Table 6.
RT-qPCR validation of expression differences identified by transcriptome sequence analysis.
| Transcriptome Sequencing | Relative RT-qPCR | ||||||||
|---|---|---|---|---|---|---|---|---|---|
| Accession Number | Gene | Fold difference between two samples | Z statistics | p value | Number of reads in the sample of tame fox | Number of reads in the sample of aggressive fox | Sample ratio | Fold difference between two samples | Sample ratio |
| XM_848547 | SCGN | 2.24 | 6.28 | 3.28E-10 | 136 | 402 | A>T | 2.44 | A>T |
| XM_544247 | ITGA8 | 4.48 | 4.85 | 1.24E-06 | 68 | 20 | T>A | 5.55 | T>A |
| XM_546414 | CDON | 5.95 | 3.51 | 4.44E-04 | 6 | 47 | A>T | 1.09 | A>T |
| NM_001006648 | HTR2C | 9.22 | 2.69 | 0.01 | 14 | 2 | T>A | 2.89 | T>A |
| NM_001003300 | KCNMA1 | 2.19 | 2.65 | 0.01 | 26 | 75 | A>T | 1.43 | A>T |
| XM_543946 | LCOR | 10.63 | 2.14 | 0.03 | 1 | 14 | A>T | 1.75 | A>T |
| XM_849641 | PRRG2 | 11.71 | 2.11 | 0.03 | 8 | 0 | T>A | 1.31 | T>A |
| XM_846863 | LRRC20 | 10.54 | 2.08 | 0.04 | 8 | 1 | T>A | 1.12 | T>A |
| XM_542630 | SLITRK6 | 9.87 | 2.04 | 0.04 | 1 | 13 | A>T | 1.54 | T>A |
Nine genes, identified as differentially expressed between the tame and aggressive fox by transcriptome sequence analysis, were selected for expression evaluation by relative RT-qPCR. Results are sorted by Z test p-value. Except for one gene (SLITRK6, result in bold and italic), which had the least significant Z test p-value, RT-qPCR consistently confirmed a difference of expression between the tame and aggressive samples in the same direction as had transcriptome analysis (compare columns 8 and 10).