RNA-seq of muscle from pigs divergent in feed efficiency and product quality identifies differences in immune response, growth, and macronutrient and connective tissue metabolism

Table 3 Comparison of RNA-seq and qPCR data of selected genes affected by feed efficiency (FE)

Gene	qPCR fold change	RNA-seq fold change	Spearman’s rho
FAM134B	2.1**	2.1**	0.874***
FOXO1	1.6***	1.5**	0.785***
SPP1	3.6	2.5*	0.950***
TRIM63	2.2**	2.0**	0.918***
CASP1	1.8 ^£	1.9**	0.509*
COL11A1	1.8*	1.5**	0.968***
CYBB	1.5*	1.6**	0.641**
ITGB2	1.7 ^£	1.5*	0.765**
MYC	-1.5*	-1.6**	0.947***
PLCB2	1.5*	1.7**	0.612*
SDC4	-2.5***	-2.4**	0.868***
TREH	3.5*	4.5**	0.818***
VCAM1	1.4*	1.4**	0.803***

^£P < 0.1, *P < 0.05, **P < 0.01, ***P < 0.001; up-regulated genes in high-FE pigs are highlighted in bold and down-regulated genes in normal typeface

ISSN: 1471-2164