A Comprehensive Dataset on Microbiome Dynamics in Rheumatoid Arthritis from a Large-Scale Cohort Study.

Jing Li, Jun Xu, Jiayang Jin, Congmin Xu, Yuzhou Gan, Yifan Wang, Ruiling Feng, Wenqiang Fan, Yingni Li, Xiaozhen Zhao, Yucui Li, Shushi Gong, Linchong Su, Yueming Cai, Lianjie Shi, Xiaolin Sun, Yang Xiang, Qingwen Wang, Ru Li, Jinxia Zhao, Yulan Liu, Junjie Qin, Zhanguo Li, Jing He
Author Information
  1. Jing Li: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  2. Jun Xu: Department of Gastroenterology, Peking University People's Hospital, Beijing, 100044, China.
  3. Jiayang Jin: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  4. Congmin Xu: BioMap (Beijing) Intelligent Technology Co., Ltd. (BioMap), Beijing, 100044, China.
  5. Yuzhou Gan: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  6. Yifan Wang: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  7. Ruiling Feng: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  8. Wenqiang Fan: Department of Rheumatology and Immunology, Xinxiang Central Hospital, Henan, 45300, China.
  9. Yingni Li: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  10. Xiaozhen Zhao: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  11. Yucui Li: Third Hospital of Shanxi Medical University, Shanxi Bethune Hospital, Shanxi Academy of Medical Sciences, Tongji Shanxi Hospital, Taiyuan, 030032, China.
  12. Shushi Gong: Department of Rheumatology and Immunology, Minda Hospital of Hubei Minzu University, Hubei, 445000, China.
  13. Linchong Su: Department of Rheumatology and Immunology, Minda Hospital of Hubei Minzu University, Hubei, 445000, China.
  14. Yueming Cai: Department of Rheumatology and Immunology, Peking University Shenzhen Hospital, Shenzhen, Guangdong, 518000, China.
  15. Lianjie Shi: Department of Rheumatology and Immunology, Peking University Shougang Hospital, Beijing, 100144, China.
  16. Xiaolin Sun: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China. ORCID
  17. Yang Xiang: Department of Rheumatology and Immunology, Minda Hospital of Hubei Minzu University, Hubei, 445000, China.
  18. Qingwen Wang: Department of Rheumatology and Immunology, Peking University Shenzhen Hospital, Shenzhen, Guangdong, 518000, China.
  19. Ru Li: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China.
  20. Jinxia Zhao: Department of Rheumatology and Immunology, Peking University Third Hospital, Beijing, 100191, China.
  21. Yulan Liu: Department of Gastroenterology, Peking University People's Hospital, Beijing, 100044, China.
  22. Junjie Qin: Promegene Institute, Shenzhen, 518110, China.
  23. Zhanguo Li: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China. li99@bjmu.edu.cn.
  24. Jing He: Department of Rheumatology and Immunology, Peking University People's Hospital, Beijing Key Laboratory for Rheumatism Mechanism and Immune Diagnosis (BZ0135), Beijing, 100044, China. hejing1105@126.com.

Abstract

Alterations in intestinal microbiota have been identified as a key risk factor in Rheumatoid Arthritis (RA). This study presents a multidimensional gut microbiota profile from a large cohort of RA patients, stratified by disease stage and treatment regimens, and compared to healthy controls. Our dataset comprises gut microbiota profiles from 2,238 individuals, including 1,034 RA patients (Ascia Pacific RA cohort, APRAC) and 1,204 healthy controls. This dataset is enriched with detailed clinical metadata, including patient profiles, treatment histories, and environmental factors, providing a comprehensive "disease exposome" for RA. By integrating 16S rRNA gene sequencing with demographic, clinical, and environmental data, we offer a valuable resource to explore the complex relationships between gut microbiota and RA progression. This large-scale dataset is expected to be a foundation for collaborative research, advancing our understanding of the microbiome's systemic effects in RA and other autoimmune diseases and potentially guiding new therapeutic approaches.

References

  1. Nature. 2006 Dec 21;444(7122):1027-31 [PMID: 17183312]
  2. Sci Data. 2025 Feb 7;12(1):232 [PMID: 39920171]
  3. Nat Methods. 2016 Jul;13(7):581-3 [PMID: 27214047]
  4. Appl Environ Microbiol. 2006 Jul;72(7):5069-72 [PMID: 16820507]
  5. Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1:4516-22 [PMID: 20534432]
  6. Bioinformatics. 2016 Oct 1;32(19):3047-8 [PMID: 27312411]
  7. Nat Rev Rheumatol. 2021 Apr;17(4):224-237 [PMID: 33674813]
  8. Rheumatol Autoimmun. 2022 Sep;2(3):109-119 [PMID: 36312783]
  9. Genomics Proteomics Bioinformatics. 2021 Aug;19(4):578-583 [PMID: 34400360]
  10. F1000Res. 2018 Aug 24;7:1338 [PMID: 30254741]
  11. Sci Adv. 2022 Feb 11;8(6):eabm1511 [PMID: 35148177]
  12. Science. 2016 Apr 29;352(6285):560-4 [PMID: 27126039]
  13. Nat Biotechnol. 2019 Aug;37(8):852-857 [PMID: 31341288]
  14. Nat Rev Microbiol. 2020 Sep;18(9):521-538 [PMID: 32457482]
  15. Appl Environ Microbiol. 2013 Sep;79(17):5112-20 [PMID: 23793624]

MeSH Term

Arthritis, Rheumatoid
Humans
Gastrointestinal Microbiome
RNA, Ribosomal, 16S
Cohort Studies
Female
Male

Chemicals

RNA, Ribosomal, 16S

Word Cloud

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