Table 1.
Pearson correlation analysis of gene expression values detected by RNA sequencing and qPCR.
| Genes | Methods | 45 DPA | 142 DPA | Pcc | p-value | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Newhall | Xinhui | Bingtang | Succari | Newhall | Xinhui | Bingtang | Succari | ||||
| Cs1g16150 | RNA seq | 5.0 | 0.8 | 0.4 | 0.0 | 40.2 | 30.4 | 7.7 | 0.0 | 0.98 | 2.8E-05 |
| (AHA10) | qPCR | 1.0 | 0.2 | 0.1 | 0.0 | 17.0 | 10.3 | 5.7 | 0.0 | ||
| Cs1g20480 | RNA seq | 9.9 | 10.7 | 14.4 | 11.8 | 1.1 | 0.6 | 0.8 | 13.1 | 0.99 | 4.3E-06 |
| (AIL6) | qPCR | 1.0 | 1.2 | 1.4 | 1.2 | 0.1 | 0.1 | 0.1 | 2.0 | ||
| Cs5g31400 | RNA seq | 2.3 | 1.3 | 0.9 | 0.5 | 30.7 | 14.1 | 6.3 | 2.4 | 0.98 | 1.7E-05 |
| (TT8) | qPCR | 1.0 | 0.8 | 0.5 | 0.1 | 22.6 | 6.5 | 4.2 | 1.1 | ||
| Cs6g08410 | RNA seq | 1.0 | 0.7 | 0.6 | 0.5 | 11.2 | 6.9 | 2.1 | 0.5 | 0.94 | 5.8E-04 |
| (APD2) | qPCR | 1.0 | 0.6 | 0.5 | 0.7 | 29.8 | 19.0 | 11.7 | 1.3 | ||
| Cs9g17580 | RNA seq | 0.5 | 0.3 | 0.1 | 0.1 | 8.2 | 3.4 | 1.4 | 0.1 | 0.94 | 5.8E-04 |
| (unknown) | qPCR | 1.0 | 0.7 | 0.4 | 0.7 | 12.7 | 6.2 | 2.6 | 0.1 | ||
| Cs6g15800 | RNA seq | 0.7 | 1.4 | 1.2 | 1.8 | 5.2 | 13.3 | 21.8 | 26.0 | 0.99 | 4.2E-06 |
| (glycosyltransferase) | qPCR | 1.0 | 2.3 | 1.3 | 2.0 | 6.2 | 20.3 | 20.6 | 45.9 | ||
| Cs1g25820 | RNA seq | 0.0 | 0.0 | 0.2 | 0.0 | 2.2 | 0.2 | 0.8 | 18.7 | 0.98 | 1.5E-05 |
| (Heavy metal-associated domain containing protein) | qPCR | 1.0 | 1.1 | 0.9 | 2.1 | 10.2 | 3.1 | 6.2 | 135.6 | ||
Expression patterns for seven genes which were determined to be differentially regulated between different varieties by RNA sequencing (RNA seq) were validated by using quantitative PCR (qPCR) analysis of the RT products. Values are the means of RNA seq data (RPKM) or qPCR data (with the value for Newhall at 45 DPA set as 1 after normalization to the Actin control) from three biological replicates. DPA, days post anthesis; Pcc, Pearson correlation coefficient.