Fig 2.

Transcriptomic response and immune dysfunction in TFAM siRNA-induced mtDNA-depleted THP-1 cells is rescued by IFN-γ treatment. A, Hierarchical clustering for the 3000 most expressed genes in all the samples used for RNA-Seq. B, Volcano plot of differentially expressed genes between control and siRNA cells (dot size proportional to LogFC >1.5 red [upregulated], blue [downregulated], green = the mitochondrial genes). C, Altered canonical signaling pathways with siRNA. D-G, Quantitative PCR validation of key genes. H, Cell surface expression of TLR-4. I, LPS-induced TNF-α release after treatment with 100 ng/mL IFN-γ for the final 24 hours of the transfection period. J, Phagocytosis of E coli. K, Phagocytosis of E coli. Data are presented as means ± SD of 3 independent biological replicates; *P < .05, **P < .01, and ***P < .001. iNOS, Inducible nitric oxide synthase; IRF, interferon regulatory factor; PI3K, phoshoinositide-3-kinase; RIG1, retinoic acid-inducible gene-1; TSP-1, thrombospondin-1.