By Jonathan Cheng in Barcelona and Alistair Barr in San Francisco 

BARCELONA--With its new Galaxy S6 smartphone, Samsung Electronics Co. isn't just going toe-to-toe with Apple Inc. on hardware. It is also looking to jump ahead of its Cupertino, Calif.-based rival in one of the most competitive battlegrounds in mobile software and services: payments.

Samsung Pay, which made its official debut Sunday alongside the South Korean company's new flagship smartphone, will allow consumers to link credit, debit and other loyalty cards to their Galaxy S6, allowing them to buy a coffee and rack up loyalty points with the tap of a smartphone. That puts it on a level with offerings from Apple, Google Inc. and others.

But Samsung Pay differs in one notable way. Using technology from LoopPay Inc., the Boston-area startup that it acquired last month, Samsung Pay will be able to accommodate the magnetic-stripe payment machines that are already stationed at nine out of 10 cash registers in the U.S. Samsung has joined with card networks such as MasterCard and Visa, and card issuers including American Express, Bank of America Corp., Citigroup Inc., J.P. Morgan Chase & Co., and U.S. Bank, the company said in a statement.

Apple Pay is banking on a long-heralded shift by U.S. merchants to next-generation card readers that use near-field communication, or NFC, technology. That transition has taken longer than expected, and Apple said in January that its service was available at roughly 220,000 locations in the U.S.--just a fraction of the country's estimated 12 million checkout points.

Some analysts say that a switch to "chip-and-PIN" technology being pushed by the major credit-card networks ahead of a deadline in October, together with Apple Pay's entry into the NFC payments category, will persuade many retailers to shift to NFC readers this year.

But with its ability to work with the legacy magnetic-stripe readers already in place, Samsung Pay offers a nice hedge against foot-dragging by merchants, particularly smaller store owners reluctant to pay for the pricier new equipment.

Still, Samsung Pay isn't betting exclusively on an unwillingness to upgrade. In addition to LoopPay's magnetic-stripe technology, Samsung Pay will also work with NFC technology.

If a checkout terminal has an NFC reader, the Samsung smartphone will work. If not, the user will be prompted to hold the phone next to the magnetic-card reader and the payment will go through that way instead, the company says.

To address security concerns around old magnetic-stripe technology, Samsung Pay will come with one-time-use encryption capabilities-- known in the industry as "tokenization"--to cut down on fraud. That means each transaction will generate a unique electronic token that must first be authenticated by a card network such as Visa, MasterCard or American Express before it goes through.

"This is a pretty big step forward," said Jim McCarthy, global head of innovation and strategic partnerships for Visa Inc., in an interview. "Samsung Pay's acceptance is very broad because it can use the old terminals, while also running on the existing tokenization system that we have set up for Apple Pay. These devices will work at almost any terminal in the U.S."

Tim Sloane, a payments analyst at Mercator Advisory Group Inc., a U.S.-based consultancy, called the technology a "breakthrough" and a major move toward helping Samsung build its credentials as an innovator in mobile software and services--never a strong suit for the handset maker.

"It will make Apple Pay acceptance appear extremely limited," Mr. Sloane said in an interview. "It will position Samsung as having a product that is better than Google's."

Apple and Google weren't immediately available for comment.

Samsung Pay will go live in the second half of the year, starting in the U.S. and South Korea. Samsung says it will then roll the service out to Europe and China.

Robin Sidel contributed to this article.

Write to Jonathan Cheng at jonathan.cheng@wsj.com and Alistair Barr at alistair.barr@wsj.com

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