In a TV programme, the pioneer in DNA studies made a reference to a view that genes cause a difference on average between blacks and whites on IQ tests.
Cold Spring Harbor Laboratory said the 90-year-old scientist's remarks were "unsubstantiated and reckless".
Dr Watson had made similar claims in 2007 and subsequently apologised.
He shared the Nobel in 1962 with Maurice Wilkins and Francis Crick for their 1953 discovery of the DNA's double helix structure.
Dr Watson sold his gold medal in 2014, saying he had been ostracised by the scientific community after his remarks about race.
He is currently in a nursing home recovering from a car accident and is said to have "very minimal" awareness of his surroundings.