The decision, touching on the biggest controversy in scientific publishing in a decade, was taken after mistakes were discovered in some data published in two papers, photograph captions were found to be misleading, and the work itself could not be repeated by other scientists, it said.
"All co-authors of both papers have finally concluded that they cannot stand behind the papers, and have decided to retract them," the journal said in an editorial.
On June 4, Japan's Riken research institute said lead scientist Haruko Obokata, 30, had agreed to retract the papers after an investigation.
Riken was "still discussing" a retraction with co-author Charles Vacanti of Harvard University, a Riken spokeswoman said at the time.
Obokata was feted after unveiling findings that appeared to show a straight-forward way to reprogramme adult cells to become stem cells - precursors that are capable of developing into any other cell in the human body.
The researchers claimed to have created so-called Stimulus-Triggered Acquisition of Pluripotency (STAP) stem cells.
They said white blood cells in newborn mice were returned to a versatile state by incubating them in a solution with high acidity for 25 minutes, followed by a five-minute spin in a centrifuge and a seven-day spell of immersion in a growth culture.
Until then, mammal cells had never been successfully reprogrammed to a youthful state through simple physical manipulation instead of genetic intervention.
In the scientific world, claims gain credibility when they are published in a peer-reviewed journal, where a panel of independent experts vets the submitted paper for inaccuracies or inconsistencies.
The British-based Nature and US-published Science journals are widely considered to be the gold standard for the peer-reviewed publishing process.
Publication in these journals is an enormous boost for scientists and the institutes that back them.
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