Paleo diet, but one shouldn't throw out the baby with the bathwater.
Personally, the paleo hypothesis has always sounded rather dubious to me, but there's more than enough evidence that the ketogenic effects of paleo-like diets are useful at least: http://ketopedia.com/principia-ketogenica/