A meta-analysis of ancient and present-day Central Eurasian genome data to revise archaic hominin ancestry

Archaic introgression has shaped the evolutionary history of Eurasian populations, yet Central Eurasian region remains understudied despite being at the crossroads of ancient human migration. Here, we analyzed the whole-genome data of five Central Eurasian (CE) individuals from Early Bronze Age (EBA) and five present-day CE individuals to characterize the archaic introgression landscape. We estimated that archaic introgression from Neanderthal and Denisovan archaic hominins comprises approximately 2.2% of the Central Eurasian genomes. Both amount and chromosomal distribution of archaic introgression remained largely unchanged between the EBA and present-day CE individuals. Putative introgressed fragments matching the Altai Neanderthal and the Altai Denisovan were retrieved. Our results suggest that while the archaic introgression levels seemingly remained stable over the past several thousand years, larger modern CE genomes panels will be required to fully characterize the genomic landscape of archaic ancestry in the region.