WASHINGTON—A federal judge heard lively closing arguments Thursday in the government's challenge to the planned merger of rival food distributors Sysco Corp. and US Foods Inc., pressing both sides on potential weaknesses in their positions.

After more than three hours of questioning by U.S. District Judge Amit Mehta, the outcome of the case appeared unclear.

When a lawyer for the Federal Trade Commission, which is challenging the deal, came to the podium, Judge Mehta questioned the reliability of the commission's calculations showing that the two companies held 75% of the market for large national customers and high market shares in 32 cities.

He questioned whether the FTC's methodology made the two companies look more dominant than they are.

Judge Mehta also said there was "plenty of evidence" in the case that showed restaurants and other buyers of food-distribution services use a mix of providers besides Sysco and US Foods. He cited the companies' argument that those other providers would keep the market competitive after the merger.

"Why is that wrong?" he asked a lawyer for the FTC.

But when lawyers for Sysco and US Foods were in front of the court, the judge said that even if the FTC's market-share numbers were wrong, there did appear to be some customers who view Sysco and US Foods as the only two viable options for providing coast-to-coast service. And the companies' have strong positions in many local markets, too, he said.

Many national customers prefer a one-stop shop like Sysco or US Foods instead of piecing together a network of different regional food distributors, a process that can be more labor-intensive and produce higher administrative costs, the judge said. He suggested that if the deal is approved, those customers would have to choose between doing business with the merged company or changing the way they have obtained ingredients and other products they need. "That's what you're asking me to conclude," the judge told a lawyer for Sysco.

The two companies are the largest U.S. distributors who sell food, paper products and a broad line of other supplies to customers like restaurants, schools, hotels and health care facilities. They announced their $3.5 billion merger in December 2013. The FTC spent more than a year examining the deal before suing to block it in February.

FTC lawyer Stephen Weissman on Thursday said the merger "would eliminate an intense rivalry between close competitors" that has produced benefits for customers.

The companies have said they could cut costs by hundreds of millions of dollars through the transaction, but Mr. Weissman said such cost savings weren't a legal justification for an otherwise anticompetitive merger.

Sysco lawyer Richard Parker said the evidence showed the market to be intensely competitive and "relentlessly demanding" on food distributors to lower their prices and become more efficient.

Sysco and US Foods wouldn't be able to raise prices after the merger because customers would take their business elsewhere, Mr. Parker said. "We're big, but we're not the only game in town," he added.

Judge Mehta held eight days of evidentiary proceedings in the case earlier this month. He is deciding whether to issue a preliminary injunction that would block the deal while the FTC holds a longer in-house trial.

In reality, the judge's ruling will determine the fate of the merger. US Foods signaled during court proceedings that it will walk away from the deal if the judge decides to block it preliminarily.

The judge on Thursday didn't say how long it would take to issue a decision.

Part of Thursday's closing arguments focused on whether any potential reduction in competition would be alleviated by the merging companies' proposed divestiture of assets to the next-largest distributor, Performance Food Group Inc.

The companies have agreed to sell 11 distribution centers to PFG that generate $4.6 billion in revenue. PFG's top executive testified earlier in the proceedings that the company will be ready and able to use the assets to compete for large national customers.

Judge Mehta noted that PFG has been enjoying double-digit growth rates, a fact that suggested the company could eventually replace the competition previously provided by US Foods. But he said that PFG's own internal projections showed that even in five years the company will be a fraction of the size US Foods is now.

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