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Table 8 List of differentially expressed genesa associated with nucleitide metabolism for the (p) ppGpp0 mutant versus WT at 3 h

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

Accession

Gene Description

Log2FC

Meanb

Purine

 GMP

  EAMY_2568

guaB, inosine-5′-monophosphate dehydrogenase

2.94

10.85

  EAMY_2567

guaA, GMP synthase

1.66

9.06

  EAMY_2859

guaC, GMP reductase

1.55

8.44

 IMP

  EAMY_2052

purT, phosphoribosylglycinamide formyltransferase II

1.79

9.79

  EAMY_2542

purM, phosphoribosylformylglycinamidine cyclo-ligase

1.74

10.49

  EAMY_2610

purl, FGAM synthase

1.5

10.89

  EAMY_2529

purC, SAICAR synthase

1.4

9.8

  EAMY_0262

purH, bifunctional purine biosynthesis protein

1.28

9.07

  EAMY_1965

purU, formyltetrahydrofolate deformylase

1.16

8.47

  EAMY_2543

purN, phosphoribosylglycinamide formyltransferase

1.02

8.57

  EAMY_0261

purD, phosphoribosylamine-glycine ligase

1

9.04

  EAMY_2978

deoD, uridine phosphorylase

2.34

9.11

  EAMY_0884

gpt, xanthine phosphoribosyltransferase

1.89

7.3

  EAMY_0864

pucG, serine-pyruvate aminotransferase

1.59

5.14

Pyrimidine

 UMP

  EAMY_1900

pyrF, orotidine-5′-phosphate decarboxylase

2.16

7.42

  EAMY_2932

carA, carbamoyl-phosphate synthase small subunit

1.93

11.18

  EAMY_2283

cdd, cytidine deaminase

1.88

6.95

  EAMY_0366

pyrB, aspartate carbamoyltransferase

1.83

8.42

  EAMY_2931

carB, carbamoyl-phosphate synthase large chain

1.25

11.53

  EAMY_0074

dut, deoxyuridine 5′-triphosphate nucleotidohydrolase

1.53

7.54

  EAMY_0210

udp, uridine phosphorylase

1.47

7.34

  EAMY_0365

pyrI, aspartate carbamoyltransferase

1.27

7.49

  EAMY_2257

udk, uridine kinase

1.04

7.62

 CMP

  EAMY_0737

pyrG, CTP synthase

2.12

10.37

  EAMY_1346

cmK, cytidylate kinase

1.06

7.98

 TMP

  EAMY_2980

deoA, thymidine phosphorylase

1.63

7.04

  1. 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. WT: wild type. FC: fold change. FC values over 0 mean that the gene has higher expression in the (p) ppGpp0 mutant than in 1valus was calculated by the log based 2 value of (p) ppGpp0 / WT at 3 h
  2. cThe average of log2CPM was calculated. CPM: count per million reads
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BMC Genomics

ISSN: 1471-2164

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