A recent bottleneck of Y chromosome diversity coincides with a global change in culture.
Karmin M., Saag L., Vicente M., Wilson Sayres MA., Järve M., Talas UG., Rootsi S., Ilumäe A-M., Mägi R., Mitt M., Pagani L., Puurand T., Faltyskova Z., Clemente F., Cardona A., Metspalu E., Sahakyan H., Yunusbayev B., Hudjashov G., DeGiorgio M., Loogväli E-L., Eichstaedt C., Eelmets M., Chaubey G., Tambets K., Litvinov S., Mormina M., Xue Y., Ayub Q., Zoraqi G., Korneliussen TS., Akhatova F., Lachance J., Tishkoff S., Momynaliev K., Ricaut F-X., Kusuma P., Razafindrazaka H., Pierron D., Cox MP., Sultana GNN., Willerslev R., Muller C., Westaway M., Lambert D., Skaro V., Kovačevic L., Turdikulova S., Dalimova D., Khusainova R., Trofimova N., Akhmetova V., Khidiyatova I., Lichman DV., Isakova J., Pocheshkhova E., Sabitov Z., Barashkov NA., Nymadawa P., Mihailov E., Seng JWT., Evseeva I., Migliano AB., Abdullah S., Andriadze G., Primorac D., Atramentova L., Utevska O., Yepiskoposyan L., Marjanovic D., Kushniarevich A., Behar DM., Gilissen C., Vissers L., Veltman JA., Balanovska E., Derenko M., Malyarchuk B., Metspalu A., Fedorova S., Eriksson A., Manica A., Mendez FL., Karafet TM., Veeramah KR., Bradman N., Hammer MF., Osipova LP., Balanovsky O., Khusnutdinova EK., Johnsen K., Remm M., Thomas MG., Tyler-Smith C., Underhill PA., Willerslev E., Nielsen R., Metspalu M., Villems R., Kivisild T.
It is commonly thought that human genetic diversity in non-African populations was shaped primarily by an out-of-Africa dispersal 50-100 thousand yr ago (kya). Here, we present a study of 456 geographically diverse high-coverage Y chromosome sequences, including 299 newly reported samples. Applying ancient DNA calibration, we date the Y-chromosomal most recent common ancestor (MRCA) in Africa at 254 (95% CI 192-307) kya and detect a cluster of major non-African founder haplogroups in a narrow time interval at 47-52 kya, consistent with a rapid initial colonization model of Eurasia and Oceania after the out-of-Africa bottleneck. In contrast to demographic reconstructions based on mtDNA, we infer a second strong bottleneck in Y-chromosome lineages dating to the last 10 ky. We hypothesize that this bottleneck is caused by cultural changes affecting variance of reproductive success among males.