Polygenic risk alters the penetrance of monogenic kidney disease

Atlas Khan, Ning Shang, Jordan G. Nestor, Chunhua Weng, George Hripcsak, Peter C. Harris, Ali G. Gharavi and Krzysztof Kiryluk ()
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Atlas Khan: Columbia University
Ning Shang: Columbia University
Jordan G. Nestor: Columbia University
Chunhua Weng: Columbia University
George Hripcsak: Columbia University
Peter C. Harris: Mayo Clinic
Ali G. Gharavi: Columbia University
Krzysztof Kiryluk: Columbia University

Nature Communications, 2023, vol. 14, issue 1, 1-10

Abstract: Abstract Chronic kidney disease (CKD) is determined by an interplay of monogenic, polygenic, and environmental risks. Autosomal dominant polycystic kidney disease (ADPKD) and COL4A-associated nephropathy (COL4A-AN) represent the most common forms of monogenic kidney diseases. These disorders have incomplete penetrance and variable expressivity, and we hypothesize that polygenic factors explain some of this variability. By combining SNP array, exome/genome sequence, and electronic health record data from the UK Biobank and All-of-Us cohorts, we demonstrate that the genome-wide polygenic score (GPS) significantly predicts CKD among ADPKD monogenic variant carriers. Compared to the middle tertile of the GPS for noncarriers, ADPKD variant carriers in the top tertile have a 54-fold increased risk of CKD, while ADPKD variant carriers in the bottom tertile have only a 3-fold increased risk of CKD. Similarly, the GPS significantly predicts CKD in COL4A-AN carriers. The carriers in the top tertile of the GPS have a 2.5-fold higher risk of CKD, while the risk for carriers in the bottom tertile is not different from the average population risk. These results suggest that accounting for polygenic risk improves risk stratification in monogenic kidney disease.

Date: 2023
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DOI: 10.1038/s41467-023-43878-9

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