Table 4.
Change in protein expression in response to nitrogen and carbon-nitrogen limitation in comparison with carbon-limitation
| Locus tag | Gene symbol | Protein | Transcript | ||||
|---|---|---|---|---|---|---|---|
| D.E | Peptides No.a | Fold change | P-value | ||||
| Differential protein expression of CN vs. C | |||||||
| Energy metabolism | |||||||
| ATP synthase F1, α-sub | PP5415 | AtpA | only in CN | 12 | ND | ND | |
| Glycogen debranching | PP4055 | GlgX | 4.5 | 20 | 1.9 | 0.05 | |
| Acetolactate synthase | PP3365 | 3.5 | 15 | -1.0 | n.s. | ||
| Isocitrate dehydrogenase | PP4011 | ICD | -5.0 | 28 | -1.4 | n.s. | |
| Acetoin dehydrogenase¥ α-sub | PP0555 | AcoA | -4.0 | 7 | -8.3 | 0 | |
| Acetoin dehydrogenase β-sub | PP0554 | AcoB | -5.6 | 23 | -4.2 | 0 | |
| Acetoin dehydrogenase | PP0553 | AcoC | -3.7 | 10 | -4.0 | 0 | |
| Nitrogen metabolism | |||||||
| Nitrogen regulatory protein P-II | PP5234 | GlnK | only in CN | 6 | 10.4 | 0 | |
| Protein synthesis | |||||||
| Elongation factor Tu | PP0452 | TUF-2 | only in CN | 16 | -1.6 | n.s. | |
| Amino acid transport and biosynthesis | |||||||
| Branched-chain amino acid ABC trans | PP4841 | LivK | 26.4 | 22 | 4.5 | 0 | |
| Glutamine synthetase | PP5046 | GlnA | 2.2 | 28 | 1.0 | n.s. | |
| Signal transduction | |||||||
| Response regulator | PP5048 | NtrC | 6.7 | 43 | 1.7 | n.s. | |
| Transport and binding protein | |||||||
| Outer membrane porin | PP1206 | OprD | 2.7 | 11 | -1.1 | n.s. | |
| Outer membrane porin | PP2089 | OprF | 2.6 | 21 | 1.2 | n.s. | |
| Purine ribonucleotide biosynthesis | |||||||
| adenylosuccinate synthetase | PP4889 | PurA | -4.4 | 16 | -1.1 | n.s. | |
| Hypothetical protein | PP2384 | -2.8 | 6 | 1.5 | n.s. | ||
| Protein fate | PP0980 | PepA | -2.3 | 30 | 1.0 | n.s. | |
| Differential protein expression of N vs. C | |||||||
| Energy metabolism | |||||||
| Succinyl-CoA synthetase | PP4185 | SucD | only in N | 8 | 1.2 | n.s. | |
| ATP synthase F1, alpha sub | PP5415 | AtpA | only in N | 13 | ND | ND | |
| Glycogen debranching | PP4055 | GlgX | 12.3 | 31 | 2.4 | n.s. | |
| Electron transfer flavoprotein | PP4203 | 4.5 | 36 | 0.90 | n.s. | ||
| Succinate dehydrogenase | PP4191 | SdhA | 3.9 | 23 | 2.8 | n.s. | |
| NADH dehydrogenase I | PP4123 | NuoF | 2.9 | 15 | 2.4 | n.s. | |
| Glycosyl hydrolase | PP4053 | 2.6 | 21 | 3.0 | n.s. | ||
| Phosphoenolpyruvate synthase | PP2082 | PpsA | 2.4 | 24 | 1.5 | n.s. | |
| Acetoin dehydrogenase β-sub | PP0554 | AcoB | only in C | 23 | -4.0 | 0 | |
| Acetoin dehydrogenase | PP0553 | AcoC | only in C | 10 | -5.3 | 0 | |
| Malate synthase | PP0356 | GlcB | -9.1 | 9 | -1.2 | n.s. | |
| Aldehyde dehydrogenase | PP0545 | GlcB | -5.9 | 19 | -1.9 | n.s. | |
