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Analysis of CNS autoimmunity in genetically diverse mice reveals unique phenotypes and mechanisms
Emily A. Nelson, Anna L. Tyler, Taylor Lakusta-Wong, Karolyn G. Lahue, Katherine C. Hankes, Cory Teuscher, Rachel M. Lynch, Martin T. Ferris, J. Matthew Mahoney, Dimitry N. Krementsov
Emily A. Nelson, Anna L. Tyler, Taylor Lakusta-Wong, Karolyn G. Lahue, Katherine C. Hankes, Cory Teuscher, Rachel M. Lynch, Martin T. Ferris, J. Matthew Mahoney, Dimitry N. Krementsov
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Research Article Genetics

Analysis of CNS autoimmunity in genetically diverse mice reveals unique phenotypes and mechanisms

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Abstract

Multiple sclerosis (MS) is a complex disease with significant heterogeneity in disease course and progression. Genetic studies have identified numerous loci associated with MS risk, but the genetic basis of disease progression remains elusive. To address this, we leveraged the Collaborative Cross (CC), a genetically diverse mouse strain panel, and experimental autoimmune encephalomyelitis (EAE). The 32 CC strains studied captured a wide spectrum of EAE severity, trajectory, and presentation, including severe-progressive, monophasic, relapsing remitting, and axial rotary–EAE (AR-EAE), accompanied by distinct immunopathology. Sex differences in EAE severity were observed in 6 strains. Quantitative trait locus analysis revealed distinct genetic linkage patterns for different EAE phenotypes, including EAE severity and incidence of AR-EAE. Machine learning–based approaches prioritized candidate genes for loci underlying EAE severity (Abcc4 and Gpc6) and AR-EAE (Yap1 and Dync2h1). This work expands the EAE phenotypic repertoire and identifies potentially novel loci controlling unique EAE phenotypes, supporting the hypothesis that heterogeneity in MS disease course is driven by genetic variation.

Authors

Emily A. Nelson, Anna L. Tyler, Taylor Lakusta-Wong, Karolyn G. Lahue, Katherine C. Hankes, Cory Teuscher, Rachel M. Lynch, Martin T. Ferris, J. Matthew Mahoney, Dimitry N. Krementsov

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Figure 7

QTL analysis reveals distinct genetic linkage patterns for AR-EAE incidence and EAE severity.

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QTL analysis reveals distinct genetic linkage patterns for AR-EAE incide...
EAE was induced and evaluated in CC strains, as described in Figure 1. EAE QTVs were calculated, and QTL mapping was performed as described in Methods. (A) Manhattan plot demonstrating LOD traces for AR-EAE incidence, 15% and 20% genome-wide significance is indicated by the solid and dashed lines, respectively. (B) Corresponding CC founder allele effects plot for lead QTL on Chr9 — Eaecc3. (C) Heatmap demonstrating CC strain distribution based on genotype-by-phenotype analysis for Eaecc3. (D) Manhattan plot demonstrating LOD traces for EAE severity, 15% and 20% genome-wide significance is indicated by the solid and dashed lines, respectively. (E) Corresponding CC founder allele effects plot for lead QTL on Chr14 — Eaecc6. (F) Box and whisker plot (mean ± 95% CI) demonstrating distribution of CC founder alleles within strains.

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