Integrative analysis of differentially expressed mRNAs and proteins induced by PGC-1β in breast cancer cells

• Published in: Biochemical and biophysical research communications 2022-12, Vol.637, p.73-82
• Main Authors: Wang, Li-bin, Zhao, Ju-fen, Cao, Jia, Tao, Xiang, Wang, Jia, Ma, Rong, Huang, Qi, Yu, Jing-jing, Tian, Jin-hai, Zhang, Qing-hua
• Format: Article
• Language: English
• Subjects: Breast cancer; Breast Neoplasms - genetics; Breast Neoplasms - metabolism; Female; Humans; Integrative analysis; MCF-7 Cells; Peroxisomes - metabolism; PGC-1β; Proteome; RNA, Messenger - genetics; RNA-Binding Proteins - metabolism; Transcription Factors - genetics; Transcription Factors - metabolism; Transcriptome
• ISSN: 0006-291X; 1090-2104
• DOI: 10.1016/j.bbrc.2022.11.007

Breast cancer is one of the most frequent malignancies in females. The molecular mechanism of how breast cancer development and recurrence still need to be explored. Peroxisome gamma coactivator-1β (PGC-1β) was engaged in cancer energy metabolism and tumor genesis. However, the mechanisms of PGC-1β in breast cancer have not been fully understood. In this study, PCG-1β overexpressed and knockdown vectors were transferred into MCF-7 cells. With the association-quantitative connection analysis, the different expressions of mRNAs and proteins were examined. Additionally, the terms on differentially expressed mRNAs and proteins were enriched by GO and KEGG. Based on the results, 1872 differentially expressed genes were identified in the up-regulated of PGC-1β group, and 1318 genes were found in the down-regulated of PGC-1β cells. With the label-free technique, 221 differentially expressed proteins were screened in PGC-1β up-regulated group, and 459 proteins were identified in PGC-1β down-regulated group. Correlation analysis showed that 49 significantly expressed mRNA-protein pairs in OV vs CT groups and 25 paired in SI vs CT groups. Combined analysis of transcriptome and proteome demonstrated that PGC-1β plays a important role in cancer energy metabolism and boosting the pace of chemical processes in the proliferation of breast cancer cells. Additional investigation about PGC-1β and energy metabolism in cancer cells may shed fresh light on the growth and treatment of breast cancer cells. •High-throughput sequencing and bioinformatics analysis were used to find the gene and protein pairs induced by PGC-1β.•The functions of selected gene and protein pairs in breast cancer cell metabolism were analyzed.•NDUFB9, IDH3B was the PGC-1β target gene which related to the breast cancer cells energy metabolism.