Table 8.
Highly abundant transcripts of B. methanolicus MGA3 a
| Gene name b | Gene product | log-RPKM | Functional category |
|---|---|---|---|
| hps | 3-hexulose-6-phosphate synthase | 12,308 | Carbohydrate transport and metabolism |
| phi | 3-hexulose-6-phosphate isomerase | 8,086 | Carbohydrate transport and metabolism |
| rpiB | Ribose 5-phosphate isomerase | 3,473 | Carbohydrate transport and metabolism |
| pfkC | 6-phosphofructokinase | 1,695 | Carbohydrate transport and metabolism |
| BMMGA3_16000 | F0F1 ATP synthase subunit B | 1,840 | Energy production and conversion |
| yumB | NADH dehydrogenase-like protein YumB | 1,689 | Energy production and conversion |
| gltB | Glutamate synthase [NADPH] small chain | 3,302 | Amino acid transport and metabolism |
| ilvE | Putative aminotransferase | 3,134 | Amino acid transport and metabolism |
| argG | Argininosuccinate synthase | 2,738 | Amino acid transport and metabolism |
| argF | Ornithine carbamoyltransferase | 2,434 | Amino acid transport and metabolism |
| ilvC | Ketol-acid reductoisomerase | 2,265 | Amino acid transport and metabolism |
| argB | Acetylglutamate kinase | 2,207 | Amino acid transport and metabolism |
| argH | Argininosuccinate lyase | 2,187 | Amino acid transport and metabolism |
| BMMGA3_12455 | L-aspartate oxidase | 2,028 | Amino acid transport and metabolism |
| gltA | Glutamate synthase [NADPH] large chain | 1,780 | Amino acid transport and metabolism |
| cysK | Cysteine synthase | 1,758 | Amino acid transport and metabolism |
| BMMGA3_01295 | Putative transcriptional regulator, CopG family | 2,378 | Transcription |
| rpoA | DNA-directed RNA polymerase subunit alpha | 1,670 | Transcription |
| rpmC | 50S ribosomal protein L29 | 7,670 | Translation |
| BMMGA3_00355 | hypothetical protein | 4,650 | Translation |
| rplR | 50S ribosomal protein L18 | 4,412 | Translation |
| rpsG | 30S ribosomal protein S7 | 3,468 | Translation |
| rpl14e | 50S ribosomal protein L14e | 2,607 | Translation |
| rpsJ | 30S ribosomal protein S10 | 2,511 | Translation |
| rplS | 50S ribosomal protein L19 | 2,249 | Translation |
| rpsS | 30S ribosomal protein S19 | 2,204 | Translation |
| rplW | 50S ribosomal protein L23 | 2,004 | Translation |
| ybxF | 50S ribosomal protein L7Ae | 1,977 | Translation |
| rpsU | 30S ribosomal protein S21 | 1,786 | Translation |
| BMMGA3_12500 | hypothetical protein | 1,733 | Translation |
| rplV | 50S ribosomal protein L22 | 1,710 | Translation |
| ykuU | Thioredoxin-like protein | 2,670 | Posttranslational modification, secretion, and vesicular transport |
| groES | co-chaperonin GroES | 2,498 | Posttranslational modification, secretion, and vesicular transport |
| sodA | Superoxide dismutase [Mn] | 2,511 | Inorganic ion transport and metabolism |
| cysC | Adenylyl-sulfate kinase | 1,925 | Defense mechanisms |
| BMMGA3_06005 | hypothetical protein | 5,873 | Function unknown |
| ssb | Single-stranded DNA-binding protein | 4,261 | Function unknown |
| BMMGA3_02575 | hypothetical protein (duf3906) | 1,757 | Function unknown |
| BMMGA3_03940 | small, acid-soluble spore proteins | 1,728 | Function unknown |
| rny | Ribonuclease Y | 2,180 | General function prediction only |
| BMMGA3_15110 | acetyltransferase | 2,110 | General function prediction only |
aTranscript abundance was arbitrarily classified into 5 classes. The RNA abundance is reflected by the log-RPKM value. The data set revealed 21.6% non-transcribed genes, 3.8% genes with low RNA abundance (log-RPKM >0-16), 41.2% genes with middle (log-RPKM >16-160), 32.2% genes with high (log-RPKM >160-1600) and 1.3% genes with very high (log-RPKM >1600) transcript abundance.
bThe genes are sorted according to their functional category.