Characterizing genes associated with cancer using the CRISPR/Cas9 system: A systematic review of genes and methodological approaches

Gonzalez-Salinas, Fernando; Martínez-Amador, Claudia; Treviño, Víctor

doi:10.1016/j.gene.2022.146595

Cited by 8 publications

(3 citation statements)

References 289 publications

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“…In a systematic review, we have reported that the MCF-7 cell line is the most widely used model in breast cancer, studying mutations by CRISPR/Cas9 [44]. MCF-7 represents Luminal A type of breast cancer [45].…”

Section: Discussionmentioning

confidence: 99%

Heterozygous Knockout of ARID4B Using CRISPR/Cas9 Attenuates Some Aggressive Phenotypes in a Breast Cancer Cell Line

Gonzalez-Salinas,

Herrera-Gamboa,

Rojo

et al. 2023

Genes

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Breast cancer is one of the leading causes of death in women around the world. Over time, many genes and mutations that are associated with the development of this disease have been identified. However, the specific role of many genes has not yet been fully elucidated. Higher ARID4B expression has been identified as a risk factor for diverse cancer types. Silencing experiments also showed that ARID4B is associated with developing cancer-associated characteristics. However, no transcriptomic studies have shown the overall cellular effect of loss of function in breast cancer in humans. This study addresses the impact of loss-of-function mutations in breast cancer MCF-7 cells. Using the CRISPR/Cas9 system, we generated mutations that caused heterozygous truncated proteins, isolating three monoclonal lines carrying insertions and deletions in ARID4B. We observed reduced proliferation and migration in in vitro experiments. In addition, from RNA-seq assays, a differential expression analysis shows known and novel deregulated cancer-associate pathways in mutated cells supporting the impact of ARID4B. For example, we found the AKT-PI3K pathway to be altered at the transcript level but through different genes than those reported for ARID4B. Our transcriptomic results also suggest new insights into the role of ARID4B in aggressiveness by the epithelial-to-mesenchymal transition and TGF-β pathways and in metabolism through cholesterol and mevalonate pathways. We also performed exome sequencing to show that no off-target effects were apparent. In conclusion, the ARID4B gene is associated with some aggressive phenotypes in breast cancer cells.

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Section: Discussionmentioning

confidence: 99%

Heterozygous Knockout of ARID4B Using CRISPR/Cas9 Attenuates Some Aggressive Phenotypes in a Breast Cancer Cell Line

Gonzalez-Salinas,

Herrera-Gamboa,

Rojo

et al. 2023

Genes

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“…In cancer, the CRISPR/Cas9 technology has been utilized to characterize genes and examine many carcinogenesis-related pathways ( Gonzalez-Salinas et al, 2022 ). Although CRISPR/Cas9-based downregulation has advantages such as high efficiency, easy assembly, and negligible off-target effects, it is restricted by poor specificity and PAM restriction ( Lu et al, 2021 ).…”

Section: Methods To Knockdown Dclk1mentioning

confidence: 99%

Pleiotropic effects of DCLK1 in cancer and cancer stem cells

Chhetri

Vengadassalapathy

Venkadassalapathy

et al. 2022

Front. Mol. Biosci.

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Doublecortin-like kinase 1 (DCLK1), a protein molecule, has been identified as a tumor stem cell marker in the cancer cells of gastrointestinal, pancreas, and human colon. DCLK1 expression in cancers, such as breast carcinoma, lung carcinoma, hepatic cell carcinoma, tuft cells, and human cholangiocarcinoma, has shown a way to target the DCLK1 gene and downregulate its expression. Several studies have discussed the inhibition of tumor cell proliferation along with neoplastic cell arrest when the DCLK1 gene, which is expressed in both cancer and normal cells, was targeted successfully. In addition, previous studies have shown that DCLK1 plays a vital role in various cancer metastases. The correlation of DCLK1 with numerous stem cell receptors, signaling pathways, and genes suggests its direct or an indirect role in promoting tumorigenesis. Moreover, the impact of DCLK1 was found to be related to the functioning of an oncogene. The downregulation of DCLK1 expression by using targeted strategies, such as embracing the use of siRNA, miRNA, CRISPR/Cas9 technology, nanomolecules, specific monoclonal antibodies, and silencing the pathways regulated by DCLK1, has shown promising results in both in vitro and in vivo studies on gastrointestinal (GI) cancers. In this review, we will discuss about the present understanding of DCLK1 and its role in the progression of GI cancer and metastasis.

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“…Clustered regularly interspaced short palindromic repeats (CRISPR) and CRISPR-associated protein 9 (Cas9) gene editing is a helpful strategy for studying the function of proteins [ 24 , 25 ]. It has been used for understanding the role of Tn antigen in tumor development by knocking out Cosmc , a strategy that efficiently induces expression of the Tn antigen [ 8 , 9 , 26 , 27 ].…”

Section: Introductionmentioning

confidence: 99%

Lung Tumor Cells with Different Tn Antigen Expression Present Distinctive Immunomodulatory Properties

Costa

Mariño

Rodríguez-Zraquia

et al. 2022

IJMS

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Lung cancer is the first leading cause of cancer-related deaths in the world. Aberrant glycosylation in lung tumors leads to the expression of tumor-associated carbohydrate structures, such as the Tn antigen, consisting of N-acetyl-galactosamine (GalNAc) linked to a serine or threonine residue in proteins (α-GalNAc-O-Ser/Thr). The Tn antigen can be recognized by the Macrophage Galactose/GalNAc lectin (MGL), which mediates various immune regulatory and tolerogenic functions, mainly by reprogramming the maturation of function of dendritic cells (DCs). In this work, we generated two different Tn-expressing variants from the Lewis-type lung murine cancer cell line LL/2, which showed different alterations in the O-glycosylation pathways that influenced the interaction with mouse MGL2 and the immunomodulatory properties of DCs. Thus, the identification of the biological programs triggered by Tn+ cancer cells might contribute to an improved understanding of the molecular mechanisms elicited by MGL-dependent immune regulatory circuits.

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Characterizing genes associated with cancer using the CRISPR/Cas9 system: A systematic review of genes and methodological approaches

Cited by 8 publications

References 289 publications

Heterozygous Knockout of ARID4B Using CRISPR/Cas9 Attenuates Some Aggressive Phenotypes in a Breast Cancer Cell Line

Heterozygous Knockout of ARID4B Using CRISPR/Cas9 Attenuates Some Aggressive Phenotypes in a Breast Cancer Cell Line

Pleiotropic effects of DCLK1 in cancer and cancer stem cells

Lung Tumor Cells with Different Tn Antigen Expression Present Distinctive Immunomodulatory Properties

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