FTHL17, PRM2, CABYR, CPXCR1, ADAM29, and CABS1 are highly expressed in colon cancer patients and are regulated in vitro by epigenetic alterations

Alrubie, Turki M.; Shaik, Jilani P.; Alamri, Abdullah M.; Alanazi, Mohammad; Alshareeda, Alaa T.; alqarni, Ayyob; Alawfi, Homoud G.; Almaiman, Sarah M.; Almutairi, Mikhlid H.

doi:10.1016/j.heliyon.2023.e23689

Cited by 3 publications

(1 citation statement)

References 22 publications

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“…Together with other experiments it was suggested that ADAM32 may play a role in apoptosis signaling in these cells. ADAM29, although normally expressed in the testes, has been implicated in a variety of cancers, including colon cancer ( Alrubie et al, 2024 ), esophageal cancer ( Song et al, 2014 ; Wang et al, 2020 ), breast cancer ( Purrington et al, 2014 ; Zhao et al, 2016 ), melanoma ( Wei et al, 2011 ), and chronic lymphocytic leukemia ( Oppezzo et al, 2005 ; Kienle et al, 2010 ).…”

Section: M12 Adamsmentioning

confidence: 99%

Inactive metallopeptidase homologs: the secret lives of pseudopeptidases

Lyons

2024

Front. Mol. Biosci.

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Inactive enzyme homologs, or pseudoenzymes, are proteins, found within most enzyme families, that are incapable of performing catalysis. Rather than catalysis, they are involved in protein-protein interactions, sometimes regulating the activity of their active enzyme cousins, or scaffolding protein complexes. Pseudoenzymes found within metallopeptidase families likewise perform these functions. Pseudoenzymes within the M14 carboxypeptidase family interact with collagens within the extracellular space, while pseudopeptidase members of the M12 “a disintegrin and metalloprotease” (ADAM) family either discard their pseudopeptidase domains as unnecessary for their roles in sperm maturation or utilize surface loops to enable assembly of key complexes at neuronal synapses. Other metallopeptidase families contain pseudopeptidases involved in protein synthesis at the ribosome and protein import into organelles, sometimes using their pseudo-active sites for these interactions. Although the functions of these pseudopeptidases have been challenging to study, ongoing work is teasing out the secret lives of these proteins.

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Section: M12 Adamsmentioning

confidence: 99%

Inactive metallopeptidase homologs: the secret lives of pseudopeptidases

Lyons

2024

Front. Mol. Biosci.

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Identification and analysis of key genes related to efferocytosis in colorectal cancer

Zhang,

Jiang,

Shi

et al. 2024

BMC Med Genomics

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The impact of efferocytosis-related genes (ERGs) on the diagnosis of colorectal cancer (CRC) remains unclear. In this study, efferocytosis-associated biomarkers for the diagnosis of CRC were identified by integrating data from transcriptome sequencing and public databases. Finally, the expression of biomarkers was validated by real-time quantitative polymerase chain reaction (RT-qPCR). Our study may provide a reference for CRC diagnosis. Background It has been shown that some efferocytosis related genes (ERGs) are associated with the development of cancer. However, it is still uncertain how ERGs may influence the diagnosis of colorectal cancer (CRC). Methods In our study, the CRC cohorts were gained from transcriptome sequencing and the gene expression omnibus (GEO) database (GSE71187). Efferocytosis related biomarkers with diagnostic utility for CRC were identified through combining differentially expressed analysis, machine learning algorithms, and receiver operating characteristic (ROC) analysis. Then, infiltration abundance of immune cells between CRC and control was evaluated. The regulatory networks (including mRNA-miRNA-lncRNA and miRNA/transcription factors (TF)-mRNA networks) were created. Finally, the expression of biomarkers was validated via real-time quantitative polymerase chain reaction (RT-qPCR). Results There were 3 biomarkers (ELMO3 , P2RY12 , and PDK4 ) related diagnosis for CRC patients gained. ELMO3 was highly expressed in CRC group, while P2RY12 and PDK4 was lowly expressed. Besides, the infiltrating abundance of 3 immune cells between CRC and control groups was significantly differential, namely activated CD4 memory T cells, macrophages M0, and resting mast cells. We then constructed a mRNA-miRNA-lncRNA network containing 3 mRNAs, 33 miRNAs, and 22 lncRNAs, and a miRNA/TF-mRNA network including 3 mRNAs, 33 miRNAs, and 7 TFs. Additionally, RT-qPCR results revealed that the expression trends of all biomarkers were consistent with the transcriptome sequencing data and GSE71187. Conclusion Taken together, this study provides three efferocytosis related biomarkers ( ELMO3 , P2RY12 , and PDK4 ) for diagnosis of CRC, providing a scientific reference for further studies of CRC. Supplementary Information The online version contains supplementary material available at 10.1186/s12920-024-01967-8.

