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Table 1 Differentially expressed proteins under ex vivo conditions in BALF model

From: Quantitative proteomic analysis of host—pathogen interactions: a study of Acinetobacter baumannii responses to host airways

Protein description

AbH12O-A2 locus

Sec.a

BALF model/controlb

BALF model/control p-valuec

Pathogenesis and virulence

Molecular chaperone DnaK

AIS05048.1

NO

1.77 (0.65)

0.027

Clp protease ClpX

AIS05265.1

NO

1.51 (0.61)

0.024

Amino acid ABC transporter substrate-binding protein (NfuA-like)

AIS05727.1

YES

2.38 (1.76)

0.031

Enoyl-CoA hydratase (PaaZ)

AIS06043.1

NO

0.30 (0.11)

0.012

Peptidase M16

AIS06751.1

NO

0.29 (0.16)

0.007

Aminopeptidase N

AIS06953.1

NO

0.39 (0.21)

0.023

Protein CsuC

AIS07073.1

YES

2.19 (0.76)

0.003

Protein CsuA

AIS07075.1

YES

1.87 (0.95)

0.036

Membrane protein (OmpA)

AIS07737.1

YES

1.51 (0.65)

0.015

Oligopeptidase A

AIS07885.1

NO

0.48 (0.11)

0.001

ABC transporter ATP-binding protein (YjjK)

AIS08062.1

NO

1.74 (0.61)

0.038

Amino acid metabolism and transport

Aspartate-semialdehyde dehydrogenase

AIS05215.1

NO

0.25 (0.19)

0.038

2-Isopropylmalate synthase

AIS05260.1

NO

0.31 (0.11)

0.034

Ketol-acid reductoisomerase

AIS05310.1

NO

0.31 (0.05)

0.027

Ornithine carbamoyltransferase

AIS06867.1

NO

0.40 (0.17)

0.044

Aspartate aminotransferase

AIS07065.1

NO

0.08 (0.07)

0.000

Glutamate synthase

AIS08029.1

NO

0.39 (0.20)

0.025

Carbohydrate metabolism and transport

Phosphoglyceromutase

AIS05033.1

NO

0.26 (0.14)

0.020

Phosphoenolpyruvate synthase

AIS07024.1

NO

0.19 (0.04)

0.000

Glucose dehydrogenase

AIS07744.1

NO

0.19 (0.13)

0.009

Cell cycle control and mitosis

Cell division inhibitor MinD

AIS05622.1

NO

1.63 (1.55)

0.000

tRNA uridine 5-carboxymethylaminomethyl modification protein

AIS07041.1

NO

2.70 (1.89)

0.025

Cell division protein FtsZ

AIS08195.1

NO

4.61 (1.68)

0.001

Cell wall/membrane/envelope biogenesis

Membrane protein(OmpW)

AIS05087.1

YES

2.25 (0.89)

0.032

UDP-N-acetylglucosamine 1-carboxyvinyltransferase (MurA)

AIS05387.1

NO

2.27 (1.47)

0.002

UDP-N-acetylmuramate-alanine ligase (MurC)

AIS08199.1

NO

99.08 (0.00)

0.020

Coenzyme metabolism

Coproporphyrinogen III oxidase

AIS07950.1

NO

0.31 (0.13)

0.004

3-Phosphoglycerate dehydrogenase

AIS07996.1

NO

0.38 (0.09)

0.016

Defense mechanisms (cellular processes and signaling)

RND transporter

AIS04803.1

YES

0.30 (0.22)

0.004

Energy production and conversion

Malate dehydrogenase

AIS04961.1

NO

0.45 (0.23)

0.038

Inorganic pyrophosphatase

AIS05013.1

YES

2.83 (1.43)

0.030

Aconitate hydratase

AIS05319.1

NO

0.21 (0.16)

0.000

NAD(P) transhydrogenase subunit alpha

AIS05328.1

NO

2.49 (1.37)

0.041

NADH dehydrogenase

AIS05456.1

NO

0.44 (0.17)

0.012

Cytochrome C oxidase subunit II

AIS07026.1

NO

0.21 (0.23)

0.016

Malic enzyme

AIS07199.1

NO

0.46 (0.10)

0.041

Isocitrate dehydrogenase

AIS07371.1

NO

0.29 (0.05)

0.004

Phosphoenolpyruvate carboxykinase

AIS07529.1

NO

2.23 (0.66)

