Molecular pathways in patients with systemic lupus erythematosus revealed by gene-centred DNA sequencing

Research output: Contribution to journalArticle

Abstract

Objectives: Systemic lupus erythematosus (SLE) is an autoimmune disease with extensive heterogeneity in disease presentation between patients, which is likely due to an underlying molecular diversity. Here, we aimed at elucidating the genetic aetiology of SLE from the immunity pathway level to the single variant level, and stratify patients with SLE into distinguishable molecular subgroups, which could inform treatment choices in SLE. Methods: We undertook a pathway-centred approach, using sequencing of immunological pathway genes. Altogether 1832 candidate genes were analysed in 958 Swedish patients with SLE and 1026 healthy individuals. Aggregate and single variant association testing was performed, and we generated pathway polygenic risk scores (PRS). Results: We identified two main independent pathways involved in SLE susceptibility: T lymphocyte differentiation and innate immunity, characterised by HLA and interferon, respectively. Pathway PRS defined pathways in individual patients, who on average were positive for seven pathways. We found that SLE organ damage was more pronounced in patients positive for the T or B cell receptor signalling pathways. Further, pathway PRS-based clustering allowed stratification of patients into four groups with different risk score profiles. Studying sets of genes with priors for involvement in SLE, we observed an aggregate common variant contribution to SLE at genes previously reported for monogenic SLE as well as at interferonopathy genes. Conclusions: Our results show that pathway risk scores have the potential to stratify patients with SLE beyond clinical manifestations into molecular subsets, which may have implications for clinical follow-up and therapy selection.

Details

Authors
  • Johanna K. Sandling
  • Pascal Pucholt
  • Lina Hultin Rosenberg
  • Fabiana H.G. Farias
  • Sergey V. Kozyrev
  • Maija Leena Eloranta
  • Andrei Alexsson
  • Matteo Bianchi
  • Leonid Padyukov
  • Christine Bengtsson
  • Roland Jonsson
  • Roald Omdal
  • Benedicte A. Lie
  • Laura Massarenti
  • Rudi Steffensen
  • Marianne A. Jakobsen
  • Søren T. Lillevang
  • Karoline Lerang
  • Øyvind Molberg
  • Anne Voss
  • Anne Troldborg
  • Søren Jacobsen
  • Ann Christine Syvänen
  • Iva Gunnarsson
  • Elisabet Svenungsson
  • Solbritt Rantapää-Dahlqvist
  • Christopher Sjöwall
  • Dag Leonard
  • Kerstin Lindblad-Toh
  • Lars Rönnblom
Organisations
External organisations
  • Uppsala University
  • Washington University in St. Louis
  • Karolinska University Hospital
  • Umeå University
  • University of Bergen
  • Stavanger University Hospital
  • University of Oslo
  • Copenhagen University Hospital
  • Aalborg University
  • Odense University Hospital
  • Oslo university hospital
  • Aarhus University Hospital
  • Aarhus University
  • University of Copenhagen
  • Skåne University Hospital
  • Linköping University
  • Broad Institute
  • Karolinska Institutet
Research areas and keywords

Subject classification (UKÄ) – MANDATORY

  • Rheumatology and Autoimmunity
  • Medical Genetics

Keywords

  • autoimmunity, genetic, lupus erythematosus, polymorphism, systemic
Original languageEnglish
Pages (from-to)109-117
Number of pages9
JournalAnnals of the Rheumatic Diseases
Volume80
Issue number1
Early online date2020 Oct 9
Publication statusPublished - 2021 Jan
Publication categoryResearch
Peer-reviewedYes