Abstract
Rheumatoid arthritis (RA) is a highly heritable complex disease with unknown etiology. Multi-ancestry genetic research of RA promises to improve power to detect genetic signals, fine-mapping resolution and performances of polygenic risk scores (PRS). Here, we present a large-scale genome-wide association study (GWAS) of RA, which includes 276,020 samples from five ancestral groups. We conducted a multi-ancestry meta-analysis and identified 124 loci (P < 5 × 10 −8), of which 34 are novel. Candidate genes at the novel loci suggest essential roles of the immune system (for example, TNIP2 and TNFRSF11A) and joint tissues (for example, WISP1) in RA etiology. Multi-ancestry fine-mapping identified putatively causal variants with biological insights (for example, LEF1). Moreover, PRS based on multi-ancestry GWAS outperformed PRS based on single-ancestry GWAS and had comparable performance between populations of European and East Asian ancestries. Our study provides several insights into the etiology of RA and improves the genetic predictability of RA.
| Original language | English |
|---|---|
| Pages (from-to) | 1640-1651 |
| Number of pages | 12 |
| Journal | Nature Genetics |
| Volume | 54 |
| Issue number | 11 |
| DOIs | |
| Publication status | Published - 4 Nov 2022 |
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Multi-ancestry genome-wide association analyses identify novel genetic mechanisms in rheumatoid arthritis. / Ishigaki, Kazuyoshi; Sakaue, Saori; Terao, Chikashi; Luo, Yang; Sonehara, Kyuto; Yamaguchi, Kensuke; Amariuta, Tiffany; Too, Chun Lai; Laufer, Vincent A.; Scott, Ian; Viatte, Sebastien; Takahashi, Meiko; Ohmura, Koichiro; Murasawa, Akira; Hashimoto, Motomu; Ito, Hiromu; Hammoudeh, Mohammed; Al Emadi, Samar; Masri, Basel K.; Halabi, Hussein; Badsha, Humeira; Uthman, Imad W.; Wu, Xin; Lin, Li; Li, Ting; Plant, Darren; Barton, Anne; Orozco, Gisela; Verstappen, Suzanne M. M.; Bowes, John; MacGregor, Alexander J.; Honda, Suguru; Koido, Masaru; Tomizuka, Kohei; Kamatani, Yoichiro; Tanaka, Hiroaki; Tanaka, Eiichi; Suzuki, Akari; Maeda, Yuichi; Yamamoto, Kenichi; Miyawaki, Satoru; Xie, Gang; Zhang, Jinyi; Amos, Christopher; Keystone, Edward; Wolbink, Gertjan; Horst-Bruinsma, Irene van der; Cui, Jing; Liao, Katherine; Carroll, Robert J.; Lee, Hye-Soon.
In: Nature Genetics, Vol. 54, No. 11, 04.11.2022, p. 1640-1651.Research output: Contribution to journal › Article › peer-review
TY - JOUR
T1 - Multi-ancestry genome-wide association analyses identify novel genetic mechanisms in rheumatoid arthritis
AU - Ishigaki, Kazuyoshi
AU - Sakaue, Saori
AU - Terao, Chikashi
AU - Luo, Yang
AU - Sonehara, Kyuto
AU - Yamaguchi, Kensuke
AU - Amariuta, Tiffany
AU - Too, Chun Lai
AU - Laufer, Vincent A.
AU - Scott, Ian
AU - Viatte, Sebastien
AU - Takahashi, Meiko
AU - Ohmura, Koichiro
AU - Murasawa, Akira
AU - Hashimoto, Motomu
AU - Ito, Hiromu
AU - Hammoudeh, Mohammed
AU - Al Emadi, Samar
AU - Masri, Basel K.
AU - Halabi, Hussein
AU - Badsha, Humeira
AU - Uthman, Imad W.
AU - Wu, Xin
AU - Lin, Li
AU - Li, Ting
AU - Plant, Darren
AU - Barton, Anne
AU - Orozco, Gisela
AU - Verstappen, Suzanne M. M.
AU - Bowes, John
AU - MacGregor, Alexander J.
AU - Honda, Suguru
AU - Koido, Masaru
AU - Tomizuka, Kohei
AU - Kamatani, Yoichiro
AU - Tanaka, Hiroaki
AU - Tanaka, Eiichi
AU - Suzuki, Akari
AU - Maeda, Yuichi
AU - Yamamoto, Kenichi
AU - Miyawaki, Satoru
AU - Xie, Gang
AU - Zhang, Jinyi
AU - Amos, Christopher
AU - Keystone, Edward
AU - Wolbink, Gertjan
AU - Horst-Bruinsma, Irene van der
AU - Cui, Jing
AU - Liao, Katherine
AU - Carroll, Robert J.
