Table 3.
Proteins significantly changed in abundance in both ΔmotB and ΔflgE mutants relative to wild-type (ratio ≥1.5 and ≤0.67, p < 0.05).
| Locus tag | Protein description | Wild-type abundancea | ΔmotB ratiob | ΔflgE ratiob | COGc |
|---|---|---|---|---|---|
| TDE0114 | Iron-dependent transcriptional regulator | 3.46E+07 | 0.59 | 0.55 | K |
| TDE0119 | Flagellar protein FliS | 1.49E+06 | 0.00 | 2.71 | N |
| TDE0383 | Hypothetical protein | 5.62E+06 | 0.00 | 0.00 | S |
| TDE0423 | Hypothetical protein | 1.85E+07 | 0.27 | 0.53 | – |
| TDE0463 | Purine nucleoside phosphorylase (DeoD) | 5.41E+07 | 0.55 | 0.62 | F |
| TDE0501 | Hypothetical protein | 9.24E+06 | 0.00 | 0.50 | – |
| TDE0689 | 5-Methylthioribose kinase | 1.51E+06 | 0.00 | 0.00 | S |
| TDE0758 | Iron compound ABC transporter, periplasmic iron compound-binding protein, putative | 6.66E+06 | 4.14 | 0.23 | P |
| TDE0781 | Ribosomal protein S8 (rpsH) | 4.62E+07 | 1.61 | 0.65 | J |
| TDE0984 | Oligopeptide/dipeptide ABC transporter, permease protein, putative | 5.71E+06 | 8.79 | 0.00 | P |
| TDE0985 | Oligopeptide/dipeptide ABC transporter, periplasmic peptide-binding protein, putative | 3.22E+08 | 5.20 | 0.33 | E |
| TDE0986 | Oligopeptide/dipeptide ABC transporter, ATP-binding protein | 2.92E+06 | 12.92 | 0.00 | P |
| TDE1004 | Flagellar filament core protein (FlaB) | 5.28E+08 | 0.24 | 0.01 | N |
| TDE1208 | DNA topoisomerase I (TopA) | 6.03E+07 | 1.93 | 1.79 | L |
| TDE1234 | Hypothetical protein | 3.64E+05 | 3.81 | 1.51 | – |
| TDE1318 | Hypothetical protein | 7.60E+05 | 0.00 | 0.00 | – |
| TDE1408 | Flagellar filament outer layer protein (FlaA) | 5.92E+08 | 0.29 | 0.04 | N |
| TDE1409 | Flagellar filament outer layer protein (FlaA) | 5.59E+08 | 0.28 | 0.04 | N |
| TDE1483 | Conserved hypothetical protein | 1.28E+08 | 1.52 | 0.30 | S |
| TDE1712 | Flagellar filament outer layer protein (FlaA) | 1.85E+09 | 0.18 | 0.02 | N |
| TDE1727 | Conserved hypothetical protein | 1.03E+08 | 0.54 | 0.46 | O |
| TDE1754 | Desulfoferrodoxin/neelaredoxin | 6.80E+07 | 2.71 | 0.54 | C |
| TDE1919 | Conserved domain protein | 1.64E+07 | 0.63 | 1.90 | S |
| TDE2043 | Signal recognition particle-docking protein FtsY (ftsY) | 5.55E+06 | 0.00 | 0.64 | U |
| TDE2085 | Amino acid kinase family protein | 7.21E+07 | 0.46 | 1.55 | F |
| TDE2087 | Translation initiation factor IF-1 (infA) | 4.30E+07 | 1.68 | 0.61 | J |
| TDE2302 | HD domain protein | 1.09E+07 | 0.00 | 0.64 | T |
| TDE2353 | Flagellar hook-associated protein (FlgL) | 1.83E+06 | 0.00 | 0.59 | N |
| TDE2611 | Conserved hypothetical protein | 2.62E+06 | 0.32 | 1.52 | S |
| TDE2721 | Helicase domain protein | 3.38E+06 | 2.70 | 0.67 | L |
| TDE2764 | Flagellar protein FliL | 6.46E+07 | 0.12 | 0.50 | N |
| TDE2765 | Flagellar motor rotation protein B (MotB) | 3.44E+07 | 0.00 | 0.35 | N |
| TDE2766 | Motility protein A (MotA) | 3.46E+07 | 0.42 | 0.44 | N |
| TDE2768 | Flagellar hook protein FlgE | 4.39E+07 | 0.33 | 0.00 | N |
| TDE2779 | Hypothetical protein | 5.95E+07 | 0.10 | 0.31 | – |
Shading indicates proteins predicted to be organized in an operon.
The abundance of each protein in the wild-type T. denticola wild-type was calculated from the average IBAQ intensity from three replicates.
Geometric mean of ratios, from three replicates, produced from the LFQ intensity of protein in mutant relative to that of protein in wild-type. Ratio of ≥1.5 indicates that the protein had increased in abundance in mutant relative to wild-type and ratio of ≤0.67 indicates that the protein had decreased in abundance in mutant relative to wild-type. Zero ratio indicates that the protein was identified in ATCC 33520 but not in the mutant.
One-letter abbreviations for the functional COG categories: J, translation, ribosomal structure and biogenesis; K, transcription; L, replication, recombination and repair; D, cell cycle control, cell division, chromosome partitioning; V, defense mechanisms; T, signal transduction mechanisms; M, cell wall/membrane/envelope biogenesis; N, cell motility; U, intracellular trafficking, secretion, and vesicular transport; O, post-translational modification, protein turnover, chaperones; C, energy production and conversion; G, carbohydrate transport and metabolism; E, amino acid transport and metabolism; F, nucleotide transport and metabolism; H, coenzyme transport and metabolism; I, lipid transport and metabolism; P, inorganic ion transport and metabolism; Q, secondary metabolites biosynthesis, transport and catabolism; R, general function prediction only; S, function unknown.