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Single-cell sequencing shows cellular heterogeneity of cutaneous lesions in lupus erythematosus

Author

Listed:
  • Meiling Zheng

    (Central South University
    Chinese Academy of Medical Sciences)

  • Zhi Hu

    (Central South University
    Chinese Academy of Medical Sciences)

  • Xiaole Mei

    (Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Lianlian Ouyang

    (Central South University
    Chinese Academy of Medical Sciences)

  • Yang Song

    (Central South University
    Chinese Academy of Medical Sciences)

  • Wenhui Zhou

    (Central South University
    Chinese Academy of Medical Sciences)

  • Yi Kong

    (Central South University
    Chinese Academy of Medical Sciences)

  • Ruifang Wu

    (Central South University
    Chinese Academy of Medical Sciences)

  • Shijia Rao

    (Central South University
    Chinese Academy of Medical Sciences)

  • Hai Long

    (Central South University
    Chinese Academy of Medical Sciences)

  • Wei Shi

    (Central South University)

  • Hui Jing

    (Central South University
    Chinese Academy of Medical Sciences)

  • Shuang Lu

    (Central South University
    Chinese Academy of Medical Sciences)

  • Haijing Wu

    (Central South University
    Chinese Academy of Medical Sciences)

  • Sujie Jia

    (Central South University)

  • Qianjin Lu

    (Central South University
    Chinese Academy of Medical Sciences
    Chinese Academy of Medical Sciences and Peking Union Medical College)

  • Ming Zhao

    (Central South University
    Chinese Academy of Medical Sciences)

Abstract

Discoid lupus erythematosus (DLE) and systemic lupus erythematosus (SLE) are both types of lupus, yet the characteristics, and differences between them are not fully understood. Here we show single-cell RNA sequencing data of cutaneous lesions from DLE and SLE patients and skin tissues from healthy controls (HCs). We find significantly higher proportions of T cells, B cells and NK cells in DLE than in SLE. Expanded CCL20+ keratinocyte, CXCL1+ fibroblast, ISGhiCD4/CD8 T cell, ISGhi plasma cell, pDC, and NK subclusters are identified in DLE and SLE compared to HC. In addition, we observe higher cell communication scores between cell types such as fibroblasts and macrophage/dendritic cells in cutaneous lesions of DLE and SLE compared to HC. In summary, we clarify the heterogeneous characteristics in cutaneous lesions between DLE and SLE, and discover some specific cell subtypes and ligand-receptor pairs that indicate possible therapeutic targets of lupus erythematosus.

Suggested Citation

  • Meiling Zheng & Zhi Hu & Xiaole Mei & Lianlian Ouyang & Yang Song & Wenhui Zhou & Yi Kong & Ruifang Wu & Shijia Rao & Hai Long & Wei Shi & Hui Jing & Shuang Lu & Haijing Wu & Sujie Jia & Qianjin Lu & , 2022. "Single-cell sequencing shows cellular heterogeneity of cutaneous lesions in lupus erythematosus," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    • Handle: RePEc:nat:natcom:v:13:y:2022:i:1:d:10.1038_s41467-022-35209-1
    DOI: 10.1038/s41467-022-35209-1
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    as
    1. Sébastien Hannedouche & Juan Zhang & Tangsheng Yi & Weijun Shen & Deborah Nguyen & João P. Pereira & Danilo Guerini & Birgit U. Baumgarten & Silvio Roggo & Ben Wen & Richard Knochenmuss & Sophie Noël , 2011. "Oxysterols direct immune cell migration via EBI2," Nature, Nature, vol. 475(7357), pages 524-527, July.
    2. Eddie Cano-Gamez & Blagoje Soskic & Theodoros I. Roumeliotis & Ernest So & Deborah J. Smyth & Marta Baldrighi & David Willé & Nikolina Nakic & Jorge Esparza-Gordillo & Christopher G. C. Larminie & Pao, 2020. "Single-cell transcriptomics identifies an effectorness gradient shaping the response of CD4+ T cells to cytokines," Nature Communications, Nature, vol. 11(1), pages 1-15, December.
    3. Kevin Wei & Ilya Korsunsky & Jennifer L. Marshall & Anqi Gao & Gerald F. M. Watts & Triin Major & Adam P. Croft & Jordan Watts & Philip E. Blazar & Jeffrey K. Lange & Thomas S. Thornhill & Andrew File, 2020. "Notch signalling drives synovial fibroblast identity and arthritis pathology," Nature, Nature, vol. 582(7811), pages 259-264, June.
    4. Zhe Sun & Li Chen & Hongyi Xin & Yale Jiang & Qianhui Huang & Anthony R. Cillo & Tracy Tabib & Jay K. Kolls & Tullia C. Bruno & Robert Lafyatis & Dario A. A. Vignali & Kong Chen & Ying Ding & Ming Hu , 2019. "A Bayesian mixture model for clustering droplet-based single-cell transcriptomic data from population studies," Nature Communications, Nature, vol. 10(1), pages 1-10, December.
    5. Salah Mahmoudi & Elena Mancini & Lucy Xu & Alessandra Moore & Fereshteh Jahanbani & Katja Hebestreit & Rajini Srinivasan & Xiyan Li & Keerthana Devarajan & Laurie Prélot & Cheen Euong Ang & Yohei Shib, 2019. "Heterogeneity in old fibroblasts is linked to variability in reprogramming and wound healing," Nature, Nature, vol. 574(7779), pages 553-558, October.
    6. Cheng-Cheng Deng & Yong-Fei Hu & Ding-Heng Zhu & Qing Cheng & Jing-Jing Gu & Qing-Lan Feng & Li-Xue Zhang & Ying-Ping Xu & Dong Wang & Zhili Rong & Bin Yang, 2021. "Single-cell RNA-seq reveals fibroblast heterogeneity and increased mesenchymal fibroblasts in human fibrotic skin diseases," Nature Communications, Nature, vol. 12(1), pages 1-16, December.
    7. Jianhua Li & Erick Lu & Tangsheng Yi & Jason G. Cyster, 2016. "EBI2 augments Tfh cell fate by promoting interaction with IL-2-quenching dendritic cells," Nature, Nature, vol. 533(7601), pages 110-114, May.
    8. João P. Pereira & Lisa M. Kelly & Ying Xu & Jason G. Cyster, 2009. "EBI2 mediates B cell segregation between the outer and centre follicle," Nature, Nature, vol. 460(7259), pages 1122-1126, August.
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