Dissecting the genetic make-up of North-East Sardinia using a large set of haploid and autosomal markers

Luba M. Pardo, Giovanna Piras, Rosanna Asproni, Kristiaan J. Van Der Gaag, Attilio Gabbas, Andres Ruiz-Linares, Peter De Knijff, Maria Monne, Patrizia Rizzu, Peter Heutink*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

12 Citations (Scopus)

Abstract

Sardinia has been used for genetic studies because of its historical isolation, genetic homogeneity and increased prevalence of certain rare diseases. Controversy remains concerning the genetic substructure and the extent of genetic homogeneity, which has implications for the design of genome-wide association studies (GWAS). We revisited this issue by examining the genetic make-up of a sample from North-East Sardinia using a dense set of autosomal, Y chromosome and mitochondrial markers to assess the potential of the sample for GWAS and fine mapping studies. We genotyped individuals for 500K single-nucleotide polymorphisms, Y chromosome markers and sequenced the mitochondrial hypervariable (HVI-HVII) regions. We identified major haplogroups and compared these with other populations. We estimated linkage disequilibrium (LD) and haplotype diversity across autosomal markers, and compared these with other populations. Our results show that within Sardinia there is no major population substructure and thus it can be considered a genetically homogenous population. We did not find substantial differences in the extent of LD in Sardinians compared with other populations. However, we showed that at least 9% of genomic regions in Sardinians differed in LD structure, which is helpful for identifying functional variants using fine mapping. We concluded that Sardinia is a powerful setting for genetic studies including GWAS and other mapping approaches.

Original languageEnglish
Pages (from-to)956-964
Number of pages9
JournalEuropean Journal of Human Genetics
Volume20
Issue number9
DOIs
Publication statusPublished - Sept 2012
Externally publishedYes

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