Transcriptomics and Proteomics Approach for the Identification of Altered Blood microRNAs and Plasma Proteins in Parkinson’s Disease

• Published in: Cellular and molecular neurobiology 2023-10, Vol.43 (7), p.3527-3553
• Main Authors: Yadav, Sanjeev Kumar, Jauhari, Abhishek, Singh, Nishant, Pandey, Anuj, Sarkar, Sana, Pandey, Shweta, Garg, Ravindra K., Parmar, Devendra, Yadav, Sanjay
• Format: Article
• Language: English
• Subjects: Apoptosis; Bioinformatics; Biomarkers; Biomedical and Life Sciences; Biomedicine; Cell Biology; Cell death; Dopamine receptors; Down-regulation; MicroRNAs; miRNA; Movement disorders; Neurobiology; Neurodegeneration; Neurodegenerative diseases; Neurons; Neuroprotection; Neurosciences; Original Research; Parkinson's disease; Plasma proteins; Protein interaction; Proteins; Proteomics; Transcriptomics
• ISSN: 0272-4340; 1573-6830
• DOI: 10.1007/s10571-023-01362-4

Parkinson's disease (PD) is a neurodegenerative disorder caused by the selective destruction of dopaminergic neurons (DA-nergic). Clinically, PD is diagnosed based on developing signs and symptoms. A neurological and physical examination and sometimes medical and family history also help in the diagnosis of PD. However, most of these features are visible when more than 80% of the dopaminergic neurons have degenerated. An understanding of the selective degeneration process at the cellular and molecular level and the development of new biomarkers are required for effective PD management. Several studies have been carried out using a selected set of miRNAs/ mRNAs and proteins to develop biomarkers of PD; however, an unbiased and combined miRNA–protein profiling study was required to identify the markers of progressive and selected degeneration of dopaminergic neurons in PD patients. In the present study, we have carried out global protein profiling through LC–MS/MS and miRNA profiling by using a “brain-specific” miRNA array panel of 112 miRNAs in PD patients and healthy controls to find the unprejudiced group of proteins and miRNAs that are deregulating in PD. In the whole blood samples of PD patients compared to healthy controls, the expression of 23 miRNAs and 289 proteins was significantly increased, whereas the expression of 4 miRNAs and 132 proteins was considerably downregulated. Network analysis, functional enrichment, annotation, and analysis of miRNA–protein interactions were also performed as part of the bioinformatics investigation of the discovered miRNAs and proteins revealing several pathways that lead to PD development and pathogenesis. Based on the analysis of miRNA and protein profiling, we have identified four miRNAs (hsa-miR-186-5p, miR-29b, miR-139 & has-miR-150-5p) and four proteins (YWHAZ, PSMA4, HYOU1, & SERPINA1), which can be targeted for the development of new biomarkers of PD. In vitro studies have identified the role of miR-186-5p in regulating the levels of the YWHAZ/YWHAB & CALM2 gene, which has shown maximum downregulation in PD patients and is known for its role in neuroprotection from apoptotic cell death & calcium regulation. In conclusion, our research has identified a group of miRNA–proteins that can be developed as PD biomarkers; however, future studies on the release of these miRNAs and proteins in extracellular vesicles circulating in the blood of PD patients can further validate these as specific biomarkers of PD. Graph