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Table 4 Real time Q-PCR analysis: comparison with microarray data

From: Interactions of a pesticide/heavy metal mixture in marine bivalves: a transcriptomic assessment

     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  
  1. 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.
  2. 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.
  3. 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