Table 4.
P. aeruginosa transcriptomic alterations during adaptation to the CF lung environment
Square colour indicates gene expression: up-regulation (red), down-regulation (green), undetermined (light grey), divergent according to studies (dark grey). (a) Gene expression in late isolates in comparison to related early isolates of P. aeruginosa . The 41 genes with a convergent pattern identified in at least four isolates were selected [12, 13, 83–85]. (b) Gene expression in clinical CF isolates in vivo (CF sputum, explanted lungs or zebra fish infection) in comparison to growth in vitro [91–94]. (c) Gene expression in PAO1 in vivo (murine infection model of acute pneumonia) in comparison to growth in vitro [95].
|
Gene name |
PAO1 locus |
Product |
(a) Expression in late isolates |
(b) Expression in CF isolates in vivo |
(c) Expression in PAO1 in vivo |
|||
|---|---|---|---|---|---|---|---|---|
|
PA1323 |
PA1323f |
Hypothetical protein |
||||||
|
PA1324 |
PA1324f |
Hypothetical protein |
||||||
|
PA1471 |
PA1471 |
Hypothetical protein |
||||||
|
PA1559 |
PA1559 |
Hypothetical protein |
||||||
|
PA1592 |
PA1592 |
Hypothetical protein |
||||||
|
mexX |
PA2019 |
RND multidrug efflux membrane fusion protein |
Key |
|||||
|
PA2485 |
PA2485 |
Hypothetical protein |
Up-regulation |
|||||
|
PA3691 |
PA3691g |
Hypothetical protein |
Down-regulation |
|||||
|
lptF |
PA3692g |
Lipotoxon F |
Undetermined |
|||||
|
PA3819 |
PA3819 |
Conserved hypothetical protein |
Divergent |
|||||
|
osmE |
PA4876 |
Osmotically inducible lipoprotein |
||||||
|
PA4880 |
PA4880 |
Probable bacterioferritin |
||||||
|
PA5212 |
PA5212 |
Hypothetical protein |
||||||
|
PA0045 |
PA0045 |
Hypothetical protein |
||||||
|
PA0046 |
PA0046 |
Hypothetical protein |
||||||
|
PA0047 |
PA0047 |
Hypothetical protein |
||||||
|
tagQ1 |
PA0070a |
TagQ1 |
||||||
|
pppA |
PA0075a |
PppA |
||||||
|
tagF1 |
PA0076a |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
icmF1 |
PA0077a |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
tssL1 |
PA0078b |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
tssK1 |
PA0079b |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
tssJ1 |
PA0080b |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
ttsA1 |
PA0082c |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
ttsB1 |
PA0083c |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
ttsC1 |
PA0084c |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
hcp1 |
PA0085 |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
tagJ1 |
PA0086d |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
tssE1 |
PA0087d |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
tssG1 |
PA0089d |
Hcp secretion island I (HSI-I) T6SS |
||||||
|
clpV1 |
PA0090d |
ClpV1 |
||||||
|
pqsC |
PA0998e |
β-Keto-acyl-acyl-carrier protein synthase |
||||||
|
pqsD |
PA0999e |
Acetyl CoA ACP transacetylase |
||||||
|
phnA |
PA1001 |
Phenazine biosynthesis protein |
||||||
|
HsiB2 |
PA1657 |
Conserved hypothetical protein |
||||||
|
hcnA |
PA2193 |
Hydrogen cyanide synthase |
||||||
|
tse5 |
PA2684 |
Cell wall/membrane/envelope biogenesis |
||||||
|
PA3021 |
PA3021 |
Hypothetical protein |
||||||
|
PA3729 |
PA3729 |
Conserved hypothetical protein |
||||||
|
cytN |
PA4133 |
Cytochrome c oxidase subunit |
||||||
|
PA4317 |
PA4317 |
Hypothetical protein |
Genes annotated with an identical letter belong to the same operon.
Genes in bold respond to the following criteria: (i) convergent expression in CF late isolates in comparison to early ones, (ii) convergent expression in vivo in comparison to in vitro growth,and (iii) specific dysregulations in vivo in comparison to PAO1.