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Table 2 Selected DEGs in LYSZa3 compared to LYSZa2 related to alginate biosynthesis and type VI secretion system

From: Pseudomonas aeruginosa modulates alginate biosynthesis and type VI secretion system in two critically ill COVID-19 patients

Gene

Product name

Base mean

Fold change

Adj.p-value

LYSZa2 Mean

LYSZa3 Mean

algD

GDP-mannose 6-dehydrogenase AlgD

27,877.94

1091.52

0.00E+00

61.33

50,065.00

algX

Alginate biosynthesis protein AlgX

1967.25

256.42

2.31E−236

18.33

3478.67

algA

Phosphomannose isomerase/guanosine 5'-diphospho-D-mannose pyrophosphorylase

5853.40

238.02

0.00E+00

59.00

10,382.00

algE

Alginate production outer membrane protein AlgE precursor

2204.36

221.80

3.29E−252

24.00

3889.33

algF

Alginate o-acetyltransferase AlgF

1648.75

211.59

3.00E−242

18.67

2924.00

algL

Poly(beta-d-mannuronate) lyase precursor AlgL

2134.58

182.28

4.64E−245

28.00

3766.33

alg44

Alginate biosynthesis protein Alg44

1855.41

162.63

1.64E−285

27.33

3260.33

algJ

Alginate o-acetyltransferase AlgJ

1033.36

154.76

2.12E−191

16.00

1783.33

algK

alginate biosynthetic protein AlgK precursor

1171.78

145.20

2.18E−233

19.33

2043.00

alg8

Alginate biosynthesis protein Alg8

2758.04

133.33

0.00E+00

49.67

4939.33

algI

Alginate o-acetyltransferase AlgI

1457.21

59.29

1.83E−259

58.33

2501.67

algG

Alginate-c5-mannuronan-epimerase AlgG

1682.20

16.89

1.73E−125

226.00

2793.33

hcpB

Secreted protein Hcp

107.95

− 4.46

1.17E−20

215.67

36.00

PA1663

Sfa2

305.43

− 4.46

2.74E−47

603.33

100.00

PA1666

Lip2

159.33

− 4.50

2.97E−24

319.00

52.67

PA2362

DotU3

22.49

− 4.54

4.95E−06

44.00

7.00

PA1660

HsiG2

346.81

− 4.63

1.56E−59

686.67

110.33

PA1662

clpV2

1014.01

− 4.63

3.41E−44

2020.67

318.00

PA1661

HsiH2

246.25

− 4.65

1.19E−39

488.33

77.67

PA1659

HsiF2

163.52

− 5.59

1.38E−34

334.00

43.00

PA1657

HsiB2

842.21

− 6.21

6.69E−109

1743.67

204.33

PA1658

HsiC2

1839.66

− 6.47

4.92E−141

3824.67

437.00

PA2364

Lip3

32.22

− 9.20

6.01E−13

70.33

5.67

  1. Filtering criteria are fold change  4, adjusted p-value < 0.05 and base mean 20. Full list of DEGs is included in Additional file 8: Table S6