The stringent response regulator (p) ppGpp mediates virulence gene expression and survival in Erwinia amylovora

BMC Genomics

Table 10 List of differentially expressed genes^a associated with lipid metabolism/cell cycle for the (p) ppGpp⁰ mutant versus WT at 3 h

Accession	Gene Description	Log₂FC^b	Mean^c
Lipid metabolism
Fatty acid biosynthesis
EAMY_2423	fabB, 3-oxoacyl-(acyl-carrier-protein) synthase	2.38	11.6
EAMY_2408	accD, acetyl-CoA carboxylase beta subunit	1.86	9.97
EAMY_2748	fabZ, 3-hydroxymyristoyl/3-hydroxydecanoyl-(acyl carrier protein) dehydratases	1.46	8.39
EAMY_0948	yajB, acyl carrier protein phosphodiesterase	1.2	5.16
EAMY_1242	cfa, cyclopropane fatty acid synthase	−1.7	6.96
Fatty acid degradation
EAMY_2827	vraB, 3-ketoacyl-CoA thiolase	−1.72	4.77
EAMY_0222	fadA, acetyl-CoA acetyltransferase	−1.22	10.1
Cell division
chromosom partition
EAMY_1925	intracellular septation protein A	1.8	7.37
EAMY_1357	mukF, chromosome partition protein	1.75	8.20
EAMY_2278	mrp, ATPases involved in chromosome partitioning	1.36	8.77
EAMY_1358	mukE, chromosome partition protein	1.27	7.22
cell division
EAMY_1387	sulA, cell division inhibitor	2.19	8.22
EAMY_0129	zapB, cell division protein	1.2	8.58
EAMY_2482	zipA, cell division protein	1.12	9.29

^aDifferentially expressed genes (DEGs) between the (p) ppGpp⁰ mutant and WT at 3 h with |log₂FC| value ≥ 1 and an adjusted p value < 0.05. FC: fold change. WT: wild type. WT: wild type. FC: fold change. FC values below 0 mean that the gene has lower expression in the (p) ppGpp⁰ mutant than in WT, and vice versa
^blog₂FC valus was calculated by the log based 2 value of (p) ppGpp⁰ / WT at 3 h
^cThe average of log₂CPM was calculated. CPM: count per million reads

ISSN: 1471-2164