Next Article in Journal
Oncogenic K-ras Induces Mitochondrial OPA3 Expression to Promote Energy Metabolism in Pancreatic Cancer Cells
Next Article in Special Issue
Molecular Genetics of Renal Cell Tumors: A Practical Diagnostic Approach
Previous Article in Journal
Probiotic-Treated Super-Charged NK Cells Efficiently Clear Poorly Differentiated Pancreatic Tumors in Hu-BLT Mice
Previous Article in Special Issue
Prognostic and Predictive Value of PBRM1 in Clear Cell Renal Cell Carcinoma
Open AccessArticle

RNA Sequencing of Collecting Duct Renal Cell Carcinoma Suggests an Interaction between miRNA and Target Genes and a Predominance of Deregulated Solute Carrier Genes

1
Department of Urology and Pediatric Urology, University Hospital Erlangen, Friedrich-Alexander University Erlangen-Nürnberg, 91054 Erlangen, Germany
2
Institute of Molecular Medicine, Section for Molecular Cell Biology, Faculty of Medicine, Martin Luther University Halle-Wittenberg, 06120 Halle, Germany
3
Department of Pathology, University Hospital Erlangen, Friedrich-Alexander University Erlangen-Nürnberg, 91054 Erlangen, Germany
4
Laboratory of Systems Tumor Immunology, Department of Dermatology, University Hospital Erlangen, FAU Erlangen-Nürnberg, 91054 Erlangen, Germany
*
Authors to whom correspondence should be addressed.
These authors contributed equally to this work.
Cancers 2020, 12(1), 64; https://doi.org/10.3390/cancers12010064
Received: 28 November 2019 / Revised: 19 December 2019 / Accepted: 22 December 2019 / Published: 24 December 2019
(This article belongs to the Special Issue Renal Cell Carcinoma)
Collecting duct carcinoma (CDC) is a rare renal cell carcinoma subtype with a very poor prognosis. There have been only a few studies on gene expression analysis in CDCs. We compared the gene expression profiles of two CDC cases with those of eight normal tissues of renal cell carcinoma patients. At a threshold of |log2fold-change| ≥1, 3349 genes were upregulated and 1947 genes were downregulated in CDCs compared to the normal samples. Pathway analysis of the deregulated genes revealed that cancer pathways and cell cycle pathways were most prominent in CDCs. The most upregulated gene was keratin 17, and the most downregulated gene was cubilin. Among the most downregulated genes were four solute carrier genes (SLC3A1, SLC9A3, SLC26A7, and SLC47A1). The strongest negative correlations between miRNAs and mRNAs were found between the downregulated miR-374b-5p and its upregulated target genes HIST1H3B, HK2, and SLC7A11 and between upregulated miR-26b-5p and its downregulated target genes PPARGC1A, ALDH6A1, and MARC2. An upregulation of HK2 and a downregulation of PPARGC1A, ALDH6A1, and MARC2 were observed at the protein level. Survival analysis of the cancer genome atlas (TCGA) dataset showed for the first time that low gene expression of MARC2, cubilin, and SLC47A1 and high gene expression of KRT17 are associated with poor overall survival in clear cell renal cell carcinoma patients. Altogether, we identified dysregulated protein-coding genes, potential miRNA-target interactions, and prognostic markers that could be associated with CDC. View Full-Text
Keywords: collecting duct carcinoma; RNA sequencing; solute carrier proteins collecting duct carcinoma; RNA sequencing; solute carrier proteins
Show Figures

Figure 1

MDPI and ACS Style

Wach, S.; Taubert, H.; Weigelt, K.; Hase, N.; Köhn, M.; Misiak, D.; Hüttelmaier, S.; Stöhr, C.G.; Kahlmeyer, A.; Haller, F.; Vera, J.; Hartmann, A.; Wullich, B.; Lai, X. RNA Sequencing of Collecting Duct Renal Cell Carcinoma Suggests an Interaction between miRNA and Target Genes and a Predominance of Deregulated Solute Carrier Genes. Cancers 2020, 12, 64. https://doi.org/10.3390/cancers12010064

AMA Style

Wach S, Taubert H, Weigelt K, Hase N, Köhn M, Misiak D, Hüttelmaier S, Stöhr CG, Kahlmeyer A, Haller F, Vera J, Hartmann A, Wullich B, Lai X. RNA Sequencing of Collecting Duct Renal Cell Carcinoma Suggests an Interaction between miRNA and Target Genes and a Predominance of Deregulated Solute Carrier Genes. Cancers. 2020; 12(1):64. https://doi.org/10.3390/cancers12010064

Chicago/Turabian Style

Wach, Sven; Taubert, Helge; Weigelt, Katrin; Hase, Nora; Köhn, Marcel; Misiak, Danny; Hüttelmaier, Stefan; Stöhr, Christine G.; Kahlmeyer, Andreas; Haller, Florian; Vera, Julio; Hartmann, Arndt; Wullich, Bernd; Lai, Xin. 2020. "RNA Sequencing of Collecting Duct Renal Cell Carcinoma Suggests an Interaction between miRNA and Target Genes and a Predominance of Deregulated Solute Carrier Genes" Cancers 12, no. 1: 64. https://doi.org/10.3390/cancers12010064

Find Other Styles
Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Article Access Map by Country/Region

1
Search more from Scilit
 
Search
Back to TopTop