| thioredoxin reductase | PP0786 | TrxB | -5.6 | 11 | 1.3 | n.s. | |
| Isocitrate lyase | PP4116 | AceA | -4.2 | 19 | 1.3 | n.s. | |
| Isocitrate dehydrogenase | PP4011 | ICD | -2.1 | 14 | 1.1 | n.s. | |
| Fatty acid metabolism | |||||||
| 3-hydroxyacyl-CoA dehydrogenase | PP2047 | only in N | 18 | 20.9 | 0 | ||
| Acetyl-CoA acetyltransferase | PP2051 | AtoB | only in N | 20 | 27.9 | 0 | |
| acetyl-CoA carboxylase | PP0558 | AccC-1 | 8.3 | 27 | 1.3 | n.s. | |
| Fatty oxidation complex α-sub | PP2136 | FadB | 3.1 | 13 | 2.3 | n.s. | |
| 3-oxoacyl-CoA thiolase | PP2137 | FadA | 3.0 | 23 | 2.4 | n.s. | |
| Fatty-acid CoA ligase | PP0763 | -2.9 | 15 | -1.1 | n.s. | ||
| Transport and binding protein | |||||||
| Outer membrane porin | PP2089 | OprF | 5.4 | 17 | 1.4 | n.s. | |
| ABC transporter | PP1726 | -25.0 | 15 | 1.2 | n.s. | ||
| Amino acid transport and biosynthesis | |||||||
| Branched-chain amino acid ABC | PP4864 | only in N | 9 | -1.1 | n.s. | ||
| Amino acid biosynthesis | PP5046 | GlnA | 16.0 | 17 | 1.5 | n.s. | |
| Hydantoin racemase | PP4310 | 8.8 | 15 | 1.2 | n.s. | ||
| General amino acid ABC transporter | PP1300 | AapP | 4.0 | 16 | 1.1 | n.s. | |
| amino acid ABC transporter | PP1071 | only in C | 23 | -2.0 | n.s. | ||
| amino acid ABC transporter | PP0282 | -33.3 | 15 | -1.2 | n.s. | ||
| Branched-chain amino acid ABC | PP4867 | -16.7 | 11 | 1.8 | n.s. | ||
| Dipeptide ABC transporter | PP0885 | -5.0 | 22 | 1.2 | n.s. | ||
| Amino acid biosynthesis | PP0671 | GlyA-2 | -3.6 | 20 | -1.3 | n.s. | |
| Cell envelope | |||||||
| Outer membrane protein H1 | PP1185 | OprH | only in N | 8 | 6.6 | 0.01 | |
| Cellular processes | |||||||
| Small multidrug resistance | PP4930 | 4.9 | 216 | 1.1 | n.s. | ||
| superoxide dismutase | PP0915 | SodB | -20.0 | 4 | -1.3 | n.s. | |
| DNA interactions | |||||||
| Transcriptional regulator, LysR | PP5375 | -12.5 | 5 | -1.5 | n.s. | ||
| C4-type zinc finger protein | PP4693 | -11.1 | 5 | 1.4 | n.s. | ||
| Protein fate | |||||||
| ATP-dependent Clp protease | PP2300 | only in N | 7 | 1.2 | n.s. | ||
| Protein synthesis | |||||||
| Elongation factor-G | PP0451 | FusA-1 | 20.0 | 26 | 1 | n.s. | |
| Hypotetical protein | PP2050 | 9.4 | 10 | 28.4 | 0 | ||
| Purine ribonucleotide biosynthesis | PP0722 | PrsA | 6.6 | 24 | 2.0 | n.s. | |
| Cell division | PP1342 | FtsZ | -7.1 | 5 | 1.0 | n.s. | |
| Nucleoside interconversions | PP0849 | NDK | -3.3 | 6 | 1.2 | n.s. | |
| Biosynthesis of co-factors | PP0842 | IscS-1 | -2.9 | 18 | 1.3 | n.s. | |
| Chemotaxis and motility | PP4366 | FliL | -2.3 | 7 | 1.3 | n.s. | |
¥ Bold font indicates matching between protein and transcript changes
aAmount of peptides utilized for protein identification
ND, Not determined
n.s., P-value not significant (> 0.05)