Skip to main content

Table 6 List of differentially expressed genesa associated with amino acid and peptide transport systems 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

Log2FCb

Meanc

amino acid transport system

 Methionine

  EAMY_2728

metN, methionine ABC transporter ATP-binding protein

3.24

9.03

  EAMY_2729

metI, methionine ABC transport system

1.31

7.53

 Arginine (PAAT)

  EAMY_0862

ABC-type arginine/histidine transport system, permease component

2.24

3.66

  EAMY_1315

artP, arginine ABC transport system

1.67

9.20

  EAMY_1314

artI, arginine ABC transport system

1.33

9.86

 Other polar amino acid uptake transport system (PAAT)

  EAMY_0860

ABC transporter substrate-binding protein

5.28

4.96

  EAMY_0266

yhdW, ABC transporter substrate-binding protein

3.47

6.70

  EAMY_0861

polar amino acid ABC transporter permease

3.36

4.07

  EAMY_0863

ABC transporter ATP-binding protein

2.52

4.44

  EAMY_0263

yhdZ, ABC-type polar amino acid transport system

1.42

4.52

  EAMY_0264

yhdY, ABC-type amino acid transport system

1.27

4.15

  EAMY_0265

yhdX, ABC-type amino acid transport system

1.12

4.63

peptide transport system

 Opp

  EAMY_1936

oppB, ABC transporter permease componenet

−2.65

5.91

  EAMY_1935

oppC, ABC transporter permease componenet

−2.43

5.27

  EAMY_1937

oppA, ABC transporter periplasmic component

−2.29

9.25

  EAMY_1934

oppD, ABC transporter ATPase component

−2.22

5.84

  EAMY_1933

oppF, ABC-type oligopeptide transport system

−1.63

6.52

 Dpp

  EAMY_3609

dppF, ABC transporter ATP-binding protein

−2.43

5.77

  EAMY_3611

dppC, transporter

−2.23

5.73

  EAMY_3610

dppD, ABC transporter ATP-binding protein

−2.17

6.15

  EAMY_3613

dppA, ABC transporter periplasmic component

−2.04

9.75

  EAMY_3612

dppB, ABC transporter

−1.94

6.78

 Peptide/Opine/Nickel Uptake Transporter (PepT) Family

  EAMY_1292

yliD, ABC-type dipeptide/oligopeptide/nickel transport system

−1.55

6.42

  EAMY_1291

yliC, ABC-type dipeptide/oligopeptide/nickel transport system

−1.41

6.66

  EAMY_2311

yejA, ABC-type oligopeptide transport system

−1.20

6.22

  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 below 0 mean that the gene has lower expression in the (p) ppGpp0 mutant than in WT, 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
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us