| Literature DB >> 25886373 |
Inga Mertens-Walker1,2, Bruno C Fernandini3, Mohanan S N Maharaj4, Anja Rockstroh5, Colleen C Nelson6,7, Adrian C Herington8,9, Sally-Anne Stephenson10,11.
Abstract
BACKGROUND: The EphB4 receptor tyrosine kinase is overexpressed in many cancers including prostate cancer. The molecular mechanisms by which this ephrin receptor influences cancer progression are complex as there are tumor-promoting ligand-independent mechanisms in place as well as ligand-dependent tumor suppressive pathways.Entities:
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Year: 2015 PMID: 25886373 PMCID: PMC4389669 DOI: 10.1186/s12885-015-1164-6
Source DB: PubMed Journal: BMC Cancer ISSN: 1471-2407 Impact factor: 4.430
Primer sequences for semi-quantitative RT-PCR and qRT-PCR
| Gene | Forward primer 5’ to 3’ | Reverse primer 5’ to 3’ | Product size (bp) |
|---|---|---|---|
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| AGCGCTACCTGCTCCTGGCT | GGGCAGTGAGTGGGCACAGG | 99 |
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| CTGACAGGTCTCTGCTCCCCC | CCATCGCTGTCCACCCCCAA | 120 |
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| TGTGTGCTGGGCATGGAGAGTGT | CAGTGCTGGGCTGCTGCTGAA | 100 |
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| CATCTGTGAGGTCGAAACAGG | TGGAGCATACTCAACAGTCTTTG | 137 |
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| TCAATGTCACCACTGACCGAGAGGTA | GGTATTTGACCTCGTAGTCCAGCACA | 141 |
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| CTGCACCACCAACTGCTTAG | GTCTTCTGGGTGGCAGTGAT | 108 |
Top ten significantly down-regulated genes in LNCaP cells after siRNA knockdown
| Fold change | Gene symbol | Description | Function |
|---|---|---|---|
| - |
| Integrin beta 8 | Cell-cell and cell-extracellular matrix interactions |
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| Patched 1 pseudogene | Uncharacterized |
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| Prominin 1/CD133 | Transmembrane glycoprotein, stem cell marker |
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| Eukaryotic translation initiation factor 4E family member 3 | Recruits mRNA to ribsosome |
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| Guanylate Binding Protein 3 | Binding of guanidine nucleotides |
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| Dedicator of Cytokinesis 10 | Guanine nucleotide exchange factor |
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| Open reading frame | Uncharacterized |
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| Transmembrane Channel-like 7 | Multi-pass membrane protein |
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| SAM and SH3 domain Containing 1 | Candidate tumour suppressor in breast cancer |
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| Fibronectin type III and SPRY domain containing 2 | Uncharacterized |
Top ten significantly up-regulated genes in LNCaP cells after siRNA knockdown
| Fold change | Gene symbol | Description | Function |
|---|---|---|---|
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| Myosin VI | Actin-based motor protein |
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| Matrix-metallopeptidase 12 | Cleavage of extra-cellular matrix |
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| HCC-related HCC-C11_v3 | Miscellaneous RNA |
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| Tudor Domain containing 7 | Component of cytoplasmic RNA granules |
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| Oncostatin M receptor | Type I cytokine receptor |
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| Apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3H | Antiretroviral mRNA editing enzyme |
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| Cytochrome P450, family 11, subfamily A, polypeptide 1 | Conversion of cholesterol to pregnolone |
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| Leucine Rich Repeat Transmembrane Neuronal 3 | Implicated in neuronal disorders |
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| GRINL1A complex locus 1 | Read-through transcription between the MYZAP (myocardial zonula adherens protein) and POLR2M (polymerase (RNA) II (DNA directed) polypeptide M |
