| Literature DB >> 31057610 |
Jing Wang1,2, Guo-Feng Xie1,2, Yuan He1,2, Ling Deng2, Ya-Kang Long2, Xin-Hua Yang2, Jiang-Jun Ma2, Rui Gong1,2, Wen-Jian Cen2, Zu-Lu Ye2, Yi-Xin Zeng1, Hai-Yun Wang1,2, Jian-Yong Shao1,2.
Abstract
INTRODUCTION: Nasopharyngeal carcinoma (NPC) is a distinct type of head and neck cancer which is mostly prevalent in southern China. The development of NPC involves accumulation of multiple genetic changes. Chromosomal translocation is always thought to be accompanied with the fusion chimeric products. To data, the role of the fusion chimeric transcript remains obscure.Entities:
Year: 2019 PMID: 31057610 PMCID: PMC6463592 DOI: 10.1155/2019/1654724
Source DB: PubMed Journal: J Oncol ISSN: 1687-8450 Impact factor: 4.375
60 transcripts of fusion genes discovered by NGS including 28 inter- and 32 intrachromosomal fusions from ten FFPE NPC tissues.
| up_gene | up_chr | down_gene | down_chr | Fusion_Type |
|---|---|---|---|---|
| IGKC | chr2 | CALR | chr19 | INTERCHR-DS |
| IGKJ5 | chr2 | CALR | chr19 | INTERCHR-DS |
| MALAT1 | chr11 | RFWD2 | chr1 | INTERCHR-DS |
| MRPS18A | chr6 | C5orf25 | chr5 | INTERCHR-DS |
| RN7SL1 | chr14 | IGKC | chr2 | INTERCHR-DS |
| RN7SL1 | chr14 | IGKJ5 | chr2 | INTERCHR-DS |
| RNU6-1 | chr15 | SNORD3A | chr17 | INTERCHR-DS |
| RNU6-33 | chr4 | SNORD3A | chr17 | INTERCHR-DS |
| RNU6-42 | chr3 | RPS3 | chr11 | INTERCHR-DS |
| RNU6-42 | chr3 | SNORD15A | chr11 | INTERCHR-DS |
| RNU6-42 | chr3 | SNORD3A | chr17 | INTERCHR-DS |
| SAMD12 | chr8 | ATP10D | chr4 | INTERCHR-DS |
| ATP1B2 | chr17 | HSD17B12 | chr11 | INTERCHR-SS |
| E2F4 | chr16 | RPL14 | chr3 | INTERCHR-SS |
| EFCAB4A | chr11 | RN7SK | chr6 | INTERCHR-SS |
| IGHG1 | chr14 | NINJ1 | chr9 | INTERCHR-SS |
| IGKC | chr2 | CSNK2A2 | chr16 | INTERCHR-SS |
| IGKJ5 | chr2 | CSNK2A2 | chr16 | INTERCHR-SS |
| MIDN | chr19 | ALMS1 | chr2 | INTERCHR-SS |
| PDE4B | chr1 | PPP6R3 | chr11 | INTERCHR-SS |
| POU2AF1 | chr11 | PARP11 | chr12 | INTERCHR-SS |
| RNU6-2 | chr10 | SNORD3A | chr17 | INTERCHR-SS |
| RNU6-36 | chr12 | SNORD3A | chr17 | INTERCHR-SS |
| RNU6-42 | chr3 | SNHG12 | chr1 | INTERCHR-SS |
| RPL14 | chr3 | GLS | chr2 | INTERCHR-SS |
| SLC7A5P2 | chr16 | PHC3 | chr3 | INTERCHR-SS |
| SMARCA2 | chr9 | RPL14 | chr3 | INTERCHR-SS |
| ZNF827 | chr4 | ZNF318 | chr6 | INTERCHR-SS |
| ADCK4 | chr19 | NUMBL | chr19 | INTRACHR-SS-OGO-0GAP |
| AP5S1 | chr20 | MAVS | chr20 | INTRACHR-SS-OGO-0GAP |
| C12orf74 | chr12 | PLEKHG7 | chr12 | INTRACHR-SS-OGO-0GAP |
| COL7A1 | chr3 | UCN2 | chr3 | INTRACHR-SS-OGO-0GAP |
| CTBS | chr1 | GNG5 | chr1 | INTRACHR-SS-OGO-0GAP |
| CTSD | chr11 | IFITM10 | chr11 | INTRACHR-SS-OGO-0GAP |
| EEF1D | chr8 | NAPRT1 | chr8 | INTRACHR-SS-OGO-0GAP |
| JAK3 | chr19 | INSL3 | chr19 | INTRACHR-SS-OGO-0GAP |
| KIAA0101 | chr15 | CSNK1G1 | chr15 | INTRACHR-SS-OGO-0GAP |
| LSM10 | chr1 | STK40 | chr1 | INTRACHR-SS-OGO-0GAP |
| MAPK7 | chr17 | RNF112 | chr17 | INTRACHR-SS-OGO-0GAP |
| MRPS31P2 | chr13 | TPTE2 | chr13 | INTRACHR-SS-OGO-0GAP |
| NPL | chr1 | DHX9 | chr1 | INTRACHR-SS-OGO-0GAP |
| PIK3R2 | chr19 | IFI30 | chr19 | INTRACHR-SS-OGO-0GAP |
| POLA2 | chr11 | CDC42EP2 | chr11 | INTRACHR-SS-OGO-0GAP |
| PPCS | chr1 | CCDC30 | chr1 | INTRACHR-SS-OGO-0GAP |
