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However, exactly when, how often and where this critical and mysterious juncture in human history took place has been hard to pin down. Scientists have believed interspecies relations would have occurred somewhere in the Middle East as a wave of Homo sapiens left Africa and bumped into Neanderthals, who had lived across Eurasia for 250,000 years.

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“We were far more similar than we were different,” Priya Moorjani, a senior author of the Science study and an assistant professor in the department of molecular and cell biology at the University of California, Berkeley, said at a news briefing.

“The differences that we imagined between these groups to be very big, actually, were very small, genetically speaking. They seem to have mixed with each other for a long period of time and were living side by side for a long period of time.”

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“Genetic data from this crucial period in our evolution are very rare,” said Capra, who wasn’t involved in the research, via email. “These studies underscore how having even a few ancient genomes provides powerful perspective that enabled the authors to refine our understanding of human migration and Neanderthal introgression.”

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“It suggests that hybrid individuals who had Neanderthal DNA in these regions were substantially less fit, likely to due to severe disease, lethality, or infertility,” Capra said via email.

In particular, the X chromosome was a desert. Capra said the effects of Neanderthal variants that cause disease could be greater on the X chromosome, perhaps because it is present in two copies in females, but only present in one copy in males.

“The X chromosome also has many genes that are linked to male fertility when modified, so it has been proposed that some of this effect could have come from introgression leading to male hybrid sterility,” he said.

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“Neanderthals were living outside Africa in harsh, ice age climates and were adapted to the climate and to the pathogens in these environments. When modern humans left Africa and interbred with Neanderthals, some individuals inherited Neanderthal genes that presumably allowed them to adapt and thrive better in the environment,” said Leonardo Iasi, co-lead author of the Science paper and a doctoral student at the Max Planck Institute for Evolutionary Anthropology in Leipzig, Germany.

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However, there is still much scientists don’t know. It’s not clear why people in East Asia today have more Neanderthal ancestry than Europeans, or why Neanderthal genomes from this period show little evidence of Homo sapiens DNA.

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“It’s kind of interesting to see that human story is not always a story of success,” said Krause, a senior author of the Nature study.

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