Nauen joined Senvion (then known as Repower) in 2010 from German rival Siemens where he was head of the wind power division.
His decision to leave Senvion was by mutual consent, as part growth plans by the new owner, US private equity firm Centerbridge Partners.
The appointment of a new CEO was always planned by Centerbridge since the takeover in January 2015, Senvion told Windpower Monthly. Nauen will, however, remain on the company's advisory board.
Senvion's chairman of the supervisory board Stefan E Kowski said: "We thank Andreas Nauen for all his efforts at Senvion, leading the business through a period of change and transition. We are also grateful that Andreas will stay involved on our advisory board and that the company will continue to benefit from his experience and know-how."
According to Sevnion, as part of the growth plans, Centerbridge is looking at options which could include "capital market transactions for Senvion" over the coming years. This could mean an IPO.
In his five years at Senvion, Nauen oversaw the growth of the company's offshore business, with the development of the 6MW turbine. Senvion remains the only stand-alone pure-player in the offshore sector.
Senvion also launched a low-wind 3.4MW turbine with 140-metre rotor at the Husum Wind 2015 event in September. The company said its new owners helped to accelerate the launch of the turbine.
Senvion's revenue for the 2014-2015 financial year increased 6.6% to €1.93 billion.
Nauen also featured in Windpower Monthly's Top 30 People for first time in his own right in 2015 following the sale to Centrebridge.
Former Schaeffler Technologies CEO Jurgen Geissinger has replaced Nauen.
Geissinger earned a PhD at the Fraunhofer Institute of Production Technology and Automation, according to Senvion. He led Schaeffler between 1998 and 2013, where he help to boost profits from €2 billion to €12 billion.
Kowski added: "We are delighted to welcome Jurgen Geissinger to Senvion as CEO. He has the proven capabilities required to drive exceptional business growth by creating strategic clarity, driving innovation and quality, while ensuring disciplined execution globally.
"We believe that his experience combined with his passion for technology will help ensure that Senvion continues to be an innovation leader and will expand its presence in our existing and several new markets".