Abstract
BackgroundThe Sorbs are an ethnic minority in Germany with putative genetic isolation, making the population interesting for disease mapping. A sample of N = 977 Sorbs is currently analysed in several genome-wide meta-analyses. Since genetic differences between populations are a major confounding factor in genetic meta-analyses, we compare the Sorbs with the German outbred population of the KORA F3 study (N = 1644) and other publically available European HapMap populations by population genetic means. We also aim to separate effects of over-sampling of families in the Sorbs sample from effects of genetic isolation and compare the power of genetic association studies between the samples.ResultsThe degree of relatedness was significantly higher in the Sorbs. Principal components analysis revealed a west to east clustering of KORA individuals born in Germany, KORA individuals born in Poland or Czech Republic, Half-Sorbs (less than four Sorbian grandparents) and Full-Sorbs. The Sorbs cluster is nearest to the cluster of KORA individuals born in Poland. The number of rare SNPs is significantly higher in the Sorbs sample. FST between KORA and Sorbs is an order of magnitude higher than between different regions in Germany. Compared to the other populations, Sorbs show a higher proportion of individuals with runs of homozygosity between 2.5 Mb and 5 Mb. Linkage disequilibrium (LD) at longer range is also slightly increased but this has no effect on the power of association studies.Oversampling of families in the Sorbs sample causes detectable bias regarding higher FST values and higher LD but the effect is an order of magnitude smaller than the observed differences between KORA and Sorbs. Relatedness in the Sorbs also influenced the power of uncorrected association analyses.ConclusionsSorbs show signs of genetic isolation which cannot be explained by over-sampling of relatives, but the effects are moderate in size. The Slavonic origin of the Sorbs is still genetically detectable.Regarding LD structure, a clear advantage for genome-wide association studies cannot be deduced. The significant amount of cryptic relatedness in the Sorbs sample results in inflated variances of Beta-estimators which should be considered in genetic association analyses.
Highlights
The Sorbs are an ethnic minority in Germany with putative genetic isolation, making the population interesting for disease mapping
For population genetic comparison of the Sorbian minority in Germany with the German KORA population, several measures of genetic isolation were applied to genome-wide SNP array data
There is a clear trend of west to east clustering of KORA individuals born in Germany, KORA individuals born in Poland or Czech Republic, Half-Sorbs, and Full-Sorbs
Summary
The Sorbs are an ethnic minority in Germany with putative genetic isolation, making the population interesting for disease mapping. Spurious associations caused by the genetic sub-structures of combined populations are the most serious concern of this approach [12,13,14,15], implying the need for appropriate adjustment strategies [16,17] This is especially true if evidence from isolated and outbred populations is combined as this approach necessitates a thorough comparison of populations by population genetic means in order to determine their “degree of isolation” [6]. For this purpose, different methods have been proposed in the literature. There appears to be no single measure sufficient to characterize the isolation of a population
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