Exploration and identification of anoikis-related genes in polycythemia vera

Wufuer Aini; Limin Xie; Wanyu Hu; Yuan Tang; Hongling Peng; Guangsen Zhang; Tuo Deng

doi:10.3389/fgene.2023.1139351

Exploration and identification of anoikis-related genes in polycythemia vera

Front Genet. 2023 Feb 17:14:1139351. doi: 10.3389/fgene.2023.1139351. eCollection 2023.

Authors

Wufuer Aini^{1

2

3}, Limin Xie^{1

2

3}, Wanyu Hu^{1

2

3}, Yuan Tang^{1

2

3}, Hongling Peng^{4

5

6}, Guangsen Zhang⁵, Tuo Deng^{1

2

3}

Affiliations

¹ National Clinical Research Center for Metabolic Diseases, and Department of Metabolism and Endocrinology, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China.
² Key Laboratory of Diabetes Immunology, Ministry of Education, and Metabolic Syndrome Research Center, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China.
³ Clinical Immunology Center, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China.
⁴ Department of Hematology, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China.
⁵ Institute of Molecular Hematopathy, The Second Xiangya Hospital of Central South University, Changsha, Hunan, China.
⁶ Hunan Key Laboratory of Tumor Models and Individualized Medicine, Changsha, Hunan, China.

Abstract

Background: Polycythemia Vera (PV) is a type of typical Myeloproliferative Neoplasms (MPNs) characterized with excessive erythropoiesis and thrombosis. Anoikis is a special programmed cell death mode induced by the adhesion disorder between cells and extracellular matrix (ECM) or adjacent cells facilitating cancer metastasis. However, few studies have focused on the role of anoikis in PV, especially on the development of PV. Methods: The microarray and RNA-seq results were screened from the Gene Expression Omnibus (GEO) database and the anoikis-related genes (ARGs) were downloaded from Genecards. The functional enrichment analysis of intersecting differentially expressed genes (DEGs) and protein-protein interaction (PPI) network analysis were performed to discover hub genes. The hub genes expression was tested in the training (GSE136335) and validation cohort (GSE145802), and RT-qPCR was performed to verify the gene expression in PV mice. Results: In the training GSE136335, a total of 1,195 DEGs was obtained from Myeloproliferative Neoplasm (MPN) patients compared with controls, among which 58 were anoikis-related DEGs. The significant enrichment of the apoptosis and cell adhesion pathways (i.e., cadherin binding) were shown in functional enrichment analysis. The PPI network was conducted to identify top five hub genes (CASP3, CYCS, HIF1A, IL1B, MCL1). The expression of CASP3 and IL1B were significantly upregulated both in validation cohort and PV mice and downregulated after treatment, suggesting that CASP3 and IL1B could be important indicators for disease surveillance. Conclusion: Our research revealed a relationship between anoikis and PV for the first time by combined analysis of gene level, protein interaction and functional enrichment, allowing novel insights into mechanisms of PV. Moreover, CASP3 and IL1B may become promising indicators of PV development and treatment.

Keywords: anoikis-related genes; differentially expressed genes; hub genes; myeloproliferative neoplasms; protein-protein interaction.

Grants and funding

The National Natural Science Foundation of China, Key Program (82130024), the Science and Technology Innovation Program of Hunan Province (2020RC4009) and the Project of Innovation-Driven Plan of Central South University (2020CX015).