Hmm, I venture to guess that if you compared the selection at Bevmo or Total Wine they would surpass that of Whole Foods. Not to take anything away from Whole Foods as they do have an outstanding selection for a grocery store, I just don't think it is the best.
Best Bottled Beer Selection Phoenix 2012 - Whole Foods Market
The choice of beer at most grocery stores comes down to color — would you like the boring, mass-produced lager that comes in a blue box or the boring, mass-produced lager that comes in a silver box? Not so at this Whole Foods location, where scores of bottles from Belgium, Germany, Canada, and every state in the union stand in refrigerated, fluorescent-lit glory. Beer nerd James Swann not only keeps the shelves stocked with some of the best craft brews around, but also holds weekly classes at the Watering Hole — the in-store beer bar — to educate and inebriate the masses.