RNA-seq analysis reveals modulation of inflammatory pathways by an enriched-triterpene natural extract in mouse and human macrophage cell lines

Alejandro Mejia-Garcia; Geysson Javier Fernandez; Luis Fernando Echeverri; Norman Balcazar; Sergio Acin

doi:10.1016/j.heliyon.2024.e24382

RNA-seq analysis reveals modulation of inflammatory pathways by an enriched-triterpene natural extract in mouse and human macrophage cell lines

Heliyon. 2024 Jan 10;10(2):e24382. doi: 10.1016/j.heliyon.2024.e24382. eCollection 2024 Jan 30.

Authors

Alejandro Mejia-Garcia¹, Geysson Javier Fernandez^{1

2}, Luis Fernando Echeverri³, Norman Balcazar^{1

4}, Sergio Acin^{1

4}

Affiliations

¹ Grupo Genmol. Facultad de Ciencias Exactas y Naturales, Universidad de Antioquia UdeA, Medellín, Colombia.
² Grupo Biología y Control de Enfermedades Infecciosas, Universidad de Antioquia UdeA, Medellín, Colombia.
³ Grupo QOPN, Facultad de Ciencias Exactas y Naturales, Universidad de Antioquia UdeA, Medellín, Colombia.
⁴ Facultad de Medicina, Departamento de fisiología y Bioquímica, Universidad de Antioquia UdeA, Medellín, Colombia.

Abstract

Chronic inflammation is crucial in developing insulin resistance and type 2 diabetes. Previous studies have shown that a leaf extract of Eucalyptus tereticornis, with ursolic acid (UA), oleanolic acid (OA), and ursolic acid lactone (UAL) as the main molecules (78 %) mixed with unknown minor metabolites (22 %), provided superior anti-inflammatory, hypoglycemic, and hypolipidemic effects than reconstituted triterpenoid mixtures in macrophage cell lines and a pre-diabetic mouse model. Further identification of the molecular mechanisms of action of this mixture of triterpenes is required. This study aims to analyse the RNA expression profiles of mouse and human macrophage cell lines treated with the natural extract and its components. Activated macrophage cell lines were treated with the natural extract, UA, OA, UAL or a triterpene mixture (M1). RNA was extracted and sequenced using the DNBseq platform and the EnrichR software to perform gene enrichment analysis using the Gene Ontology database, Kyoto Encyclopedia of Genes and Genomes, and Reactome. To conduct clustering analysis, we standardised the normalised counts of each gene and applied k-means clustering. The combination of molecules in the natural extract has an additive or synergic effect that affects the expression of up-regulated genes by macrophage activation. Triterpenes (M1) regulated 76 % of human and 68 % of mouse genes, while uncharacterised minority molecules could regulate 24 % of human and 32 % of mouse genes. The extract inhibited the expression of many cytokines (IL6, IL1, OSM), chemokines (CXCL3), inflammatory mediators (MMP8 and MMP13) and the JAK-STAT signalling pathway in both models. The natural extract has a more powerful immunomodulatory effect than the triterpene mixture, increasing the number of genes regulated in mouse and human models. Our study shows that Eucalyptus tereticornis extract is a promising option for breaking the link between inflammation and insulin resistance.

Keywords: Immune system; Inflammation; Macrophage; Natural extract; Transcriptome; Triterpenes.