Figure 4.
Heart-specific transcriptional changes in Chikungunya virus (CHIKV)-infected A129 mice. Four type 1 interferon knock-out (A129) mice were inoculated with CHIKV-AF15561 and two mock-infected with PBS, and then skeletal muscle from the injection site near the left rear footpad (SKMIS), kidney, and heart were collected 4 days post infection; RNA was extracted from tissues, and then PAC-Seq libraries were constructed and sequenced on a NextSeq550. Differential gene expression was analyzed using the DPAC pipeline in conjunction with DESeq2 followed by enrichment analysis using ENRICHR analysis tool (https://maayanlab.cloud/Enrichr/) for genes that were significantly differentially regulated (fold change ≥ 2, p-adj ≤ 0.1). BiNGO was then used in conjunction with Cytoscape to generate a network visualization of enriched GO processes. (A) GO 2018 processes significantly enriched in heart tissue (P-adj ≤ 0.1; circles colored by level of significance); (B) genes differentially expressed in CHIKV-infected heart from processes related to ion homeostasis and muscle contraction (*, P-adj ≤ 0.1; **, P-adj ≤ 0.05; ***, P-adj < 0.01). Genes are colored by functional cluster; some ion transport-related genes serve as sym- or antiporters for dual cations and are colored accordingly.