| Literature DB >> 35330493 |
Dominik Kraus1, Simone Weider2, Rainer Probstmeier3, Jochen Winter4.
Abstract
BACKGROUND: Our study describes the neoexpression (Juno) and suppression (catsperD, dysferlin, Fer1L5 and otoferlin) of selected genes in oral squamous cell carcinomas (OSCCs). As the expression pattern of these genes allows a "yes" or "no" statement by exhibiting an inverse expression pattern in malignant versus benign tissues, they represent potential biomarkers for the characterization of oral malignancies, particularly OSCCs.Entities:
Keywords: OSCC; molecular pathology; neoexpressed genes; novel tumor markers
Year: 2022 PMID: 35330493 PMCID: PMC8954609 DOI: 10.3390/jpm12030494
Source DB: PubMed Journal: J Pers Med ISSN: 2075-4426
Genes, primer sequences, corresponding efficiencies, and annealing temperatures.
| Gene | Primer Sequences (Sense/Antisense) | Efficiency | Annealing Temperature (°C) |
|---|---|---|---|
| β-actin | 5′-CATGGATGATGATATCGCCGCG-3′ | 1.84 | 69 |
| B2M | 5′-GCCTTAGCTGTGCTCGCGCT-3′ | 2.04 | 64 |
| GAPDH | 5′- TGGTATCGTGGAAGGACTCA-3′ | 1.93 | 67 |
| RPO | 5′-GCCTTGACCTTTTCAGCAAG-3′ | 1.97 | 62 |
| CatsperB | 5′-TCTTTTTGGACAGCCTCCAGATATGGG-3′ | 2.02 | 62 |
| CatsperD | 5′-GGTGGAGCTGTGGCGAAAAGAC-3′ | 2.08 | 57 |
| Dysferlin | 5′-TGGTGGTCAAAGACCATGAG-3′ | 1.89 | 55 |
| Fer1L5 | 5′-CGCTTGTCGGGCAAGGTGAAG-3′ | 1.94 | 56 |
| Juno | 5′-CTCTATGAGGAGTGCATCCCCTG-3′ | 2.06 | 60 |
| Myoferlin | 5′-TGTGGAATCTGCCAGCAATA-3′ | 1.88 | 62 |
| Otoferlin | 5′-ATGGCCACCGGGGAGGTGGA-3′ | 2.01 | 63 |
| ZP2 | 5′-GCTCTCTAGCCTGGTCTACTTCCACT -3′ | 2.08 | 69 |
| ZP3 | 5′GGATGTGTCCGGTGCCATAG-3′ | 2.05 | 61 |
Figure 1Standard curve for ZP2 detection using dilution series with known copy numbers. The detection limit is at Cq = 35 for one molecule positively detected.
Relative expression of biomarker candidates in samples of oral mucosa and oral squamous cell carcinomas (OSCC) (n = 25).
| Oral Mucosa | OSCC | |
|---|---|---|
| Juno | n.d. | 0.0003 (0.00007) |
| CatsperB | 0.001 (0.0002) | 0.0005 (0.0001) |
| CatsperD | 0.0015 (0.0004) | n.d. |
| Dysferlin | 0.0005 (0.00009) | n.d. |
| Fer1L5 | 0.00085 (0.00014) | n.d. |
| Myoferlin | 0.022 (0.006) | 0.0078 (0.002) |
| Otoferlin | 0.0036 (0.0007) | n.d. |
| ZP2 | 0.0000047 (0.00000073) | 0.000001 (0.00000004) |
| ZP3 | 0.000024 (0.000007) | 0.000081 (0.000023) |
Mean values are shown with standard deviations in brackets. “Not detectable” is abbreviated as “n.d.”.
Differential relative gene expression analysis in samples of oral squamous cell carcinomas (OSCC) as xfold compared to oral mucosa.
| Oral Mucosa | OSCC | |
|---|---|---|
| Juno | n.d. | 10.0 * |
| CatsperB | 1.0 | 0.5 |
| CatsperD | 50.0 * | n.d. |
| Dysferlin | 16.7 * | n.d. |
| Fer1L5 | 25.0 * | n.d. |
| Myoferlin | 1.0 | 0.35 * |
| Otoferlin | 111.0 * | n.d. |
| ZP2 | 1.0 | 0.21 * |
| ZP3 | 1.0 | 0.34 * |
“Not detectable” is depicted as “n.d.”. A Cq-value of “36” was put into calculations to determine differential expression rate factors for samples with nondetectable gene transcripts according to Figure 1. Significant differences are marked with asterisks (* for p < 0.05).
