Table 6.
Summary of open reading frames from the Limnobacter thiooxidans genomes that recruited >200 bp of sequence data from the pilot metatranscriptome.
| Predicted function (COG/NOG) | No. of reads mapped* | Limnobacter str. FCMA | Limnobacter str. F1 |
|---|---|---|---|
| Phasin family protein (NOG45042) | 22 | fig|6666666.35448.peg.16 | fig|6666666.35449.peg.2832 |
| Predicted phosphatase (COG3211) | 6 | fig|6666666.35448.peg.473 fig|6666666.35448.peg.1889 |
fig|6666666.35449.peg.2393 |
| Outer membrane receptor proteins, mostly Fe transport (COG1629) | 6 | fig|6666666.35448.peg.2773 fig|6666666.35448.peg.3175 |
|
| Hypothetical | 6 | fig|6666666.35449.peg.589 | |
| ABC-type phosphate transport system, periplasmic component (COG0226) | 4 | fig|6666666.35448.peg.960 | |
| Outer membrane protein and related peptidoglycan-associated (lipo)proteins (COG2885) | 4 | fig|6666666.35448.peg.1998 | fig|6666666.35449.peg.630 |
| Hypothetical | 3 | fig|6666666.35448.peg.3668 | |
| Outer membrane protein (porin) (COG3203) | 3 | fig|6666666.35449.peg.1575 | |
| Uncharacterized protein conserved in bacteria (COG2908) | 3 | fig|6666666.35448.peg.3259 | |
| Galactose oxidase (NOG69967) | 2 | fig|6666666.35448.peg.1616 | |
| NOG268346 | 2 | fig|6666666.35449.peg.1518 | |
| Acetyl-CoA acetyltransferase (COG0183) | 2 | fig|6666666.35448.peg.3397 | |
| Flagellar basal body L-ring protein (COG2063) | 2 | fig|6666666.35448.peg.1203 | |
| Acyl-CoA dehydrogenases (COG1960) | 2 | fig|6666666.35449.peg.422 | |
| ABC-type amino acid transport/signal transduction systems, periplasmic component/domain (COG0834) | 2 | fig|6666666.35449.peg.3136 | |
| Outer membrane receptor for monomeric catechols (TonB dependent siderophore receptor) (COG4774) | 2 | fig|6666666.35448.peg.3444 | |
| FOG: WD40-like repeat (COG1520) | 2 | fig|6666666.35448.peg.3042 | |
| Guanylate kinase (COG0194) | 2 | fig|6666666.35448.peg.2698 | |
| DNA uptake lipoprotein (COG4105) | 2 | fig|6666666.35448.peg.3392 | |
| Ribosomal protein L13 (COG0102) | 2 | fig|6666666.35448.peg.475 | |
| Poly(3-hydroxyalkanoate) synthetase (COG3243) | 2 | fig|6666666.35448.peg.3396 | |
| Transcriptional regulator (COG1309) | 2 | fig|6666666.35449.peg.2988 | |
| Nucleoside-diphosphate-sugar epimerases (COG0451) | 2 | fig|6666666.35448.peg.3380 | |
| Uncharacterized protein conserved in bacteria (COG3490) | 2 | fig|6666666.35448.peg.1509 | |
| Hypotheticals | 2 ea. | fig|6666666.35448.peg.1217 fig|6666666.35448.peg.2235 |
fig|6666666.35449.peg.2646 fig|6666666.35449.peg.3297 fig|6666666.35449.peg.3370 fig|6666666.35449.peg.3550 |
*
Paired sequences from the metatranscriptome were mapped as single reads to the open reading frames of the two sequenced Limnobacter associates. Mapping results are reported where the consensus sequence ≥200 bp. Open reading frames were annotated using the COG and NOG subsets of the eggNOG database (version 3.0).