Fig. 6: Transcriptome analysis of M. abscessus IleRS_KD infection in RAW 264.7 macrophages. | Communications Biology

Fig. 6: Transcriptome analysis of M. abscessus IleRS_KD infection in RAW 264.7 macrophages.

From: Isoleucyl-tRNA synthetase depletion reveals vulnerabilities in Mycobacterium abscessus and Mycobacterium marinum

Fig. 6

A Volcano plot of differentially expressed genes (DEGs) identified using edgeR with a fold-change threshold of ≥2 or ≤0.5 and P ≤ 0.05. Genes with significant upregulation (red) and downregulation (blue) are highlighted; larger −log10(P) values indicate stronger significance. B Core enriched signaling pathways in macrophages infected with the IleRS_KD strain of M. abscessus, compared with empty vector strains (PLJR962_KD). Only pathways with NOM P < 0.001and FDR q ≤ 0.1 are shown. C qRT-PCR validation of RNA-seq results, showing increased expression of Abca1 and Abcg1 (PPARγ-axis-related genes) and decreased Il6, Tnf, Ifng, and Il1b in macrophages infected with IleRS_KD compared with empty vector strains (PLJR962_KD). Error bars represent mean ± SD. Statistical significance was assessed by a two-tailed unpaired t-test; thresholds: P < 0.05 (*), P < 0.01 (**), P < 0.001 (***), and P < 0.0001 (****). “ns” denotes no significant difference.

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