Table 3.
NCK2608 (Δlba1539) differentially expressed genes in stationary growth phase
| Locus ID | Name | Ratio | COG* |
|---|---|---|---|
| CELLULAR PROCESSES AND SIGNALING | |||
| LBA0833 | ftsW | −1.06 | D |
| LBA1883 | NLP-P60 secreted protein | −2.00 | M |
| LBA1140 | lysin | −1.58 | M |
| LBA0520 | galactosyltransferase | −1.48 | M |
| LBA1743 | cell wall-associated hydrolase | −1.16 | M |
| LBA1744 | glycosidase | −1.13 | M |
| LBA1736 | epsB | −1.09 | M |
| LBA0165 | pepO | −1.40 | O |
| LBA1901 | thioredoxin | −1.38 | O |
| LBA1208 | msrA | −1.25 | O |
| LBA1107 | glutathione reductase | −1.13 | O |
| LBA0096 | htpX | −1.12 | O |
| LBA1659 | response regulator | −1.63 | T |
| LBA0544 | transcriptional regulator | −1.45 | T |
| LBA1132 | ABC transporter component | −1.18 | V |
| LBA0560 | ABC transporter component | −1.07 | V |
| LBA1680 | ABC transporter component | −1.01 | V |
| INFORMATION STORAGE AND PROCESSING | |||
| LBA1519 | pheS | −1.03 | J |
| LBA1899 | transcriptional regulator | −1.44 | K |
| LBA0835 | hypothetical protein | −1.29 | L |
| LBA0797 | radC | −1.04 | L |
| LBA0545 | hypothetical protein | −1.00 | L |
| METABOLISM | |||
| LBA1109 | hypothetical protein | −1.47 | C |
| LBA1220 | pyridine mercuric reductase | −1.45 | C |
| LBA0538 | Na + −H + -exchanging protein | −1.09 | C |
| LBA1896 | asnA | −1.54 | E |
| LBA1961 | oppA | −1.28 | E |
| LBA1177 | iron-sulfur cofactor synthesis | −1.26 | E |
| LBA1045 | ABC transporter component | −1.15 | E |
| LBA1292 | aa transporter | −1.14 | E |
| LBA1658 | prolyl aminopeptidase | −1.04 | E |
| LBA0240 | xanthine phosphoribosyltransferase | −1.40 | F |
| LBA0041 | rtpR | −1.35 | F |
| LBA1631 | deoxyribosyltransferase | −1.24 | F |
| LBA0591 | iunH | −1.18 | F |
| LBA0131 | ribose-p pyrokinase | −1.06 | F |
| LBA0836 | coaD | −1.05 | H |
| LBA0542 | heavy-metal-transporting ATPase | −1.87 | P |
| LBA1771 | ABC transporter component | −1.69 | P |
| LBA0541 | cadA | −1.47 | P |
| LBA0200 | oppB | −1.06 | P |
| POORLY CHARACTERIZED | |||
| LBA0019 | hypothetical protein | −2.87 | S |
| LBA0543 | hypothetical protein | −1.66 | S |
| LBA0493 | aggregation promoting protein | −1.62 | S |
| LBA0834 | hypothetical protein | −1.57 | S |
| LBA1769 | hypothetical protein | −1.52 | S |
| LBA1943 | lipoprotein | −1.40 | S |
| LBA1850 | lysM | −1.23 | S |
| LBA0387 | hypothetical protein | −1.18 | S |
| LBA0208 | hypothetical protein | −1.14 | S |
| LBA1010 | hypothetical protein | −1.03 | S |
| LBA1738 | hflX | −1.01 | S |
| LBA0018 | membrane protein | −1.83 | None |
| LBA1108 | hypothetical protein | −1.59 | None |
| LBA0017 | general stress response | −1.32 | None |
| LBA1221 | hypothetical protein | −1.29 | None |
| LBA0616 | hypothetical protein | 1.01 | M |
| LBA0724 | licT | 1.37 | K |
| LBA1410 | lysR | 1.18 | K |
| LBA1443 | msm operon regulator | 1.06 | K |
| LBA0563 | pyrR | 1.14 | F |
| LBA1558 | purS | 1.11 | F |
| LBA0644 | hypothetical protein | 1.06 | Q |
| LBA0402 | hypothetical protein | 1.02 | None |
| LBA1889 | hypothetical protein | 1.05 | None |
*Clusters of Orthologous Groups (COG) were assigned to significant genes using the EggNOG Database. The categories are as follows: C, Energy production and conversion; E, amino acid transport and metabolism; F, nucleotide transport and metabolism; G, carbohydrate transport and metabolism; H, coenzyme transport and metabolism; I, lipid transport and metabolism; J, translation, ribosomal structure and biogenesis; K, transcription; L, replication, recombination and repair; M, cell wall/membrane/envelope biogenesis; O, post-translational modification, protein turnover, and chaperones; P, inorganic ion transport and metabolism; Q, secondary metabolites biosynthesis, transport, and catabolism; R, general function prediction only; S, function unknown; T, signal transduction mechanisms; V, defense mechanisms