Investigation of candidate genes and mechanisms underlying obesity associated type 2 diabetes mellitus using bioinformatics analysis and screening of small drug molecules

• Published in: BMC endocrine disorders Vol. 21; no. 1; p. 80
• Main Authors: Prashanth, G, Vastrad, Basavaraj, Tengli, Anandkumar, Vastrad, Chanabasayya, Kotturshetti, Iranna
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 26-04-2021; BioMed Central; BMC
• Subjects: Bioinformatics; Biomarkers; Cell adhesion; Datasets; Diabetes; Diabetes mellitus (non-insulin dependent); Diabetes therapy; differentially expressed gene; Energy metabolism; Etiology; Extracellular matrix; Fibronectins; Gene expression; Genes; Health aspects; International economic relations; Ligands; Medical screening; Metabolic disorders; MicroRNA; miRNA; miRNA-target genes regulatory network; Next-generation sequencing; Obesity; obesity associated type 2 diabetes mellitus; Online data bases; Ontology; pathway; Phosphorus; Physiological aspects; protein-protein interaction network; Protein-protein interactions; Proteins; Runx1 protein; Scientific equipment and supplies industry; Software; Therapeutic targets; Type 2 diabetes; United States; Massachusetts; Taiwan; United States > US; miRNA-target genes regulatory network; differentially expressed gene; pathway; protein-protein interaction network; obesity associated type 2 diabetes mellitus
• ISSN: 1472-6823; 1472-6823
• DOI: 10.1186/s12902-021-00718-5

Obesity associated type 2 diabetes mellitus is a metabolic disorder ; however, the etiology of obesity associated type 2 diabetes mellitus remains largely unknown. There is an urgent need to further broaden the understanding of the molecular mechanism associated in obesity associated type 2 diabetes mellitus.
To screen the differentially expressed genes (DEGs) that might play essential roles in obesity associated type 2 diabetes mellitus, the publicly available expression profiling by high throughput sequencing data (GSE143319) was downloaded and screened for DEGs. Then, Gene Ontology (GO) and REACTOME pathway enrichment analysis were performed. The protein - protein interaction network, miRNA - target genes regulatory network and TF-target gene regulatory network were constructed and analyzed for identification of hub and target genes. The hub genes were validated by receiver operating characteristic (ROC) curve analysis and RT- PCR analysis. Finally, a molecular docking study was performed on over expressed proteins to predict the target small drug molecules.
A total of 820 DEGs were identified between healthy obese and metabolically unhealthy obese, among 409 up regulated and 411 down regulated genes. The GO enrichment analysis results showed that these DEGs were significantly enriched in ion transmembrane transport, intrinsic component of plasma membrane, transferase activity, transferring phosphorus-containing groups, cell adhesion, integral component of plasma membrane and signaling receptor binding, whereas, the REACTOME pathway enrichment analysis results showed that these DEGs were significantly enriched in integration of energy metabolism and extracellular matrix organization. The hub genes CEBPD, TP73, ESR2, TAB1, MAP 3K5, FN1, UBD, RUNX1, PIK3R2 and TNF, which might play an essential role in obesity associated type 2 diabetes mellitus was further screened.
The present study could deepen the understanding of the molecular mechanism of obesity associated type 2 diabetes mellitus, which could be useful in developing therapeutic targets for obesity associated type 2 diabetes mellitus.