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New genetic loci associated with chronic kidney disease in an Indigenous Australian population


Thomson, RJ and McMorran, B and Hoy, W and Jose, M and Whittock, L and Thornton, T and Burgio, G and Mathews, JD and Foote, S, New genetic loci associated with chronic kidney disease in an Indigenous Australian population, Frontiers in Genetics, 10 Article 330. ISSN 1664-8021 (2019) [Refereed Article]


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Copyright 2019 the authors. Licensed under Creative Commons Attribution 4.0 International (CC BY 4.0)

DOI: doi:10.3389/fgene.2019.00330


The common occurrence of renal disease in Australian Aboriginal populations such as Tiwi Islanders may be determined by environmental and genetic factors. To explore genetic contributions, we performed a genome-wide association study (GWAS) of urinary albumin creatinine ratio (ACR) in a sample of 249 Tiwi individuals with genotype data from a 370K Affymetrix single nucleotide polymorphism (SNP) array. A principal component analysis (PCA) of the 249 individual Tiwi cohort and samples from 11 populations included in phase III of the HapMap Project indicated that Tiwi Islanders are a relatively distinct and unique population with no close genetic relationships to the other ethnic groups. After adjusting for age and sex, the proportion of ACR variance explained by the 370K SNPs was estimated to be 37% (using the software GCTA.31; likelihood ratio = 8.06, p-value = 0.002). The GWAS identified eight SNPs that were nominally significantly associated with ACR (p < 0.0005). A replication study of these SNPs was performed in an independent cohort of 497 individuals on the eight SNPs. Four of these SNPs were significantly associated with ACR in the replication sample (p < 0.05), rs4016189 located near the CRIM1 gene (p = 0.000751), rs443816 located in the gene encoding UGT2B11 (p = 0.022), rs6461901 located near the NFE2L3 gene, and rs1535656 located in the RAB14 gene. The SNP rs4016189 was still significant after adjusting for multiple testing. A structural equation model (SEM) demonstrated that the rs4016189 SNP was not associated with other phenotypes such as estimated glomerular filtration rate (eGFR), diabetes, and blood pressure.

Item Details

Item Type:Refereed Article
Keywords:chronic kidney disease, genome-wide association study, Australian Aboriginal and Torres Strait Islanders, indigenous genetics, gene–environment interaction, urinary albumin creatinine ratio
Research Division:Biomedical and Clinical Sciences
Research Group:Clinical sciences
Research Field:Nephrology and urology
Objective Division:Indigenous
Objective Group:Aboriginal and Torres Strait Islander health
Objective Field:Aboriginal and Torres Strait Islander determinants of health
UTAS Author:Jose, M (Professor Matthew Jose)
UTAS Author:Whittock, L (Dr Lucy Whittock)
ID Code:131997
Year Published:2019
Funding Support:National Health and Medical Research Council (1024207)
Web of Science® Times Cited:12
Deposited By:Medicine
Deposited On:2019-04-16
Last Modified:2022-10-14
Downloads:67 View Download Statistics

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