Table 5.
Essential genes missing in LUCA0.9 and their appearance in versions of LUCA with greater g-valuesa
| Gene name | COG no. | Minimal g-value | Function |
| TRANSLATION AND RIBOSOME BIOGENESIS | |||
| GatC | COG0721 | 1.0 | Asp-tRNAAsn/Glu-tRNAGln amidotransferase C subunit |
| LysU | COG1190 | 1.0 | Lysyl-tRNA synthetase |
| GRS1 | COG0423 | 1.5 | Glycyl-tRNA synthetase |
| CENTRAL METABOLIC PATHWAYS AND SUGAR METABOLISM | |||
| Glycolysis | |||
| PfkA | COG0205 | 1.0 | 6-phosphofructokinase |
| Fba | COG0191 | 1.0 | Fructose bisphosphate aldolase |
| GpsA | COG0240 | 1.0 | Glycerol 3-phosphate dehydrogenase |
| GpmA | COG0588 | 2 | Phosphoglycerate mutase, cofactor-dependent |
| TCA cycle | |||
| AcnA | COG1048 | 1.0 | Aconitase A |
| PorG | COG1014 | 1.0 | Pyruvate:ferredoxin oxidoreductase |
| AceF | COG0508 | 1.0 | Dihydrolipoamide acyltransferases |
| FumC | COG0114 | 1.0 | Fumarase |
| TtdA | COG1951 | 3.0 | Fumarate hydratase class I, N-terminal domain |
| FumA | COG1838 | 3.0 | Fumarate hydratase class I, C-terminal domain |
| Pentose phosphate shunt | |||
| Zwf | COG0364 | 1.0 | Glucose-6-phosphate 1-dehydrogenase |
| NagB | COG0363 | 1.0 | 6-phosphogluconolactonase/Glucosamine-6- |
| MipB | COG0176 | 1.0 | Transaldolase |
| Rpe | COG0036 | 1.0 | Pentose-5-phosphate-3-epimerase |
| RpiA | COG0120 | 1.0 | Ribose 5-phosphate isomerase |
| Gnd | COG0362 | 1.5 | 6-phosphogluconate dehydrogenase |
| NUCLEOTIDE METABOLISM | |||
| Adk | COG0563 | 1.0 | Adenylate kinase and related kinases |
| Cdd | COG0295 | 1.0 | Cytidine deaminase |
| - | COG0590 | 1.0 | Cytosine/adenosine deaminase |
| DeoC | COG0274 | 1.0 | Deoxyribose-phosphate aldolase |
| Gmk | COG0194 | 1.0 | Guanylate kinase |
| PurS | COG1828 | 1.0 | Phosphoribosylformylglycinamidine (FGAM) |
| THY1 (ThyX) | COG1351 | 1.0 | Predicted alternative thymidylate synthase |
| Pnp | COG0005 | 1.0 | Purine nucleoside phosphorylase |
| PyrH | COG0528 | 1.0 | Uridylate kinase |
| Cmk | COG1102 | >3 | Cytidylate kinase |
| Tdk | COG1435 | 1.5 | Thymidine kinase |
| AMINO ACID METABOLISM | |||
| AroG | COG0722 | 3.0 | 3-Deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase |
| AroA | COG2876 | 2.0 | 3-Deoxy-D-arabino-heptulosonate 7-phosphate (DAHP) synthase |
| AroD | COG0710 | 1.5 | 3-dehydroquinate dehydratase |
| AroQ | COG0757 | 1.5 | 3-dehydroquinate dehydratase II |
| AroK | COG0703 | 1.0 | Shikimate kinase |
| TyrB | COG1448 | 3.0 | Aspartate/aromatic aminotransferase |
| HIS2 | COG1387 | 1.0 | Histidinol phosphatase and related PHP family phosphatases |
aAll data are for the genome-tree topology. Only genes for enzymes of central metabolic pathways are included; genes appearing in LUCA at g >1.5 are indicated by shading