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| TBC1 domain family, member 8B | Uncharacterized |
Significantly enriched gene ontology process in LNCaP cells after siRNA knockdown
| GO biological process | Genes involved |
|---|---|
| Cell adhesion: |
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| GO:0007155 |
Figure 1Integrins are significantly de-regulated in response to changing EphB4 levels in prostate cancer cells. A) Relative gene expression of EPHB4, ITGA3, ITGA10 and ITGB8 after siRNA knockdown of EPHB4 in LNCaP cells as identified on the cDNA microarray, compared to control negative siRNA. Dotted line indicates normalized level of negative siRNA control. B) Relative gene expression normalized to GAPDH of EPHB4, ITGA3, ITGA10 and ITGB8 after siRNA knockdown of EPHB4 in LNCaP cells as determined by qRT-PCR (independent experiments from results shown in A). Dotted line indicates normalized level of negative siRNA control. C) Western blotting analysis showing integrin β8 and EphB4 protein levels in LNCaP cells that have been transfected with two different siRNAs (#2 and #5) targeting EPHB4. GAPDH was used to normalize for loading. D) Relative gene expression of ITGA3, ITGA10 and ITGB8, normalized to GAPDH, in stably over-expressing 22Rv1-B4 cells as determined by qRT-PCR. Dotted line indicates normalized level of negative siRNA control. E) Western blotting analysis showing integrin β8 and EphB4 protein levels in 22Rv1-B4 over-expressing prostate cancer cells. GAPDH was used as a loading control. F) Relative gene expression of ITGAV in stably over-expressing 22Rv1-B4 compared to VO (vector only) cells as determined by qRT-PCR. QRT-PCR experiments were carried out in triplicate and with three biological replicates. Western blotting experiments were carried out three times and representative cropped blots are shown. Graphs are presented with ± SD. *** p < 0.005, ** p < 0.01, * p < 0.05.
Figure 2Knockdown ofresults in reduced metastatic potential in prostate cancer cells. A) Quantitative real-time PCR was carried out to determine knockdown levels of siRNA against ITGB8. 100 nM negative non-silencing or ITGB8 targeting siRNA were transiently transfected into PC-3 cells. RNA was isolated 48 h after transfection, transcribed into cDNA and analyzed for gene expression. ITGB8 expression is reduced by approximately 60-70%. B) PC-3 cells were transiently transfected with 100 nM negative non-silencing (neg si) or ITGB8 targeting siRNA (β8 si) and 24 h later a scratch wound was applied using the IncuCyte (Essen Bioscience) system and migration was monitored for a further 24 h. Cell migration was reduced following knockdown of ITGB8. C) PC-3 cells were transiently transfected with 100 nM negative non-silencing (neg si) or ITGB8 targeting siRNA (β8 si) and subjected to a Matrigel transwell invasion assay. After 22 h of incubation, invaded cells were stained and counted. Cell invasion was reduced following knockdown of ITGB8. D) 22Rv1-VO (vector only) or 22Rv1–B4 (EphB4 over-expressing) cells were transiently transfected with 100 nM siRNA against ITGB8 (β8 si) or negative non-silencing siRNA (neg si). An invasion assay was carried out using the Matrigel invasion system and cells were allowed to invade for 22 h. Cells containing the ITGB8 siRNA showed significantly reduced ability to invade. E) 22Rv1-VO (vector only) or 22Rv1–B4 (EphB4 over-expressing) cells were transiently transfected with siRNA against ITGB8 (β8 si) or negative non-silencing siRNA (neg si) and subjected to an adhesion assay to vitronectin. No significant changes were seen. n = 3 * p < 0.01 vs VO negative; # p < 0.001 vs B4 negative.
Figure 3Integrin expression levels across disease progression. A) cDNA from several different prostate-derived cell lines was analyzed using semi-quantitative RT-PCR. GAPDH amplification was used as a loading control. B) Gene expression omnibus dataset GDS3289 investigating prostate cancer progression in LCM-captured clinical samples was interrogated for EPHB4 and ITGB8 expression using the Oncomine clinical database (www.oncomine.org). Both genes are significantly elevated in prostatic intraepithelial neoplasia (PIN) and EPHB4 is significantly upregulated in carcinoma samples compared to benign. * p < 0.001, mets = metastatic disease.