Table 3.

Quantitative PCR validation.

Gene	Contrast	qPCR	RNA-seq
IL7	5 dpi susceptible vs. 5 dpi resistant birds	+3.05*	+2.36*
		5 dpi vs. 1 dpi susceptible birds	+4.17**	+2.36*
	5 dpi susceptible vs. 5 dpi non-infected birds	+4.16*	+3.14**
	IL7R	5 dpi susceptible vs. 5 dpi resistant birds	+4.30**	+2.55**
		5 dpi vs. 1 dpi susceptible birds	+5.11**	+2.66**
LCK	1 dpi susceptible vs. 1 dpi resistant birds	−2.11*	−1.56**
	5 dpi susceptible vs. 5 dpi non-infected birds	−3.33*	−1.66**
	ZAP70	5 dpi susceptible vs. 5 dpi resistant birds	−3.42*	−1.87**
		5 dpi vs. 1 dpi susceptible birds	−3.51*	−2.45**
	5 dpi susceptible vs. 5 dpi non-infected birds	−1.89	−2.13**
	CD3Z	5 dpi susceptible vs. 5 dpi resistant birds	−1.94	−1.83*
		5 dpi vs. 1 dpi susceptible birds	−1.57	−2.45**
	5 dpi susceptible vs. 5 dpi non-infected birds	+4.40**	+2.89*
	IL18	5 dpi susceptible vs. 5 dpi resistant birds	+4.39**	+5.17**
		5 dpi vs. 1 dpi susceptible birds	+5.43**	+2.93*
	5 dpi susceptible vs. 5 dpi non-infected birds	+3.00*	+4.11**
	IL8	5 dpi susceptible vs. 5 dpi resistant birds	+3.38**	+3.94**
		5 dpi vs. 1 dpi susceptible birds	+2.95**	+2.91**
	5 dpi susceptible vs. 5 dpi non-infected birds	+1.96*	+1.67**
	IFNGR	5 dpi susceptible vs. 5 dpi resistant birds	+1.86*	+1.74**
		5 dpi vs. 1 dpi susceptible birds	+1.98*	+1.59**
NOD1	5 dpi susceptible vs. 5 dpi resistant birds	+2.07*	+1.68**
	5 dpi susceptible vs. 5 dpi non-infected birds	−4.29*	−1.91*
	LIG4	5 dpi susceptible vs. 5 dpi resistant birds	−3.53*	−1.99**
		5 dpi vs. 1 dpi susceptible birds	−3.82*	−2.10**
	5 dpi susceptible vs. 5 dpi non-infected birds	+3.45*	+4.56**
	TLR6	5 dpi susceptible vs. 5 dpi resistant birds	+2.96*	+3.12**
		5 dpi vs. 1 dpi susceptible birds	+4.11**	+3.14**

Note: Fold change between contrasts presented in third and fourth column. + values indicate higher expression in the first group, − values indicate higher expression in the second group.

^** means P-value < 0.01 in qPCR and RNA-seq, * represents P-value < 0.05 in qPCR and RNA-seq.