Development of a single base extension method to resolve Y chromosome haplogroups in sub-Saharan African populations
the assays were used to screen 683 individuals from Southern Africa, including south eastern Bantu speakers (BAN), Khoe-San (KS) and South African Whites (SAW). Of the 61 haplogroups that the assays collectively resolved, 26 were found in the 683 samples. While haplogroup sharing was common between the BAN and KS, the frequencies of these haplogroups varied appreciably. Both groups showed low levels of assimilation of Eurasian haplogroups and only two individuals in the SAW clearly had Y chromosomes of African ancestry.
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There were 157 whites in the sample, so 1.3 percent of them had African Y chromosomes. However, black ancestry in South African whites must be predominantly female, so the average amount of non-white ancestry is probably higher than 1.3 percent in SA whites.
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