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PhIP-Seq uncovers marked heterogeneity in acute rheumatic fever autoantibodies
Reuben McGregor, Lauren H. Carlton, Timothy J. O’Donnell, Elliot Merritt, Campbell R. Sheen, Florina Chan Mow, William John Martin, Michael G. Baker, Nigel Wilson, Uri Laserson, Nicole J. Moreland
Reuben McGregor, Lauren H. Carlton, Timothy J. O’Donnell, Elliot Merritt, Campbell R. Sheen, Florina Chan Mow, William John Martin, Michael G. Baker, Nigel Wilson, Uri Laserson, Nicole J. Moreland
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Research Article Cardiology

PhIP-Seq uncovers marked heterogeneity in acute rheumatic fever autoantibodies

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Abstract

Acute rheumatic fever (ARF) and associated rheumatic heart disease are serious sequelae after infection with group A Streptococcus (Strep A). Autoantibodies are thought to contribute to pathogenesis, with deeper exploration of the autoantibody repertoire needed to improve mechanistic understanding and identify new biomarkers. Phage immunoprecipitation sequencing (PhIP-Seq) with the HuScan library (>250,000 overlapping 90-mer peptides spanning the human proteome) was utilized to analyze autoreactivity in sera from children with ARF, uncomplicated Strep A pharyngitis, and matched healthy controls. A global proteome-wide increase in autoantigen reactivity was observed in ARF, as was marked heterogeneity between patients. Public epitopes, common between individuals with ARF were rare, and comprised less than 1% of all enriched peptides. Differential analysis identified both unknown and previously identified ARF autoantigens, including PPP1R12B, a myosin phosphatase complex regulatory subunit expressed in cardiac muscle, and members of the collagen protein family, respectively. Pathway analysis found antigens from the disease-relevant processes encompassing sarcomere and heart morphogenesis were targeted. In sum, PhIP-Seq has substantially expanded the spectrum of autoantigens in ARF, and reveals the rarity of public epitopes in the disease. It provides further support for the role of epitope spreading in pathogenesis and has identified PPP1R12B as an enriched autoantigen.

Authors

Reuben McGregor, Lauren H. Carlton, Timothy J. O’Donnell, Elliot Merritt, Campbell R. Sheen, Florina Chan Mow, William John Martin, Michael G. Baker, Nigel Wilson, Uri Laserson, Nicole J. Moreland

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Figure 1

Autoantibody repertoire enrichment.

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Autoantibody repertoire enrichment.
(A) All PhIP-Seq peptides were class...
(A) All PhIP-Seq peptides were classified based on their enrichment in ARF cases relative to healthy controls using a per-donor z score on the VST scale. A peptide was considered enriched for a given case if z was 3 or greater versus the control distribution and the 1-sided upper-tail P value remained significant after Benjamini-Hochberg adjustment within donor at q of 0.20 or less. Peptides were further categorized as Not Enriched (no cases enriched, grey), Private (enriched in a single case, blue), Shared (enriched in <10% of cases, orange), or Public (enriched in ≥10% of cases, red). Pie charts show the distribution of these categories across all peptides (top) and among enriched peptides only (bottom). (B) Heatmap showing reactivity to only public peptides (enriched in ≥10% of ARF cases, n = 372) across all individuals. Samples are grouped by case status (ARF, n = 52; healthy control, n = 75) and indicated by a left annotation bar (ARF = purple, control = gold). Columns (donors) and rows (peptides) were hierarchically clustered using a binary distance and average-linkage agglomeration. Each square represents binary reactivity; black = enriched, white = not (enriched based on z score ≥ 3 and q ≤ 0.1).

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