Single nucleotide polymorphisms linked to Alzheimer’s disease are associated with distinct neuropathological phenotypes

Abstract

AbstractBackgroundNeurodegenerative brain diseases (NBDs) ultimately result in neuronal loss and subsequent cognitive decline. In Alzheimer’s disease, tau neurofibrillary tangles (NFT) and amyloid plaques are considered as the hallmark lesions, but there are a number of other distinct features that are not exclusive to AD and do occur to a certain extent in other NBDs.MethodWe extracted DNA from a cohort of 382 post‐mortem brains of NBD patients and controls with detailed neuropathological characterization. Genotyping of 85 genetic loci, previously found to be associated with AD, is ongoing using an in‐house developed oxford nanopore technologies (ONT) multiplex assay, allowing simultaneous sequencing of all variants on an ONT Flongle platform. Base‐ calling, alignment to Hg38 and variant calling were performed followed by QC on the data and regression analysis.ResultAssociation testing has currently been performed for 59 of the total 85 SNPs in the assay using either linear or logistic regression. This revealed significant association for an AD risk variant in the SIGLEC11 locus and Braak NFT staging (p = 0.003) and NIA_AA score (p = 0.002). Significance was also found for a risk variant in the EPHA1 locus and Hirano body score (p = 0.008). Furthermore, we found numerous nominally significant associations between risk loci and TDP43 LATE, granulovacuolar degeneration, phases of amyloid plaque distribution and CAA severity.ConclusionThese results possibly highlight biological pathways involved in generating these additional features. Our ongoing work is currently focusing on increasing our sample size to further validate the associations we discovered and optimizing our ONT assay.