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Open AccessArticle

Transcriptome-Wide Analysis of CXCR5 Deficient Retinal Pigment Epithelial (RPE) Cells Reveals Molecular Signatures of RPE Homeostasis

1
Department of Ophthalmology, University of Missouri, Columbia, MO 65212, USA
2
Department of Ophthalmology, Institute for Clinical and Experimental Medicine, Faculty of Health Sciences, Linköping University, 58183 Linköping, Sweden
*
Author to whom correspondence should be addressed.
These authors contributed equally to this work.
Biomedicines 2020, 8(6), 147; https://doi.org/10.3390/biomedicines8060147
Received: 17 April 2020 / Revised: 30 May 2020 / Accepted: 31 May 2020 / Published: 1 June 2020
(This article belongs to the Section Tumor Cell Biology)
Age-related macular degeneration (AMD) is the most common cause of irreversible blindness in the elderly population. In our previous studies, we found that deficiency of CXCR5 causes AMD-like pathological phenotypes in mice, characterized by abnormalities and dysfunction of the retinal pigment epithelium (RPE) cells. The abnormalities included abnormal cellular shape and impaired barrier function. In the present study, primary RPE cells were derived separately from CXCR5 knockout (KO) mice and from C57BL6 wild type (WT). The isolated primary cells were cultured for several days, and then total RNA was isolated and used for library preparation, sequencing, and the resultant raw data analyzed. Relative to the WT, a total of 1392 differentially expressed genes (DEG) were identified. Gene ontology analysis showed various biological processes, cellular components, and molecular functions were enriched. Pathway enrichment analysis revealed several pathways, including the PI3K-Akt signaling, mTOR signaling, FoxO, focal adhesion, endocytosis, ubiquitin-mediated proteolysis, TNFα-NF-kB Signaling, adipogenesis genes, p53 signaling, Ras, autophagy, epithelial–mesenchymal transition (EMT), and mitochondrial pathway. This study explores molecular signatures associated with deficiency of CXCR5 in RPE cells. Many of these signatures are important for homeostasis of this tissue. The identified pathways and genes require further evaluation to better understand the pathophysiology of AMD. View Full-Text
Keywords: age-related macular degeneration; CXCR5; EMT; FoxO; Mitochondria; RNA-Seq; gene ontology; KEGG; retinal pigment epithelium age-related macular degeneration; CXCR5; EMT; FoxO; Mitochondria; RNA-Seq; gene ontology; KEGG; retinal pigment epithelium
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MDPI and ACS Style

Saddala, M.S.; Lennikov, A.; Mukwaya, A.; Huang, H. Transcriptome-Wide Analysis of CXCR5 Deficient Retinal Pigment Epithelial (RPE) Cells Reveals Molecular Signatures of RPE Homeostasis. Biomedicines 2020, 8, 147.

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