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

BMC Genomics

Table 5 List of differentially expressed genes^a associated with amino acid biosynthesis and degradation for WT at 6 h versus WT at 3 h

Accession	Gene description	Log₂FC^b	Mean^c
Methionine
EAMY_0208	metE, methionine synthase II	2.5	10.93
EAMY_0141	metF, 5,10-methylenetetrahydrofolate reductase	1.92	8.30
EAMY_0603	metK, S-adenosylmethionine synthetase	1.52	9.40
EAMY_3342	metA, homoserine transsuccinylase	1.36	8.37
EAMY_2728	metN, methionine ABC transporter ATP-binding protein	1.15	7.49
EAMY_0138	metB, cystathionine gamma-synthase	1.04	7.60
Arginine
EAMY_1630	astD, NAD-dependent aldehyde dehydrogenase	−1.32	6.62
EAMY_1631	astB, succinylarginine dihydrolase	−1.27	7.00
EAMY_1628	astC, succinylornithine transaminase	−1.22	7.40
EAMY_1629	astA, arginine N-succinyltransferase	−1.18	6.31

^aDifferentially expressed genes (DEGs) between the WT at 6 h and at 3 h with |log₂FC| value ≥ 1 and an adjusted p value < 0.05. WT: wild type. FC: fold change. FC values over 0 mean that the gene has higher expression in WT at 6 h than at 3 h. 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