Table 3.

Comparison of gene expression levels obtained by cDNA macroarray and qPCR analysis for 16 differentially expressed genes

Clone ID	Homologue definition (GenBank accession no.)a	Fold change
		Macroarrayb	Real-time PCRc
PP_LEa0003N12f	Cobra (Cob) (NP_568930)	1.80	3.38±0.26
PP_LEa0004K19f	Glucan synthase (NP_916159)	1.25	2.91±0.65
PP_LEa0005N23f	Galactosyltransferase family protein (NP_193838)	1.84	3.82±0.77
PP_LEa0006P14f	Endopolygalacturonase (EndoPG) (AAC64184)	3.23	2.50±0.69
PP_LEa0008K15f	Cinnamoyl-CoA reductase (CCR) (NP_200657)	1.99	4.01±1.52
PP_LEa0015N02f	Pectate lyase (PL) (NP_191074)	1.93	4.35±0.93
PP_LEa0001H21f	ER lumen protein retaining receptor 2 (ERD2) (NP_564326)	1.85	4.00±1.35
PP_LEa0004B09f	Coatomer protein gamma 2-subunit (gamma 2-COP) (BAC84213)	0.85	–1.34±0.30
PP_LEa0008F22f	Golgi transport protein SFT2-like (NP_567749)	1.45	1.79±0.34
PP_LEa0009A08f	SNARE-like protein Vap 27-2 (NP_172359)	1.24	2.48±0.87
PP_LEa0009I13f	Dynamin-like protein 1A (ADL1A) (AAB05992)	1.34	6.04±0.82
PP_LEa0009K22f	ROC7 cyclophilin (NP_200679)	1.74	15.67±3.58
PP_LEa0013L18f	Rab GTP-binding protein (Rab5) (CAA50609)	1.89	2.54±0.88
PP_LEa0014G24f	Vesicle-associated membrane protein 722 (Vamp 722) (CAD70274)	2.10	1.28±0.49
PP_LEa0017D15f	Clathrin-binding protein β-adaptin (NP_192877)	0.75	–1.77±0.04
PP_LEa0020B02f	Rab GTP-binding protein (Rab11) (AAD48018)	1.56	2.32±0.51

Sixteen cDNA clones belonging to two functional categories, cell wall metabolism and endomembrane trafficking, were analysed by qPCR to confirm the cDNA macroarray results.

^aDefinition and accession number of the best match according to BLASTP against the non-redundant database at NCBI.

^bFold-value changes derived from macroarray analysis represent differences between normalized expression values.

^cThe expression levels of the selected genes derived from qPCR reactions were normalized using P. persica α-tubulin.