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

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

AccessionGene descriptionLog2FCbMeanc
Methionine
EAMY_0208metE, methionine synthase II2.510.93
EAMY_0141metF, 5,10-methylenetetrahydrofolate reductase1.928.30
EAMY_0603metK, S-adenosylmethionine synthetase1.529.40
EAMY_3342metA, homoserine transsuccinylase1.368.37
EAMY_2728metN, methionine ABC transporter ATP-binding protein1.157.49
EAMY_0138metB, cystathionine gamma-synthase1.047.60
Arginine
EAMY_1630astD, NAD-dependent aldehyde dehydrogenase−1.326.62
EAMY_1631astB, succinylarginine dihydrolase−1.277.00
EAMY_1628astC, succinylornithine transaminase−1.227.40
EAMY_1629astA, arginine N-succinyltransferase−1.186.31
  1. 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
  2. blog2FC valus was calculated by the log based 2 value of (p) ppGpp0 / WT at 3 h
  3. cThe average of log2CPM was calculated. CPM: count per million reads