Table 4.
H. volcanii genes with a differential translational repression in exponential phase or in stationary phase*1
| Translational repression factor | ||||||||
|---|---|---|---|---|---|---|---|---|
| Identifier | Putative function | length (bp) | exp | stat | ||||
| ∅ | SD | n | ∅ | SD | n | |||
| 451B11 | Inosine monophosphate dehydrogenase | 365 | 49.7 | 56.0 | 3 | 8.8 | 2.9 | 3 |
| 431C4 | Phage integrase-site-specific recombinase Xer | 644 | 17.5 | 19.8 | 2 | 1.9 | 1.2 | 2 |
| Conserved hypothetical protein | 528 | |||||||
| 432A4 | NAD dependent epimerase-dehydratase | 770 | 12.8 | 5.6 | 4 | 5.4 | 2.9 | 3 |
| 439E12 | Tfb2 – transcription initiation factor IIB | 590 | 10.4 | 9.0 | 3 | 1.6 | 0.3 | 2 |
| 435D7 | Nitrate transporter NarK | 606 | 7.6 | 3.8 | 4 | 3.0 | 1.1 | 3 |
| 431H5 | Alpha amylase AglA | 613 | 5.4 | 0.5 | 2 | 2.4 | 1.3 | 3 |
| Nitrate transporter NarK | 455 | |||||||
| 435A4 | 4.7 | 2.7 | 3 | 1.4 | 0.8 | 2 | ||
| 437B8 | HoxA-like transcriptional regulator (Hrg) | 578 | 4.5 | 0.1 | 2 | 1.5 | 0.3 | 3 |
| Transcription regulator | 413 | |||||||
| 453C11 | Tfb2 – transcription initiation factor IIB | 335 | 3.6 | 0.3 | 2 | 1.9 | 0.9 | 3 |
| 451G12 | Hypothetical protein | 581 | 2.5 | 0.3 | 2 | 0.9 | 0.9 | 2 |
| Conserved hypothetical protein | 441 | |||||||
| 433F2 | Glycosyltransferase | 953 | 2.3 | 1.4 | 3 | 0.5 | 0.1 | 3 |
| Stage V sporulation protein R-like (SpoVR) | 593 | |||||||
| 435F2 | CRISPR-associated protein, TM1814 family (Cas6) | 222 | 8.6 | 3.5 | 4 | 21.9 | 12.7 | 3 |
| 432H1 | Methyltransferase type 11 | 415 | 5.0 | 4.2 | 2 | 13.1 | 2.7 | 3 |
| Hypothetical protein | 362 | |||||||
| Domain of unknown function (DUF309) family | 232 | |||||||
| 443B4 | Transposase (Tnp) | 518 | 4.5 | 0.8 | 4 | 7.9 | 3.5 | 3 |
| 441F8 | Tat pathway signal sequence domain protein | 1008 | 2.2 | 0.1 | 3 | 4.8 | 2.6 | 3 |
| 459C3 | Cell surface glycoprotein (Csg) | 1167 | 1.1 | 0.3 | 4 | 3.9 | 2.0 | 3 |
| 445E9 | 0.6 | 0.4 | 2 | 3.3 | 0.2 | 2 | ||
| 433A10 | Helicase family protein | 1307 | 1.1 | 0.2 | 2 | 3.3 | 2.1 | 3 |
| Hypothetical protein | 431 | |||||||
| 441E1 | DSBA-like thioredoxin domain protein | 683 | 1.3 | 0.1 | 2 | 2.8 | 1.7 | 3 |
| Ferredoxin like protein | 377 | |||||||
| Mut-nudix family protein | 363 | |||||||
| 443C1 | Ubiquinol oxidase subunit I, cyanide insensitive (CydA) | 1391 | 0.9 | 0.1 | 3 | 2.4 | 1.1 | 3 |
| 431D10 | Solute-binding periplasmic ABC transporter | 1148 | 1.0 | 0.1 | 3 | 2.3 | 0.4 | 2 |
| ABC transporter, permease protein | 475 | |||||||
| 452E1 | Ferrichrome-binding protein | 848 | 1.2 | 0.3 | 4 | 2.3 | 0.6 | 3 |
| 451E8 | Ribonuclease HII (RnhB) | 579 | 1.1 | 0.5 | 4 | 2.2 | 0.7 | 3 |
| Preprotein-export translocase chain SecD | 408 | |||||||
| 460F5 | Preprotein-export translocase chain SecD | 988 | 1.2 | 0.6 | 3 | 2.2 | 0.2 | 3 |
| 440D1 | Conserved hypothetical protein | 992 | 1.0 | 0.1 | 3 | 2.0 | 0.0 | 2 |
| 444G9 | Conserved hypothetical protein | 1120 | 0.5 | 0.1 | 3 | 2.0 | 0.4 | 3 |
| Fibronectin type III domain protein | 408 | |||||||
*1All genes are tabulated which have a "translational repression factor" of ≥2 differentially in exponential phase (upper part) or in stationary phase (lower part). The translational repression factor is the quotient of free RNA to polysome-bound RNA (normalized to the average of all genes). The identifier is the clone designation in the onefold coverage genome library used to generate the shotgun DNA microarray [41]. The "putative functions" are derived from blast searches against public databases. The "length" is the partial or total length of the gene which is present in the respective clone. The columns ∅, SD and n list average value, standard deviation and number of biological replicates included in the analysis.