James Anderson, Jonathan Trott and Graeme Swann have returned to the 14-man one-day squad while Stuart Broad is back from a heel injury to captain the 14-man T20 squad.
National selector Geoff Miller said: “There are a number of players who we have decided not to select for parts of the competitive programme this winter as we look to manage their workloads effectively while ensuring we remain competitive across all formats.
“We feel this is the best way of keeping players as physically and mentally fresh as possible during a demanding 2013 and beyond.
“Kevin Pietersen will miss the limited overs tour of New Zealand with Graeme Swann missing the T20 leg of the tour. This approach also provides an opportunity for talented young players to gain more international experience which will be important for their development and the development of England sides in the future,” he said.
England’s three-match ODI series begins on February 17 in Hamilton. The England and Wales Cricket Board also announced a 15-man England Lions squad for the limited overs tour of Australia in February, which will be captained by Joe Root.