Lowe is currently on England Under 21 duty at the European Championship in Israel.
"It has been difficult at times, no doubt about it, chopping and changing the managers - but that happens in football and you have to deal with it. My job is to play to my best ability," Lowe told Sky Sports News.
Lowe is pleased to see Bowyer installed as manager on a permanent basis after two stints in caretaker charge.
"I have worked with him through youth levels, and I think he will do a great job," he continued.
"From a player's point of view when you have different managers, and different ideas are put forward, it is a bit unsettling but that is football and you have to deal with it."