Catherine Ashton, high representative of the union for foreign affairs and security policy, made the statement after Ukraine's former prime minister Yulia Tymoshenko was sentenced for seven years of imprisonment by the Pechersk District Court for exceeding power in a 2009 gas deal with Russia and squandering public funds.
"The verdict comes after a trial which did not respect the international standards as regards fair, transparent and independent legal process," Ashton said in a statement.
Ashton blamed the trail of Tymoshenko "confirms that justice is being applied selectively in politically motivated prosecutions of the leaders of the opposition and members of the former government."
"It is especially disappointing for a country that currently holds the Chairmanship of the Committee of Ministers of the Council of Europe," she added.
The EU also urged the Ukrainian authorities to ensure "a fair, transparent and impartial process" in any appeal in the case of Tymoshenko and in the other trials related to members of the former Government.
"Risks having profound implications for the EU-Ukraine bilateral relationship, including for the conclusion of the Association Agreement, our political dialogue and our co-operation more broadly," Ashton said.
"The EU will reflect on its policies towards Ukraine," she added.
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