Commerce Secretary Rita Teaotia held the discussions through DVC (desktop video conferencing), the ministry said in a statement.
"This is a part of a new initiative of interaction that has been taken recently and this is the second such interaction after the ASEAN region," it said.
The deliberations took place on a range of trade issues, including matters pertaining to institutional mechanisms, market access issues and free trade agreements, it added.
India and the European Union is negotiating a comprehensive free trade pact since June 2007.
The two-way commerce in goods between India and the EU stood at USD 98.5 billion in 2014-15.