| PROM2 | chr2 | KCNIP3 | chr2 | INTRACHR-SS-OGO-0GAP |
| PSTPIP2 | chr18 | EPG5 | chr18 | INTRACHR-SS-OGO-0GAP |
| RRM2 | chr2 | C2orf48 | chr2 | INTRACHR-SS-OGO-0GAP |
| STYXL1 | chr7 | TMEM120A | chr7 | INTRACHR-SS-OGO-0GAP |
| TTTY15 | chrY | USP9Y | chrY | INTRACHR-SS-OGO-0GAP |
| VMAC | chr19 | CAPS | chr19 | INTRACHR-SS-OGO-0GAP |
| WDFY1 | chr2 | AP1S3 | chr2 | INTRACHR-SS-OGO-0GAP |
| WNT10B | chr12 | ARF3 | chr12 | INTRACHR-SS-OGO-0GAP |
| EEF1DP3 | chr13 | FRY | chr13 | INTRACHR-SS-OGO-1GAP |
| HACL1 | chr3 | COLQ | chr3 | INTRACHR-SS-OGO-1GAP |
| IRF6 | chr1 | C1orf74 | chr1 | INTRACHR-SS-OGO-1GAP |
| TMSB4Y | chrY | KALP | chrY | INTRACHR-SS-OGO-1GAP |
| RMPP | chr9 | SMU1 | chr9 | INTRACHR-SS-OGO-53GAP |
| FGFR3 | chr4 | TACC3 | chr4 | INTRACHR-SS-RGO |
| SEPT7P2 | chr7 | PSPH | chr7 | INTRACHR-SS-RGO |
| SRGAP2B | chr1 | SRGAP2C | chr1 | INTRACHR-SS-RGO |
chr, chromosome.
Figure 1RNA sequencing was used to discover SEPT7P2-PSPH fusion gene in NPC. (a) Detection of SEPT7P2-PSPH fusion gene via RNA sequencing. The reads are aligned across the junction of the predicted fusion transcripts. (b) Circos plot of SEPT7P2-PSPH fusion gene revealed the fusion existing in chromosome 7. (c) The fusion breakpoint was verified using Sanger sequencing. (d) A schematic illustration of the amplified regions of fusion gene with exons 1-2 of SEPT7P2 and exons 3-4 of PSPH. (e) The sequences between exons 1 and 2 of SEPT7P2 and the sequences between exons 3 and 4 of PSPH were all amplified by RT–PCR.
Figure 2SEPT7P2-PSPH expression. (a) By RT–PCR, the SEPT7P2-PSPH fusion transcripts were verified in nine cell lines. (b) The relative expression of SEPT7P2-PSPH was higher in nasopharyngitis compared with those in NPC patients using quantitative RT-PCR (P < 0.05). (c) Full-length PSPH protein was expressed in nine cell lines by western blotting and no relevant chimeric fusion protein was detected. Expression of SEPT7P2-PSPH was knocked down by the specific siRNA. The suppression effect was verified by quantitative RT-PCR and western blotting, respectively (d, e, n = 3; two-tailed Student's t-tests, P < 0.01 and P < 0.001).
Figure 3Knocking down SEPT7P2-PSPH can promote cell proliferation and colony formation of NPC cells. (a) CCK8 assays showed that cell proliferation was significantly enhanced after the specific siRNA interfered with the expression of SEPT7P2-PSPH (n = 3; two-tailed Student's t-tests, P < 0.05, P < 0.01 and P < 0.001). (b) and (c) Knocking down SEPT7P2-PSPH by siRNA can promote the colony-formation ability of CNE1 and 6-10B cells (n = 3; two-tailed Student's t-tests, P < 0.01 and P < 0.001). (d) Cell migration and invasion assays revealed that the abilities of migration and invasion were enhanced after interfering with specific siRNA.
Figure 4Representative IHC staining with negative (a), low (b), moderate (c), high, and (d) PSPH expression. Scale bar, left panel 500 μm; right panel 100 μm.
Figure 5Survival analysis. (a) and (b) Kaplan-Meier analysis of progression-free survival and overall survival for NPC patients with low (n=27) versus high (n=45) expression of PSPH through immunohistochemistry (IHC) staining. P value was determined by the log-rank test (P > 0.05).