0.000

Succinyl-CoA synthetase subunit beta

AIS07559.1

NO

0.41 (0.06)

0.035

Energy production and conversion

2-Oxoglutarate dehydrogenase

AIS07562.1

NO

0.20 (0.04)

0.000

Succinate dehydrogenase

AIS07563.1

NO

1.98 (0.64)

0.017

Type II citrate synthase

AIS07567.1

NO

0.22 (0.05)

0.002

Oxidoreductase

AIS07724.1

NO

0.31 (0.22)

0.001

Malate dehydrogenase

AIS07865.1

NO

0.47 (0.06)

0.040

Acetyl-CoA hydrolase

AIS08069.1

NO

2.05 (0.67)

0.008

Pyruvate dehydrogenase

AIS08191.1

NO

0.36 (0.06)

0.000

Unknown function

Hypothetical protein

AIS05481.1

YES

0.07 (0.10)

0.013

Peptidoglycan-binding protein LysM

AIS05521.1

YES

0.05 (0.03)

0.003

Hypothetical protein

AIS06125.1

YES

0.17 (0.07)

0.027

DNA-binding protein

AIS07086.1

YES

0.08 (0.07)

0.006

Peptidase

AIS07285.1

YES

4.57 (3.14)

0.000

Glyoxalase

AIS07740.1

YES

0.39 (0.45)

0.015

Hypothetical protein

AIS07742.1

YES

1.84 (1.06)

0.048

General functional prediction only (typically, prediction of biochemical activity)

Alpha/beta hydrolase

AIS06658.1

YES

0.09 (0.07)

0.001

GTPase obg

AIS07390.1

NO

2.58 (1.05)

0.025

Hypothetical protein

AIS07569.1

NO

3.47 (1.83)

0.027

Inorganic ion transport and metabolism

Bacterioferritin

AIS05502.1

NO

0.25 (0.18)

0.013

Hydroperoxidase

AIS06129.1

YES

0.26 (0.10)

0.000

Inorganic ion transport and metabolism

Superoxide dismutase

AIS07203.1

YES

0.49 (0.14)

0.013

Sulfurtransferase

AIS07821.1

NO

0.37 (0.28)

0.006

Intracellular trafficking and secretion

RNA-binding protein

AIS05494.1

NO

2.07 (0.97)

0.001

Lipid metabolism

3-Ketoacyl-CoA thiolase

AIS05097.1

NO

0.35 (0.18)

0.049

Multifunctional fatty acid oxidation complex subunit alpha

AIS05098.1

NO

0.29 (0.08)

0.000

Acetyl-CoA carboxylase

AIS05368.1

NO

2.01 (0.67)

0.000

3-Hydroxyacyl-CoA dehydrogenase

AIS06051.1

NO

0.32 (0.22)

0.023

Beta-ketoadipyl CoA thiolase

AIS06052.1

NO

0.28 (0.10)

0.000

3-Methylcrotonyl-CoA carboxylase

AIS06111.1

NO

0.11 (0.04)

0.002

Short-chain dehydrogenase

AIS06130.1

YES

0.04 (0.05)

0.040

Acetyl-CoA acetyltransferase

AIS06469.1

YES

0.09 (0.13)

0.027

Acetyl-CoA carboxylase

AIS06900.1

NO

0.42 (0.17)

0.001

3-Hydroxy-2-methylbutyryl-CoA dehydrogenase

AIS07009.1

NO

0.25 (0.18)

0.031

Acetyl-CoA acetyltransferase

AIS07739.1

YES

0.24 (0.26)

0.017

Acyl-CoA dehydrogenase

AIS07780.1

NO

0.22 (0.16)

0.000

Nucleotide metabolism and transport

GMP synthase

AIS04952.1

NO

0.31 (0.17)

0.000

Formyltetrahydrofolate deformylase

AIS05238.1

NO

1.64 (1.02)

0.012

Deoxyuridine 5′-triphosphate nucleotidohydrolase

AIS05628.1

NO

4.45 (6.37)

0.039

Dihydroorotase

AIS05812.1

NO

1.79 (1.15)

0.043

Nucleotide metabolism and transport

Orotate phosphoribosyltransferase

AIS08207.1

NO

2.73 (1.78)

0.004

Post-translational modification, protein turnover, chaperone functions

Peroxidase

AIS07758.1

YES

0.25 (0.21)

0.033

Replication and repair

Chromosomal replication initiation protein

AIS04811.1

NO

81.66 (31.26)

