BRUSSELS--The European Union, bowing to international pressure and lobbying from the aviation industry, reversed plans to impose a carbon charge on non-EU carriers operating long-haul flights in and out of Europe.

Under an agreement reached late Tuesday, European airlines operating in EU airspace will have to pay for CO2 by buying credits through the European Emissions Trading Scheme. The 28-member bloc also said it still would bring all airlines using European airports into the ETS if no global agreement on airlines' carbon emissions was reached by 2017.

The deal, which still must win approval from the European Parliament, comes after years of debate during which the EU faced threats of retaliatory measures from the U.S., China, Russia, India and other countries.

The compromise marks a major reversal of earlier plans by the European Commission, which had wanted to include all airlines flying in and out of EU airspace into its ETS in a bid to make the sector accountable for environmental damage.

"EU member states lost their nerve given the international opposition, largely led by the U.S.," said Bill Hemmings of Transport & Environment, a Brussels-based environmental group. "It's very unfortunate that the European response has been a continuous set of concessions."

Several EU officials said the outcome was also the result of strong resistance by France, Germany and the U.K., where plane maker Airbus Group NV has large operations. Airbus lobbied aggressively for exemptions in the deal, in part because it was pressed to do so by China, a major Airbus customer that has put billions of dollars of plane purchases on hold because of its anger over the EU's environmental plan.

"This was down to Airbus and Airbus states," one person involved in the negotiations said.

The European Low Fares Airlines Association, which includes Ryanair Holdings PLC and easyJet PLC, said it would call on the European Parliament to reject the deal when the issue comes up for a vote later this month.

It said the agreement meant that its members would be unfairly penalized, as its carriers fly mainly in and out of EU countries, while long-distance airlines, which cause 80% of EU aviation emissions, are now exempt.

Environmental groups say aviation is the most carbon-intensive mode of transportation, responsible for about 5% of man-made climate change.

Peter Liese, the German lawmaker who is steering the legislation through the parliament, said the compromise was "acceptable, though it's not at all perfect." He said he would now focus on paving the way for a global deal at the United Nations' airline body, the International Civil Aviation Organization.

If the ICAO fails to come up with a plan in time for its general assembly in September 2016, international airlines would then be incorporated into the ETS in 2017.

"The positive thing is that there's a time bomb built in there, so that if ICAO hasn't come up with something credible, the commission could go back to its original plan," Mr. Hemmings said. "But we've seen over the years how foreign opposition has swayed discussions, and it's too early to say if ICAO will prove its mettle."

Write to Vanessa Mock at vanessa.mock@wsj.com

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