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Pneumonia recovery reprograms the alveolar macrophage pool
Antoine Guillon, Emad I. Arafa, Kimberly A. Barker, Anna C. Belkina, Ian Martin, Anukul T. Shenoy, Alicia K. Wooten, Carolina Lyon De Ana, Anqi Dai, Adam Labadorf, Jaileene Hernandez Escalante, Hans Dooms, Hélène Blasco, Katrina E. Traber, Matthew R. Jones, Lee J. Quinton, Joseph P. Mizgerd
Antoine Guillon, Emad I. Arafa, Kimberly A. Barker, Anna C. Belkina, Ian Martin, Anukul T. Shenoy, Alicia K. Wooten, Carolina Lyon De Ana, Anqi Dai, Adam Labadorf, Jaileene Hernandez Escalante, Hans Dooms, Hélène Blasco, Katrina E. Traber, Matthew R. Jones, Lee J. Quinton, Joseph P. Mizgerd
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Research Article Pulmonology

Pneumonia recovery reprograms the alveolar macrophage pool

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Abstract

Community-acquired pneumonia is a widespread disease with significant morbidity and mortality. Alveolar macrophages are tissue-resident lung cells that play a crucial role in innate immunity against bacteria that cause pneumonia. We hypothesized that alveolar macrophages display adaptive characteristics after resolution of bacterial pneumonia. We studied mice 1 to 6 months after self-limiting lung infections with Streptococcus pneumoniae, the most common cause of bacterial pneumonia. Alveolar macrophages, but not other myeloid cells, recovered from the lung showed long-term modifications of their surface marker phenotype. The remodeling of alveolar macrophages was (a) long-lasting (still observed 6 months after infection), (b) regionally localized (observed only in the affected lobe after lobar pneumonia), and (c) associated with macrophage-dependent enhanced protection against another pneumococcal serotype. Metabolomic and transcriptomic profiling revealed that alveolar macrophages of mice that recovered from pneumonia had new baseline activities and altered responses to infection that better resembled those of adult humans. The enhanced lung protection after mild and self-limiting bacterial respiratory infections includes a profound remodeling of the alveolar macrophage pool that is long-lasting; compartmentalized; and manifest across surface receptors, metabolites, and both resting and stimulated transcriptomes.

Authors

Antoine Guillon, Emad I. Arafa, Kimberly A. Barker, Anna C. Belkina, Ian Martin, Anukul T. Shenoy, Alicia K. Wooten, Carolina Lyon De Ana, Anqi Dai, Adam Labadorf, Jaileene Hernandez Escalante, Hans Dooms, Hélène Blasco, Katrina E. Traber, Matthew R. Jones, Lee J. Quinton, Joseph P. Mizgerd

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Figure 8

Transcriptome remodeling of experienced alveolar macrophages, at rest and during infection.

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Transcriptome remodeling of experienced alveolar macrophages, at rest an...
(A) Hierarchical clustering and heatmap of 443 transcripts differentially expressed with FDR q < 0.05 in alveolar macrophages of experienced and naive mice. Each column represents a mouse and each row a gene. Color-coding indicates directionality (with blue, white, and red showing below-, at-, or above-average expression, respectively). (B) Relative expression of genes associated with “alternative/M2” or “classical/M1” activation states in mouse macrophages (42). Box, line, and whisker for each mRNA represent quartiles, median, and range, respectively, for n = 4 mice per group in the genome-wide transcriptome analyses. (C and D) Plots of reactome pathways resulting from GSEA analyses of the transcriptome profiles of alveolar macrophages from experienced compared with naive lungs, at rest (C) or 4 hours after infection with serotype 3 pneumococcus (D). All pathways that crossed the FDR q < 0.05 threshold were examined (listed in Tables 1 and 2), colored differently from black in the figures, and grouped by manual inspection (as detailed in Tables 1 and 2) into overarching pathways that were communicated in the figures via inset boxes. Normalized enrichment scores (NESs) below 0 indicate pathways decreased in the experienced lungs, while positive NESs indicate pathways increased in experienced lungs.

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