Skip to main content

Transcriptomic and Proteomic Analysis of Clear Cell Foci (CCF) in the Human Non-Cirrhotic Liver Identifies Several Differentially Expressed Genes and Proteins with Functions in Cancer Cell Biology and Glycogen Metabolism.

Publication ,  Journal Article
Metzendorf, C; Wineberger, K; Rausch, J; Cigliano, A; Peters, K; Sun, B; Mennerich, D; Kietzmann, T; Calvisi, DF; Dombrowski, F; Ribback, S
Published in: Molecules
September 10, 2020

Clear cell foci (CCF) of the liver are considered to be pre-neoplastic lesions of hepatocellular adenomas and carcinomas. They are hallmarked by glycogen overload and activation of AKT (v-akt murine thymoma viral oncogene homolog)/mTOR (mammalian target of rapamycin)-signaling. Here, we report the transcriptome and proteome of CCF extracted from human liver biopsies by laser capture microdissection. We found 14 genes and 22 proteins differentially expressed in CCF and the majority of these were expressed at lower levels in CCF. Using immunohistochemistry, the reduced expressions of STBD1 (starch-binding domain-containing protein 1), USP28 (ubiquitin-specific peptidase 28), monad/WDR92 (WD repeat domain 92), CYB5B (Cytochrome b5 type B), and HSPE1 (10 kDa heat shock protein, mitochondrial) were validated in CCF in independent specimens. Knockout of Stbd1, the gene coding for Starch-binding domain-containing protein 1, in mice did not have a significant effect on liver glycogen levels, indicating that additional factors are required for glycogen overload in CCF. Usp28 knockout mice did not show changes in glycogen storage in diethylnitrosamine-induced liver carcinoma, demonstrating that CCF are distinct from this type of cancer model, despite the decreased USP28 expression. Moreover, our data indicates that decreased USP28 expression is a novel factor contributing to the pre-neoplastic character of CCF. In summary, our work identifies several novel and unexpected candidates that are differentially expressed in CCF and that have functions in glycogen metabolism and tumorigenesis.

Duke Scholars

Altmetric Attention Stats
Dimensions Citation Stats

Published In

Molecules

DOI

EISSN

1420-3049

Publication Date

September 10, 2020

Volume

25

Issue

18

Location

Switzerland

Related Subject Headings

  • Transcriptome
  • Proteomics
  • Organic Chemistry
  • Liver Neoplasms
  • Liver Diseases
  • Immunohistochemistry
  • Humans
  • Glycogen
  • Gene Expression Profiling
  • Computational Biology
 

Citation

APA
Chicago
ICMJE
MLA
NLM
Metzendorf, C., Wineberger, K., Rausch, J., Cigliano, A., Peters, K., Sun, B., … Ribback, S. (2020). Transcriptomic and Proteomic Analysis of Clear Cell Foci (CCF) in the Human Non-Cirrhotic Liver Identifies Several Differentially Expressed Genes and Proteins with Functions in Cancer Cell Biology and Glycogen Metabolism. Molecules, 25(18). https://doi.org/10.3390/molecules25184141
Metzendorf, Christoph, Katharina Wineberger, Jenny Rausch, Antonio Cigliano, Kristin Peters, Baodong Sun, Daniela Mennerich, et al. “Transcriptomic and Proteomic Analysis of Clear Cell Foci (CCF) in the Human Non-Cirrhotic Liver Identifies Several Differentially Expressed Genes and Proteins with Functions in Cancer Cell Biology and Glycogen Metabolism.Molecules 25, no. 18 (September 10, 2020). https://doi.org/10.3390/molecules25184141.
Metzendorf C, Wineberger K, Rausch J, Cigliano A, Peters K, Sun B, Mennerich D, Kietzmann T, Calvisi DF, Dombrowski F, Ribback S. Transcriptomic and Proteomic Analysis of Clear Cell Foci (CCF) in the Human Non-Cirrhotic Liver Identifies Several Differentially Expressed Genes and Proteins with Functions in Cancer Cell Biology and Glycogen Metabolism. Molecules. 2020 Sep 10;25(18).

Published In

Molecules

DOI

EISSN

1420-3049

Publication Date

September 10, 2020

Volume

25

Issue

18

Location

Switzerland

Related Subject Headings

  • Transcriptome
  • Proteomics
  • Organic Chemistry
  • Liver Neoplasms
  • Liver Diseases
  • Immunohistochemistry
  • Humans
  • Glycogen
  • Gene Expression Profiling
  • Computational Biology