AU - Lee, Hye-Soon
N1 - Funding Information: The authors thank the Director of Health Malaysia for supporting the work described in the South Asian (SAS) population: the Malaysian Epidemiological Investigation of Rheumatoid Arthritis (MyEIRA) study. The MyEIRA study was funded by grants from Ministry of Health Malaysia (NMRR-08-820-1975) and the Swedish National Research Council (DNR-348-2009-6468). The GENRA study and the CARDERA genetics cohort genotyping were funded by Versus Arthritis (grant reference 19739 to I.C.S.). The Nurses’ Health Study (NHS cohort) is funded by the National Institutes of Health (NIH) (R01 AR049880, UM1 CA186107, R01 CA49449, U01 CA176726 and R01 CA67262). The Swedish EIRA study was supported by the Swedish Research Council (to L.K., L.P. and L.A.). S.S. was in part supported by the Mochida Memorial Foundation for Medical and Pharmaceutical Research, Kanae Foundation for the Promotion of Medical Science, Astellas Foundation for Research on Metabolic Disorders, JCR Grant for Promoting Basic Rheumatology, and Manabe Scholarship Grant for Allergic and Rheumatic Diseases. I.C.S. is funded by the National Institute for Health and Care Research (NIHR) Advanced Research Fellowship (grant reference NIHR300826). The views expressed are those of the authors and not necessarily those of the NIHR or the Department of Health and Social Care. K.A.S. is supported by the Sherman Family Chair in Genomic Medicine and by a Canadian Institutes for Health Research Foundation Grant (FDN 148457) and grants from the Ontario Research Fund (RE-09-090) and Canadian Foundation for Innovation (33374). S.-C.B. is supported by the Basic Science Research Program through the NRF funded by the Ministry of Education (NRF-2021R1A6A1A03038899). R.P.K. and J.C.E. are funded by NIH (UL1 TR003096). C.M.L. is partly funded by the NIHR Maudsley Biomedical Research Centre at South London and Maudsley NHS Foundation Trust and King’s College London. T. Arayssi was partially supported by the National Priorities Research Program (grant 4-344-3-105 from the Qatar National Research Fund, a member of Qatar Foundation). M. Kerick and J.M. are funded by Rheumatology Cooperative Research Thematic Network program RD16/0012/0013 from the Instituto de Salud Carlos III (Spanish Ministry of Science and Innovation). Y.O. is funded by JSPS KAKENHI (19H01021 and 20K21834), AMED (JP21km0405211, JP21ek0109413, JP21ek0410075, JP21gm4010006 and JP21km0405217), JST Moonshot R&D (JPMJMS2021 and JPMJMS2024), Takeda Science Foundation, and the Bioinformatics Initiative of Osaka University Graduate School of Medicine. Y. Kochi is funded by grants from Nanken-Kyoten, TMDU and Medical Research Center Initiative for High Depth Omics. S.R. is supported by UH2AR067677, U01HG009379, R01AR063759 and U01HG012009.
PY - 2022/11/4
Y1 - 2022/11/4
N2 - Rheumatoid arthritis (RA) is a highly heritable complex disease with unknown etiology. Multi-ancestry genetic research of RA promises to improve power to detect genetic signals, fine-mapping resolution and performances of polygenic risk scores (PRS). Here, we present a large-scale genome-wide association study (GWAS) of RA, which includes 276,020 samples from five ancestral groups. We conducted a multi-ancestry meta-analysis and identified 124 loci (P < 5 × 10 −8), of which 34 are novel. Candidate genes at the novel loci suggest essential roles of the immune system (for example, TNIP2 and TNFRSF11A) and joint tissues (for example, WISP1) in RA etiology. Multi-ancestry fine-mapping identified putatively causal variants with biological insights (for example, LEF1). Moreover, PRS based on multi-ancestry GWAS outperformed PRS based on single-ancestry GWAS and had comparable performance between populations of European and East Asian ancestries. Our study provides several insights into the etiology of RA and improves the genetic predictability of RA.
AB - Rheumatoid arthritis (RA) is a highly heritable complex disease with unknown etiology. Multi-ancestry genetic research of RA promises to improve power to detect genetic signals, fine-mapping resolution and performances of polygenic risk scores (PRS). Here, we present a large-scale genome-wide association study (GWAS) of RA, which includes 276,020 samples from five ancestral groups. We conducted a multi-ancestry meta-analysis and identified 124 loci (P < 5 × 10 −8), of which 34 are novel. Candidate genes at the novel loci suggest essential roles of the immune system (for example, TNIP2 and TNFRSF11A) and joint tissues (for example, WISP1) in RA etiology. Multi-ancestry fine-mapping identified putatively causal variants with biological insights (for example, LEF1). Moreover, PRS based on multi-ancestry GWAS outperformed PRS based on single-ancestry GWAS and had comparable performance between populations of European and East Asian ancestries. Our study provides several insights into the etiology of RA and improves the genetic predictability of RA.
UR - http://www.scopus.com/inward/record.url?scp=85141849430&partnerID=8YFLogxK
U2 - 10.1038/s41588-022-01213-w
DO - 10.1038/s41588-022-01213-w
M3 - Article
VL - 54
SP - 1640
EP - 1651
JO - Nature Genetics
JF - Nature Genetics
SN - 1061-4036
IS - 11
ER -