Boichik Bagels is among the Bay Area victims of a massive credit card skimming machine. - SFGATE

Boichik Bagels, Ghirardelli and the San Francisco 49ers are among the Bay Area brands targeted in a large criminal ecosystem attempting to defraud consumers.

There was a time when Emily Winston thought disappointing her customers by killing a popular Boichik Bagels flavor was the worst thing a small-business owner could go through. This was so much worse.…