A functional SNP in the 3′‐UTR of TAP2 gene interacts with microRNA hsa‐miR‐1270 to suppress the gene expression

Knox, Bridgett; Wang, Yong; Rogers, Lora J.; Xuan, Jiekun; Yu, Dianke; Guan, Huaijin; Chen, Jiwei; Shi, Tieliu; Ning, Baitang; Kadlubar, Susan

doi:10.1002/em.22159

Cited by 33 publications

(15 citation statements)

References 56 publications

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“…In the present study, bioinformatics analysis, RNA pull-down, and FISH experiments confirmed that Cdr1as could adsorb miR-1270 in bladder cancer. Although miR-1270 in tumors is rarely reported (Knox et al, 2018;Zhong et al, 2018), our study found that miR-1270 expression is higher in tumor tissues than in adjacent normal tissues. We also discovered that upregulated miR-1270 inhibits cell apoptosis and significantly reduces the cisplatin chemosensitivity of T24 and EJ cells.…”

Section: Discussioncontrasting

confidence: 49%

Circular RNA Cdr1as sensitizes bladder cancer to cisplatin by upregulating APAF1 expression through miR‐1270 inhibition

et al. 2019

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Circular RNAs (circRNAs) have recently emerged as essential regulators in carcinogenesis and cancer progression. Previous studies have shown that Cdr1as functions as a microRNA (miRNA) sponge in various cancer types. However, the role of Cdr1as in cisplatin chemosensitivity in bladder cancer remains unclear. Here, we used real‐time PCR to examine miRNA and gene expression in bladder cancer tissues and cell lines. The abilities of Cdr1as and its downstream regulatory molecules to induce apoptosis and promote cisplatin‐induced chemosensitivity of bladder cancer cells were determined by flow cytometry and cell counting kit. Bioinformatic analysis was utilized to predict potential miRNA target sites, and biotin‐coupled miRNA capture, biotin‐coupled probe pull‐down assay, and RNA fluorescent in situ hybridization were used to study the interaction between Cdr1as and target miRNAs. Dual‐luciferase reporter assay was also used to validate the target genes of miRNAs. The expression level of apoptotic protease‐activating factor 1 (APAF1) in bladder cancer cells was identified via western blot. Finally, the sensitivity of Cdr1as to cisplatin chemotherapy in nude mice xenografts was evaluated in terms of the size, volume of tumors, and the survival of mice. We report that Cdr1as induced the apoptosis and enhanced the cisplatin chemosensitivity of bladder cancer cells both in vitro and in vivo . Silencing of APAF1 reduced the sensitivity of bladder cancer cells to cisplatin chemotherapy. Furthermore, Cdr1as could directly sponge miR‐1270 and abolish its effect on APAF1. Our study verified that Cdr1as exerts a cisplatin‐chemosensitization effect on bladder cancer cells through the Cdr1as/miR‐1270/APAF1 axis. This newly identified axis may be a potential therapeutic target for bladder cancer patients.

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Section: Discussioncontrasting

confidence: 49%

Circular RNA Cdr1as sensitizes bladder cancer to cisplatin by upregulating APAF1 expression through miR‐1270 inhibition

et al. 2019

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“…The PolymiRTS database 3.0 ( http://compbio.uthsc.edu/miRSNP ) and miRNA Target Detection ( http://www.microrna.org/microrna/getGeneForm.do ) were used to predict the candidate miRNAs which bind the selected 3′-UTR sequences. LD analysis was analyzed based on the 1000 Genomes data for the CEU population using the SNP Annotation and Proxy (SNAP) tool ( http://www.broadinstitute.org/mpg/snap ) 31 . An online software, the RNAhybrid program ( http://bibiserv.techfak.uni-bielefeld.de/rnahybrid ), was employed to calculate the minimum free energy (MFE) of hybridization between miRNAs and their potential target sequences with MFE < −20 kcal/mol as the threshold were selected according previous study 29 , 31 .…”

Section: Methodsmentioning

confidence: 99%

MicroRNA binding mediated Functional sequence variant in 3′-UTR of DNA repair Gene XPC in Age-related Cataract