Descriptive expression analysis of biomarker candidate genes in tissue samples of OSCCs and healthy oral mucosa.
| Oral Mucosa | OSCC | |||
|---|---|---|---|---|
| + | − | + | − | |
| Juno | 0 | 100 | 100 | 0 |
| CatsperB | 100 | 0 | 100 | 0 |
| CatsperD | 100 | 0 | 0 | 100 |
| Dysferlin | 100 | 0 | 0 | 100 |
| Fer1L5 | 100 | 0 | 0 | 100 |
| Myoferlin | 100 | 0 | 100 | 0 |
| Otoferlin | 100 | 0 | 0 | 100 |
| ZP2 | 45 | 55 | 38 | 62 |
| ZP3 | 100 | 0 | 64 | 36 |
Data show specificity and sensitivity (in percentage (%)) of detected (“+”) or nondetectable (“−“) neoexpressed genes.
Sex, age, tumor staging and grading, and tumor site of patients examined in the present study.
| Patient | Sex | Age | Staging/Grading | Tumor Site |
|---|---|---|---|---|
| 1 | m | 70 | pT2, N0, M0, L0, V0, Pn0, R0, G1 | jaw |
| 2 | f | 69 | pT2, N0, M0, L0, V0, Pn0, R0, G2 | tongue |
| 3 | m | 67 | pT2, N2b, M0, L0, V0, Pn1, R0, G1 | jaw |
| 4 (†) | m | 64 | pT2, N2c, M0, L1, V0, Pn0, R0, G2 | tongue |
| 5 | m | 72 | pT2, N0, M0, L1, V0, Pn0, R0, G2 | jaw |
| 6 (†) | m | 69 | pT2, N2c, M0, L1, V0, Pn1, R0, G3 | jaw |
| 7 | f | 72 | pT1, N0, M0, L0, V0, Pn0, R0, G2 | tongue |
| 8 | m | 63 | pT1, N0, M0, L0, V0, Pn0, R0, G1 | tongue |
| 9 | m | 59 | pT2, N0, M0, L0, V0, Pn0, R0, G2 | tongue |
| 10 (†) | m | 60 | pT2, N0, M0, L0, V0, Pn0, R1, G3-4 | jaw |
| 11 | m | 73 | pT2, N0, M0, L0, V0, Pn1, R0, G2 | tongue |
| 12 | m | 78 | pT2b, N2b, M0, L0, V0, Pn0, R0, G2 | tongue |
| 13 | f | 60 | pT3, N0, M0, L0, V0, Pn0, R0, G2 | tongue |
| 14 (†) | f | 82 | pT4a, N2c, M0, L0, V0, Pn0, R0, G2-3 | jaw |
| 15 | f | 62 | pT1, N0, M0, L0, V0, Pn0, R0, G1 | tongue |
| 16 (†) | m | 96 | pT3, Nx, M0, L0, V0, Pn1, R0, G2 | jaw |
| 17 | f | 60 | pT2, N1, M0, L0, V0, Pn0, R0, G2 | tongue |
| 18 | m | 65 | pT2, N0, M0, L0, V0, Pn0, R0, G2 | tongue |
| 19 | m | 47 | pT1, N0, M0, L0, V0, Pn0, R0, G2 | tongue |
| 20 | m | 70 | pT2, N1, M0, L0, V0, Pn0, R0, G2 | tongue |
| 21 | f | 69 | pT2, N0, M0, L0, V0, Pn0, R0, G2 | jaw |
| 22 | m | 62 | pT3, N0, M0, L0, V0, Pn0, R0, G3 | jaw |
| 23 (†) | f | 98 | pT4a, N2b, M0, L0, V1, Pn1, R1, G2 | jaw |
| 24 (†) | m | 62 | pT4a, N0, M0, L0, V0, Pn0, R0, G3 | jaw |
| 25 | m | 78 | pT1, N0, M0, L0, V0, Pn0, R0, G1 | tongue |
Patients with † died in the meantime. Staging/grading is abbreviated according to the TNM-staging system. Abbrev.: T—Tumor; N—Node; M—Metastasis; L—Invasion of lymphatic vessels; V—invasion of vein; Pn—invasion of nerves; R—completeness of resection; G—Grading.