Telegram, famous messaging app, complaint to EU competition chief Margrethe Vestager, said Apple must "allow users to have the opportunity of downloading software outside of the App Store."
Also Spotify and Rakuten have previously complained to the EU that the Apple's app store represents a monopoly power, , as long as developers need to accept Apple's terms, including a 30 per cent commission on in-app purchases, so as to reach the hundreds of millions of people who use iPhones.
Apple's App Store fees across the world are estimated to generate more than $1 billion for the company each month.
In its complaint, Telegram took issue with Apple's argument that the App Store commission keeps it running.
Telegram, which was co-founded by Russian Entrepreneur Pavel Durov and his brother in 2013, accused Apple of halting innovation.
Telegram said that in 2016 Apple restricted their app from launching a gaming platform as it went against App Store rules. Telegram also alleged that this is an example of Apple's capacity to curb innovation thanks to its "monopolistic power" on the app market.
"For that very reason Apple is able to charge a huge 30 per cent commission on turnover of any digital service provided by the applications on the App Store, including but not limited to the sales of the apps themselves or any fees for premium services on those apps," the complaint added.
Apple has repeatedly denied allegations of anti-competitive behavior. In a statement before a congressional hearing, Apple chief executive Tim Cook accepted scrutiny of the App Store to be "reasonable and appropriate" but defended his company's business practices. He said Apple believed "competition may be great virtue (which) promotes innovation."
Telegram, which has been used by notably in Hong Kong, has previously accused Apple of blocking updates as it faced mounting pressure in Russia. A two-year ban within the country for Telegram has recently been lifted.
The other open probe within the EU against Apple concerns Apple Pay. The investigations are likely to run for several months or maybe years.