1. Multiple signals at the extended 8p23 locus are associated with susceptibility to systemic lupus erythematosus
- Author
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M. Ilyas Kamboh, David L. Morris, F. Yesim Demirci, Eleanor Feingold, Sasha Bernatsky, Xingbin Wang, Ann E. Clarke, Rosalind Ramsey-Goldman, Christian A. Pineau, Susan Manzi, and Timothy J. Vyse
- Subjects
Male ,0301 basic medicine ,Genotype ,Single-nucleotide polymorphism ,Locus (genetics) ,Genome-wide association study ,Biology ,Polymorphism, Single Nucleotide ,White People ,Article ,03 medical and health sciences ,Genetics ,medicine ,Humans ,Lupus Erythematosus, Systemic ,Genetic Predisposition to Disease ,Allele ,Gene ,Alleles ,Genetics (clinical) ,Systemic lupus erythematosus ,Case-control study ,Middle Aged ,medicine.disease ,030104 developmental biology ,Case-Control Studies ,Female ,Chromosomes, Human, Pair 8 ,Genome-Wide Association Study - Abstract
BackgroundA major systemic lupus erythematosus (SLE) susceptibility locus lies within a common inversion polymorphism region (encompassing 3.8 – 4.5 Mb) located at 8p23. Initially implicated genes includedFAM167A-BLKandXKR6, of whichBLKreceived major attention due to its known role in B-cell biology. Recently, additional SLE risk carried in non-inverted background was also reported.Objective and methodsIn this case –control study, we further investigated the ‘extended’ 8p23 locus (~ 4 Mb) where we observed multiple SLE signals and assessed these signals for their relation to the inversion affecting this region. The study involved a North American discovery data set (~1200 subjects) and a replication data set (> 10 000 subjects) comprising European-descent individuals.ResultsMeta-analysis of 8p23 SNPs, with p < 0.05 in both data sets, identified 51 genome-wide significant SNPs (p < 5.0 × 10−8). While most of these SNPs were related to previously implicated signals (XKR6-FAM167A-BLKsubregion), our results also revealed two ‘new’ SLE signals, includingSGK223-CLDN23-MFHAS1(6.06 × 10−9≤ meta p ≤ 4.88 × 10−8) andCTSB(meta p = 4.87 × 10−8) subregions that are located > 2 Mb upstream and ~ 0.3 Mb downstream from previously reported signals. Functional assessment of relevant SNPs indicated putativecis-effects on the expression of various genes at 8p23. Additional analyses in discovery sample, where the inversion genotypes were inferred, replicated the association of non-inverted status with SLE risk and suggested that a number of SLE risk alleles are predominantly carried in non-inverted background.ConclusionsOur results implicate multiple (known+novel) SLE signals/genes at the extended 8p23 locus, beyond previously reported signals/genes, and suggest that this broad locus contributes to SLE risk through the effects of multiple genes/pathways.
- Published
- 2017