Zou

Kang

Yang

et al. 2018

Sci Rep

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DNA oxidative damage repair is strongly involved in the pathogenesis of age-related cataract (ARC). The sequence variants of in coding region of DNA repair genes have been shown to be associated with ARC. It is known that single nucleotide polymorphisms (SNPs) in the 3′-terminal untranslated region (3′-UTR) can alter the gene expression by binding with microRNAs (miRNAs). We hypothesize that SNP(s) in miRNA binding site of certain DNA oxidative damage repair genes might associate with ARC risk. We examined 10 miRNA binding SNPs in 3′-UTR of 7 oxidative damage genes and revealed the XPC- rs2229090 C allele was associated with nuclear type of ARC (ARNC) risk in Chinese population. The individuals with the variant G allele (CG and GG) of XPC- rs2229090 had higher XPC mRNA expression compared to individuals carrying CC genotype. The in vitro assay showed that luciferase reporter gene expression can be down regulated by hsa-miR-589-5p in cells transfected with rs2229090 C allele compared to G allele. These results suggested that the C allele of XPC-2229090 increase the risk with ARNC. The mechanism underlying might be due to the stronger interation of the C allele with hsa-miR-589-5p, resulting in lower XPC expression and DNA repair capability than the individuals carring G allele in lens.

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“…Our results suggest for the first time that individuals with T allele of FAM20B (rs3766626) appear to have a low risk of mesiodens, which was located in the 3′ untranslated region (3′ UTR) of corresponding gene. Although it isn’t translated into protein, previous and recent studies showed that variant in 3′ UTR region could impact the expression of mRNA [33, 34].…”

Section: Discussionmentioning

confidence: 99%

Lack of association between PAX6/SOSTDC1/FAM20B gene polymorphisms and mesiodens

Liu

et al. 2019

BMC Oral Health

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Background The purpose of this study was to analyze the association between the genetic polymorphism of genes ( PAX6 , SOSTDC1 and FAM20B ) and the susceptibility to mesiodens. Methods This study was carried out on 50 patients with mesiodens and 50 controls. The family history of each patient with mesiodens were recorded. Genomic DNA was extracted from saliva samples, and single nucleotide polymorphisms were detected in all exons and exon/intron boundaries of PAX6 , SOSTDC1 and FAM20B using Sanger sequencing. The data were analyzed using pearson chi-square test with theoretical frequency ≥ 5. For theoretical frequency less than 5 but at least 1 (≤20% cell), the data were analyzed by continuity correction. For the rest, Fisher’s Exact test was used. A P -value< 0.05 was considered statistically significant. The Odds ratio (OR) and confidence intervals (CI) were recorded. Results Three polymorphisms were detected in PAX6 . Two polymorphisms were detected in SOSTDC1 . Twenty-nine polymorphisms were detected in FAM20B . Although, the T allele of FAM20B (rs3766626) appears to be associated with mesiodens ( P = 0.051), there were no significant differences of PAX6 / SOSTDC1 / FAM20B gene polymorphisms between the two groups. The T allele of FAM20B (rs3766626) was associated with susceptibility to two mesiodens ( P < 0.001; OR = 8.333; CI = 2.516–27.600). Conclusions Lack of association between PAX6 / SOSTDC1 / FAM20B gene polymorphisms and mesiodens in the population studied was detected. Further studies with large samples on T allele of FAM20B (rs3766626) are needed. Electronic supplementary material The online version of this article (10.1186/s12903-019-0788-3) contains supplementary material, which is available to authorized users.

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A functional SNP in the 3′‐UTR of TAP2 gene interacts with microRNA hsa‐miR‐1270 to suppress the gene expression

Cited by 33 publications

References 56 publications

Circular RNA Cdr1as sensitizes bladder cancer to cisplatin by upregulating APAF1 expression through miR‐1270 inhibition

Circular RNA Cdr1as sensitizes bladder cancer to cisplatin by upregulating APAF1 expression through miR‐1270 inhibition

MicroRNA binding mediated Functional sequence variant in 3′-UTR of DNA repair Gene XPC in Age-related Cataract

Lack of association between PAX6/SOSTDC1/FAM20B gene polymorphisms and mesiodens

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