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Single-cell immunophenotyping of the skin lesion erythema migrans identifies IgM memory B cells
Ruoyi Jiang, Hailong Meng, Khadir Raddassi, Ira Fleming, Kenneth B. Hoehn, Kenneth R. Dardick, Alexia A. Belperron, Ruth R. Montgomery, Alex K. Shalek, David A. Hafler, Steven H. Kleinstein, Linda K. Bockenstedt
Ruoyi Jiang, Hailong Meng, Khadir Raddassi, Ira Fleming, Kenneth B. Hoehn, Kenneth R. Dardick, Alexia A. Belperron, Ruth R. Montgomery, Alex K. Shalek, David A. Hafler, Steven H. Kleinstein, Linda K. Bockenstedt
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Research Article Immunology Infectious disease

Single-cell immunophenotyping of the skin lesion erythema migrans identifies IgM memory B cells

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Abstract

The skin lesion erythema migrans (EM) is an initial sign of the Ixodes tick–transmitted Borreliella spirochetal infection known as Lyme disease. T cells and innate immune cells have previously been shown to predominate the EM lesion and promote the reaction. Despite the established importance of B cells and antibodies in preventing infection, the role of B cells in the skin immune response to Borreliella is unknown. Here, we used single-cell RNA-Seq in conjunction with B cell receptor (BCR) sequencing to immunophenotype EM lesions and their associated B cells and BCR repertoires. We found that B cells were more abundant in EM in comparison with autologous uninvolved skin; many were clonally expanded and had circulating relatives. EM-associated B cells upregulated the expression of MHC class II genes and exhibited preferential IgM isotype usage. A subset also exhibited low levels of somatic hypermutation despite a gene expression profile consistent with memory B cells. Our study demonstrates that single-cell gene expression with paired BCR sequencing can be used to interrogate the sparse B cell populations in human skin and reveals that B cells in the skin infection site in early Lyme disease expressed a phenotype consistent with local antigen presentation and antibody production.

Authors

Ruoyi Jiang, Hailong Meng, Khadir Raddassi, Ira Fleming, Kenneth B. Hoehn, Kenneth R. Dardick, Alexia A. Belperron, Ruth R. Montgomery, Alex K. Shalek, David A. Hafler, Steven H. Kleinstein, Linda K. Bockenstedt

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Figure 2

B cells and T cells infiltrate EM lesions.

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B cells and T cells infiltrate EM lesions.
(A) UMAP projection of single...
(A) UMAP projection of single-cell gene expression data from both EM and uninvolved samples from subjects in cohort 1 with clusters annotated based on marker genes. (B) The fraction of cells found in each cluster per subject as a fraction of total cells from the sample for all 10 cell subsets (as annotated by marker genes). (C) Frequency of cells associated with a reconstructed IGH and associated IGK/L (“BCR”) or TCRB (“TCR”) receptor from repertoire sequencing as a fraction of total cells in the sample. (D) Ratio of B cells and T cells relative to keratinocytes in EM lesions compared with uninvolved samples based on frequencies computed from data in B. Horizontal bars show the mean frequency of each comparison and frequencies belonging to the same subject are connected with dashed lines. Data for the same n = 6 subjects from cohort 1 are shown for all panels. Statistical differences are shown only when significant for a paired ratio t test (**P < 0.01; *P < 0.05). EM, erythema migrans; BCR, B cell receptor; TCR, T cell receptor.

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