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01.12.2017 | Research | Ausgabe 1/2017 Open Access

Journal of Translational Medicine 1/2017

Prostate cancer small non-coding RNA transcriptome in Arabs

Zeitschrift:
Journal of Translational Medicine > Ausgabe 1/2017
Autoren:
Jingxuan Shan, Khalid Al-Rumaihi, Karim Chouchane, Issam Al-Bozom, Danny Rabah, Karim Farhat, Lotfi Chouchane
Wichtige Hinweise

Electronic supplementary material

The online version of this article (https://​doi.​org/​10.​1186/​s12967-017-1362-x) contains supplementary material, which is available to authorized users.

Abstract

Background

Prostate cancer (PCa) is a complex disorder resulting from the combined effects of multiple environmental and genetic factors. Small non-coding RNAs (sRNAs), particularly microRNAs (miRNAs), regulate several cellular processes and have an important role in many human malignancies including PCa. We assessed the sRNA profiles associated with PCa in Arabs, a population that has rarely been studied.

Methods

We used next generation sequencing technology to obtain the entire sRNA transcriptome of primary prostate tumor formalin-fixed paraffin-embedded tissues, and their paired non-tumor tissues, collected from Bedouin patients (Qatari and Saudi). The miRNA and the target gene expression were evaluated by real-time quantitative PCR. miRNA KEGG pathway and miRNA target genes were subsequently analyzed by starBase and TargetScan software.

Results

Different expression patterns of several sRNA and miRNA editing were revealed between PCa tumor and their paired non-tumor tissues. Our study identified four miRNAs that are strongly associated with prostate cancer, which have not been reported previously. Differentially expressed miRNAs significantly affect various biological pathways, such as cell cycle, endocytosis, adherence junction and pathways involved in cancer. Prediction of potential targets for the identified miRNAs indicates the overexpression of KRAS, BCL2 and down-regulation of PTEN in PCa tumor tissues.

Conclusion

These miRNAs, newly associated with prostate cancer, may represent not only markers for the increased risk of PCa in Arabs, but may also reflect the clinical and pathological diversity as well as the ethno-specific heterogeneity of prostate cancer.
Zusatzmaterial
Additional file 1: Figure S1. Average NGS reads length distribution Q:Qatar S: Saudi Arabia N: Non-tumor T: Tumor. Figure S2. Scatter Plot of miRNAs in each pair of samples. Each point represents a miRNA. The X axis and Y axis show expression level of miRNAs in tumor and non-tumor tissues respectively. Red points represents miRNAs with ratio > 2; blue points represents miRNAs with 1/2 < ratio ≤2; green points represents miRNAs with ratio ≤1/2. Table S1. Patient information. Table S2. Primer sequence. Table S3. The filtered NGS reads mapped to genome.
Additional file 3. miRNA expression comparison in each pair of PCa samples.
Additional file 4. miRNA editing summary.
Literatur
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