Table 4.
Real time Q-PCR analysis: comparison with microarray data
| Ni | Chlorpyrifos | Mix | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Array_ID | EMBL ID | Description | Q-PCR | M | B | Q-PCR | M | B | Q-PCR | M | B |
| Myt01-016C08 | AJ625847 | metallothionein isoform mt-10b | 2.8* | 1.46 | 11.5 | -0.3 | -0.1 | -6.3 | 1.8* | 0.9 | 4.4 |
| N.A. | AY566247 | metallothionein isoform mt-20-IV | 0.6 | N.A. | N.A. | -0.1 | N.A. | N.A. | 0.0 | N.A. | N.A. |
| Myt01-009A12 | AJ624405 | gm2 ganglioside activator protein | 13.6* | 2.63 | 7.0 | -0.7 | -0.3 | -5.4 | -7.6* | 0.5 | -1.3 |
| Myt01-009E10 | AJ624495 | gm2 ganglioside activator protein | -4.4* | -0.87 | 9.7 | 5.6* | -0.6 | -5.0 | 6.7* | 0.4 | 0.1 |
| Myt01-016D06 | AJ625863 | apolipophorin precursor | 0.8* | 0.56 | 5.1 | 0.3 | -0.1 | -6.1 | -0.6 | -0.0 | -6.4 |
| Myt01-015B01 | AJ625569 | chitinase | 1.7 | -0.08 | -7.2 | 6.4* | 1.9 | 12.2 | 6.6* | 1.7 | 4.7 |
| Myt01-007F12 | AJ624093 | chitinase | 1.5 | -0.41 | 2.3 | 5.4* | 1.9 | 9.9 | 5.6* | 2.0 | 0.4 |
| Myt01-010C02 | AJ624637 | chitinase | 0.9 | -0.52 | 3.6 | 5.7* | 1.6 | 4.5 | 6.0* | 1.7 | 1.8 |
| Myt01-012D02 | AJ625051 | chitinase 1 | 0.4 | -0.8 | 7.5 | 5.1* | 3.2 | 11.5 | 6.2* | 2.0 | 0.3 |
| Myt01-004H06 | AJ623463 | beta-n-acetyl-hexosaminidase | -0.1 | 0.03 | -7.5 | -0.4 | -0.3 | -6.1 | 2.9* | 1.1 | -5.7 |
| Myt01-012F08 | AJ625116 | actin | -0.0 | -0.05 | -6.9 | 0.4 | 0.1 | -6.3 | 0.6* | 0.5 | 2.7 |
| Myt01-013C11 | AJ625243 | p-53 like | 0.1 | -0.11 | -7.2 | -0.4 | 0.3 | -6.3 | -0.1 | -0.6 | -3.9 |
| Match (absolute; relative) | 8; 0.73 | 10; 0.91 | 9; 0.82 | ||||||||
Shown are: Array_ID, unique identifier; EMBL ID, EMBL database gene identifier; Description, B2GO annotation; Q-PCR, log2 mean relative expression level, (to non exposed reference mussels) obtained by means of Q-PCR analysis; M, relative expression level obtained by means of microarray analysis; B, Bayes Log Odd, where B > 0 denotes a statistically significant differentially expressed gene in microarray analysis.
Match indicates the absolute and relative frequency of accordance between microarray and Q-PCR analysis for each class of treatments. A match was assigned whether (i) a pairwise comparison showed the same statistically significant (positive or negative) expression trend or (ii) independently on the expression trend, when both analysis outcomes were not statistically significant. The AY566247 gene was not present in the microarray and therefore it was not considered for this analysis.
Relative expression levels were geometrically normalized against a 18 rRNA ribosomal target and an invariant microarray gene, alkaline phosphatase. * (p < 0.05; n = 4), threshold cycle reallocation randomization test according to [74]. N.A., not available