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Increased MAGE-C Family Gene Expression Levels as a Biomarker of Colon Cancer Through the Demethylation Mechanism

Almutairi,

Alsoraie,

Alrubie

et al. 2024

Pharmaceuticals

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Background/Objectives: Colon cancer (CC) in Saudi Arabia is associated with a high death rate and is commonly identified at a more progressive stage. Therefore, it is critical to identify and characterize potential novel cancer-specific biomarkers to enhance early CC diagnosis. The goal was to assess their potential use as cancer biomarkers for the early detection and improvement of CC treatment. Methods: MAGE-C1, MAGE-C2, and MAGE-C3 family gene expression levels were examined using RT-PCR and qRT-PCR assays in 26 adjacent normal colon (NC) and CC tissue samples from male and female Saudi patients. Using several cell lines and the qRT-PCR technique, epigenetic control was also investigated to determine whether reduced treatment with 5-aza-2′-deoxycytidine, which reduces DNA methyltransferase, can increase the expression of the MAGE-C gene. The expression levels, promoter methylation, and prognostic significance of MAGE-C1, MAGE-C2, and MAGE-C3 genes across various cancers were analyzed using The Cancer Genome Atlas (TCGA) data. Additionally, the prognostic significance of these genes was assessed through Kaplan–Meier survival analysis. Results: The RT-PCR results showed that MAGE-C1, MAGE-C2, and MAGE-C3 gene expressions were significantly higher in the CC and NC tissues. The MAGE-C1 expression level was the highest in CC tissues (p < 0.0001), followed by MAGE-C3 (p = 0.0004) and MAGE-C2 (p = 0.0020) in descending order. The 5-aza-2′-deoxycytidine treatment significantly increased the mRNA expression levels of the MAGE-C1, MAGE-C2, and MAGE-C3 genes in HCT116, Caco-2, MCF-7, and MCF-10A cells. Expression analyses of TCGA samples revealed significant upregulation of these genes in several cancer types, with notable differences between normal, tumor, and metastatic tissues. Promoter methylation indicates hypomethylation in cancerous tissues. Survival analyses show that high expression levels of MAGE-C1 correlate with better prognosis, while MAGE-C3 is associated with poorer outcomes. Conclusions: These results demonstrate that MAGE-C genes are viable prospective biomarkers of CC controlled by hypomethylating drugs, consequently offering a possible treatment target for CC in a specific population.

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FTHL17, PRM2, CABYR, CPXCR1, ADAM29, and CABS1 are highly expressed in colon cancer patients and are regulated in vitro by epigenetic alterations

Cited by 3 publications

References 22 publications

Inactive metallopeptidase homologs: the secret lives of pseudopeptidases

Inactive metallopeptidase homologs: the secret lives of pseudopeptidases

Identification and analysis of key genes related to efferocytosis in colorectal cancer

Increased MAGE-C Family Gene Expression Levels as a Biomarker of Colon Cancer Through the Demethylation Mechanism

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