The Homo sapiens genome today contains a little bit of Neanderthal DNA. These genetic traces come from almost every part of the Neanderthal genome – except the Y sex chromosome, which is responsible for making males.
So what happened to the Neanderthal Y chromosome?
The genomes of all human lineages originating in Europe contain about 2% Neanderthal DNA sequences. Lineages from Asia and India contain even more, while lineages restricted to Africa have none. Some ancient Homo sapiens genomes contained even more – 6% or so – so it looks like the Neanderthal genes are gradually fading out.
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We murdered all the Ys and reproduced with the Xs
