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MicroRNA-155 coordinates the immunological landscape within murine melanoma and correlates with immunity in human cancers
H. Atakan Ekiz, … , June L. Round, Ryan M. O’Connell
H. Atakan Ekiz, … , June L. Round, Ryan M. O’Connell
Published February 5, 2019
Citation Information: JCI Insight. 2019;4(6):e126543. https://doi.org/10.1172/jci.insight.126543.
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Research Article Immunology Oncology

MicroRNA-155 coordinates the immunological landscape within murine melanoma and correlates with immunity in human cancers

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Abstract

miR-155 has recently emerged as an important promoter of antitumor immunity through its functions in T lymphocytes. However, the impact of T cell–expressed miR-155 on immune cell dynamics in solid tumors remains unclear. In the present study, we used single-cell RNA sequencing to define the CD45+ immune cell populations at different time points within B16F10 murine melanoma tumors growing in either wild-type or miR-155 T cell conditional knockout (TCKO) mice. miR-155 was required for optimal T cell activation and reinforced the T cell response at the expense of infiltrating myeloid cells. Further, myeloid cells from tumors growing in TCKO mice were defined by an increase in wound healing genes and a decreased IFN-γ–response gene signature. Finally, we found that miR-155 expression predicted a favorable outcome in human melanoma patients and was associated with a strong immune signature. Moreover, gene expression analysis of The Cancer Genome Atlas (TCGA) data revealed that miR-155 expression also correlates with an immune-enriched subtype in 29 other human solid tumors. Together, our study provides an unprecedented analysis of the cell types and gene expression signatures of immune cells within experimental melanoma tumors and elucidates the role of miR-155 in coordinating antitumor immune responses in mammalian tumors.

Authors

H. Atakan Ekiz, Thomas B. Huffaker, Allie H. Grossmann, W. Zac Stephens, Matthew A. Williams, June L. Round, Ryan M. O’Connell

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Figure 3

T cell–specific expression of miR-155 regulates the myeloid populations within the tumor microenvironment.

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T cell–specific expression of miR-155 regulates the myeloid populations ...
(A) The proportions of cells expressing Itgam and Adgre1, which encode myeloid/macrophage markers CD11b and F4/80, respectively. Graphs show an enrichment of macrophages (CD11b+F4/80+) and other myeloid-lineage cells (CD11b+F4/80–) in miR-155 TCKO mice on day 12. (B) Flow cytometric analysis of the tumor microenvironment shows a higher frequency of CD11b+F4/80+ macrophages and CD11b+Ly6G+ myeloid-derived suppressor cells (MDSCs) in B16F10 tumors growing in miR-155 TCKO hosts. (C) Analysis of protumorigenic M2 macrophage marker genes in SCseq data. The box plots show the interquartile range and the median value (bold horizontal bar). Average expression value per sample is indicated by the red points. (D) Principal component analysis (PCA) of the F4/80+ macrophage cluster (as defined in Figure 1) using 142 consistently expressed immune-associated genes. Genes were selected based on “mouse immune process” GO annotation and by filtering out genes with average expression counts less than 1 per cell. F4/80+ macrophages in miR-155 TCKO mice on day 12 have a unique gene expression profile as evidenced by spatial separation in the PCA plot. (E) Analysis of gene set enrichment in CD11b+F4/80+ macrophages on day 12. Normalized enrichment score (NES) and adjusted P value are shown. WT macrophages were enriched for IFN-γ–response pathway genes, whereas macrophages from miR-155 TCKO mice upregulated genes related to wound healing pathways (gene sets derived from MSigDB) (33). (F) Expression levels of MDSC-associated genes within CD11b+F4/80– cells of the SCseq dataset, suggesting an MDSC-like phenotype for F4/80– myeloid cells in miR-155 TCKO mice. Graphs were prepared similarly to those in panel C. **P ≤ 0.01, ***P ≤ 0.001, ****P ≤ 0.0001; ns, P > 0.05 by Wilcoxon’s test.

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