0.017

DNA gyrase subunit A

AIS07481.1

NO

0.09 (0.16)

0.004

Transcription

Antitermination protein NusG

AIS05075.1

NO

2.00 (0.81)

0.010

DNA-directed RNA polymerase subunit beta

AIS05080.1

NO

0.26 (0.05)

0.000

DNA-directed RNA polymerase subunit beta’

AIS05081.1

NO

0.10 (0.04)

0.000

RNA polymerase sigma factor RpoD

AIS07572.1

NO

1.92 (1.40)

0.042

Translation

Isoleucine-tRNA ligase

AIS04850.1

NO

0.28 (0.09)

0.001

Arginine-tRNA ligase

AIS04960.1

NO

0.47 (0.16)

0.019

50S ribosomal protein L1

AIS05077.1

YES

3.40 (0.93)

0.000

30S ribosomal protein S15

AIS05149.1

NO

15.56 (6.87)

0.045

50S ribosomal protein L28

AIS05235.1

YES

1.85 (0.68)

0.042

Leucyl-tRNA synthetase

AIS05306.1

NO

0.39 (0.16)

0.029

Threonyl-tRNA synthetase

AIS05352.1

NO

0.09 (0.16)

0.000

30S ribosomal protein S7

AIS05609.1

NO

9.91 (4.58)

0.000

Elongation factor Tu

AIS05611.1

NO

0.34 (0.05)

0.002

Cysteinyl-tRNA synthetase

AIS05938.1

NO

0.18 (0.11)

0.015

30S ribosomal protein S6

AIS07031.1

NO

3.56 (0.80)

0.004

Translation

50S ribosomal protein L9

AIS07033.1

NO

4.70 (2.06)

0.000

30S ribosomal protein S21

AIS07108.1

YES

4.33 (3.26)

0.040

50S ribosomal protein L21

AIS07586.1

NO

4.45 (2.38)

0.029

Valyl-tRNA synthetase

AIS07599.1

NO

0.17 (0.14)

0.000

30S ribosomal protein S9

AIS07845.1

YES

6.19 (2.19)

0.005

50S ribosomal protein L17

AIS07895.1

YES

15.14 (7.44)

0.025

30S ribosomal protein S11

AIS07898.1

YES

3.40 (1.58)

0.002

50S ribosomal protein L15

AIS07902.1

NO

5.06 (1.54)

0.000

50S ribosomal protein L6

AIS07906.1

YES

5.35 (2.12)

0.000

30S ribosomal protein S8

AIS07907.1

YES

7.52 (1.56)

0.007

50S ribosomal protein L5

AIS07909.1

NO

7.18 (2.38)

0.000

50S ribosomal protein L14

AIS07911.1

NO

5.20 (1.87)

0.002

50S ribosomal protein L22

AIS07916.1

NO

2.03 (0.76)

0.012

50S ribosomal protein L23

AIS07919.1

YES

1.77 (0.58)

0.043

Aminoglycoside phosphotransferase

AIS08113.1

NO

2.88 (4.81)

0.015

  1. The protein profiles produced by A. baumannii grown in modified BALF were performed using iTRAQ reagents and LC-MS/MS. Differential expression was defined by a relative abundance ratio >1.5 and <0.5
  2. aSecretion prediction are based on (SignalP 4.1 (http://www.cbs.dtu.dk/services/SignalP/), Phobius (http://phobius.sbc.su.se/), PrediSi (http://www.predisi.de/), TatP 1.0 (www.cbs.dtu.dk/services/TatP-1.0), Tatfind 1.4 (http://signalfind.org/tatfind.html), SecretomeP 2.0 (www.cbs.dtu.dk/services/SecretomeP), TMHMM (http://www.cbs.dtu.dk/services/TMHMM/), DAS-TMfilter (http://www.enzim.hu/DAS/DAS.html), LipoP 1.0 (www.cbs.dtu.dk/services/LipoP), DOLOP (http://www.mrc-lmb.cam.ac.uk/genomes/dolop/), and LIPO (http://services.cbu.uib.no/tools/lipo))
  3. bAverage relative protein expression level ratio in sample and control, with the standard deviation in parentheses, quantified by Protein Pilot 4.0 software (ABSciex).
  4. cDetermined by Student’s t test. Values of less than 0.05 are considered significant
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BMC Genomics

ISSN: 1471-2164

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