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Modern humans evolved a ‘selfish’ X chromosome after Africa exodus

The chromosome may contain regions that promote their DNA's spread by killing sperm that carry Y chromosomes. However, Y chromosomes may have evolved counter mechanisms over time
Modern humans that had not long left Africa may have evolved an X chromosome that carried "selfish" DNA
Some modern humans that had not long left Africa may have evolved an X chromosome that carried ā€œselfishā€ DNA
SCIEPRO/SCIENCE PHOTO LIBRARY

Around 50,000 years ago, a new X chromosome appears to have been introduced into modern humans that had not long left Africa.

There was probably exceptionally strong selection forĀ parts of this chromosome because, today, most people ofĀ less-recent African ancestry have inherited those regions.

at Aarhus University in Denmark, who led the research, thinks theseĀ regions may contain bits ofĀ so-called selfish DNA that promote their own spread byĀ killing sperm that carry YĀ chromosomes. Such sperm leadĀ to male offspring if they fertilise an egg. The selfish DNA may therefore result in the birth ofĀ more daughters. Exactly when this ā€œkillingā€ occurs is unclear.

All this would lead to a higher proportion of people inheriting the X chromosome that carries theĀ selfish DNA, causing it to spread rapidly in a population, inĀ an example of meiotic drive, aĀ kind of gene drive.

ā€œFor some reason, there’s aĀ reluctance to entertain the thought that meiotic drive is a thing in humans,ā€ says Terkelsen. Yet meiotic drives are being found in all the organisms we study closely, he says.

Terkelsen and his colleagues analysed X chromosomes from male humans in a database of genomes from around the world.

They found that people with long-standing African ancestry have an even diversity across their XĀ chromosomes, meaning their DNA is a mix of genetic material from many different ancestors.

But in people without recent African ancestry, there are regions that are tens of thousands of DNA letters long with hardly any diversity. This suggests that each region derives from a single ancestor. Five of the regions were found in more than 75 per cent of people without recent African ancestry.

ā€œThe X chromosome is crazily enriched in these low-diversity regions,ā€ says Terkelsen.

These X chromosome regions are also present in the genome ofĀ the Ust’-Ishim man, a modern human who lived in what is now Siberia around 45,000 years ago.

The team also found that theĀ regions displaced bits of Neanderthal DNA that entered theĀ population to which the Ust’‑Ishim man belonged around 10,000 years before his birth. ThisĀ means these regions spread 55,000 to 45,000 years ago.

Terkelsen thinks the source of the regions was an X chromosome that arose in an east Asian population. This group may have then bred with the Ust’-Ishim man’s ancestors around this time.

The reason why the regions spread so rapidly could be to do with a lack of defence mechanisms on the Y chromosomes of the Ust’‑Ishim people, says Terkelsen. Meiotic drives result in an evolutionary battle between theĀ sexes or, more specifically, theĀ sex chromosomes.

The cells that give rise to sperm divide by a process called meiosis, which should result in half the sperm carrying an X chromosome and half a Y chromosome. But genetic variants can skew this andĀ result in a greater or smaller number of boys or girls being born. In other words, a meiotic drive comes about because X or YĀ chromosomes selfishly favour their own survival, even if those variants are detrimental to the population as whole.

X and Y chromosomes can evolve mechanisms to counter theĀ effects of meiotic drives on rival chromosomes, resulting in aĀ more even balance of sons and daughters being born over time, which may be the case now amongĀ modern humans. But when a chromosome with a strongĀ meiotic drive enters a newĀ population with no counter mechanisms, that chromosome can rapidly spread.

This is just speculation, however, as Terkelsen makes clear.Ā ā€œThis paper does not show anything other than a striking, puzzling observation,ā€ he says.

ā€œ[Meoitic] drive seems like quiteĀ a reasonable hypothesis,ā€ says at the Stowers Institute for Medical Research in Missouri. ā€œDrive does lead to these type of sweep signatures.ā€

Several mechanisms that can lead to meiotic drive in humans have already been identified, says Zanders, at least one of which is linked to male infertility.

Future studies should look atĀ whether the X chromosome regions the team identified are linked with male infertility, says Terkelsen, which would provide more evidence that these regions harbour a meiotic drive.

bioRxiv

Topics: Genetics / humans