SOS2 and ACP1 Loci Identified through Large-Scale Exome Chip Analysis Regulate Kidney Development and Function.

Journal Article (Journal Article)

Genome-wide association studies have identified >50 common variants associated with kidney function, but these variants do not fully explain the variation in eGFR. We performed a two-stage meta-analysis of associations between genotypes from the Illumina exome array and eGFR on the basis of serum creatinine (eGFRcrea) among participants of European ancestry from the CKDGen Consortium (nStage1: 111,666; nStage2: 48,343). In single-variant analyses, we identified single nucleotide polymorphisms at seven new loci associated with eGFRcrea (PPM1J, EDEM3, ACP1, SPEG, EYA4, CYP1A1, and ATXN2L; PStage1<3.7×10-7), of which most were common and annotated as nonsynonymous variants. Gene-based analysis identified associations of functional rare variants in three genes with eGFRcrea, including a novel association with the SOS Ras/Rho guanine nucleotide exchange factor 2 gene, SOS2 (P=5.4×10-8 by sequence kernel association test). Experimental follow-up in zebrafish embryos revealed changes in glomerular gene expression and renal tubule morphology in the embryonic kidney of acp1- and sos2-knockdowns. These developmental abnormalities associated with altered blood clearance rate and heightened prevalence of edema. This study expands the number of loci associated with kidney function and identifies novel genes with potential roles in kidney formation.

Full Text

Duke Authors

Cited Authors

  • Li, M; Li, Y; Weeks, O; Mijatovic, V; Teumer, A; Huffman, JE; Tromp, G; Fuchsberger, C; Gorski, M; Lyytikäinen, L-P; Nutile, T; Sedaghat, S; Sorice, R; Tin, A; Yang, Q; Ahluwalia, TS; Arking, DE; Bihlmeyer, NA; Böger, CA; Carroll, RJ; Chasman, DI; Cornelis, MC; Dehghan, A; Faul, JD; Feitosa, MF; Gambaro, G; Gasparini, P; Giulianini, F; Heid, I; Huang, J; Imboden, M; Jackson, AU; Jeff, J; Jhun, MA; Katz, R; Kifley, A; Kilpeläinen, TO; Kumar, A; Laakso, M; Li-Gao, R; Lohman, K; Lu, Y; Mägi, R; Malerba, G; Mihailov, E; Mohlke, KL; Mook-Kanamori, DO; Robino, A; Ruderfer, D; Salvi, E; Schick, UM; Schulz, C-A; Smith, AV; Smith, JA; Traglia, M; Yerges-Armstrong, LM; Zhao, W; Goodarzi, MO; Kraja, AT; Liu, C; Wessel, J; CHARGE Glycemic-T2D Working Group,, ; CHARGE Blood Pressure Working Group,, ; Boerwinkle, E; Borecki, IB; Bork-Jensen, J; Bottinger, EP; Braga, D; Brandslund, I; Brody, JA; Campbell, A; Carey, DJ; Christensen, C; Coresh, J; Crook, E; Curhan, GC; Cusi, D; de Boer, IH; de Vries, APJ; Denny, JC; Devuyst, O; Dreisbach, AW; Endlich, K; Esko, T; Franco, OH; Fulop, T; Gerhard, GS; Glümer, C; Gottesman, O; Grarup, N; Gudnason, V; Hansen, T; Harris, TB; Hayward, C; Hocking, L; Hofman, A; Hu, FB; Husemoen, LLN; Jackson, RD; Jørgensen, T; Jørgensen, ME; Kähönen, M; Kardia, SLR; König, W; Kooperberg, C; Kriebel, J; Launer, LJ; Lauritzen, T; Lehtimäki, T; Levy, D; Linksted, P; Linneberg, A; Liu, Y; Loos, RJF; Lupo, A; Meisinger, C; Melander, O; Metspalu, A; Mitchell, P; Nauck, M; Nürnberg, P; Orho-Melander, M; Parsa, A; Pedersen, O; Peters, A; Peters, U; Polasek, O; Porteous, D; Probst-Hensch, NM; Psaty, BM; Qi, L; Raitakari, OT; Reiner, AP; Rettig, R; Ridker, PM; Rivadeneira, F; Rossouw, JE; Schmidt, F; Siscovick, D; Soranzo, N; Strauch, K; Toniolo, D; Turner, ST; Uitterlinden, AG; Ulivi, S; Velayutham, D; Völker, U; Völzke, H; Waldenberger, M; Wang, JJ; Weir, DR; Witte, D; Kuivaniemi, H; Fox, CS; Franceschini, N; Goessling, W; Köttgen, A; Chu, AY

Published Date

  • March 2017

Published In

Volume / Issue

  • 28 / 3

Start / End Page

  • 981 - 994

PubMed ID

  • 27920155

Pubmed Central ID

  • PMC5328154

Electronic International Standard Serial Number (EISSN)

  • 1533-3450

Digital Object Identifier (DOI)

  • 10.1681/ASN.2016020131


  • eng

Conference Location

  • United States