TABLE 2 .
Prochlorococcus metabolic pathways with transcripts that were consistently enriched during the first 5 h of extended darknessa
| Condition and pathwayb | Transcript(s) in pathway exhibiting significant differential enrichment | P valuec |
|---|---|---|
| Enriched in both axenic cultures and coculture | ||
| Acetyl-CoA biosynthesis, carboxylate degradation | acoA, lpd, pdhB | 1.3E−02 |
| Degradation/utilization/assimilation |
acoA, deoC, gldA, glpX, gltB, lpd, murQ, pdhB, pgi, prkB, rpi, tpiA, truB, PMN2A_1709, PMN2A_1584 |
6.6E−02 |
| Generation of precursor metabolites and energy |
acnB, acoA, glpX, icd, lpd, ndhH, petC, petD, pgi, pdhB, prkB, psaD, psbB, pykF, rpi, tal, tpiA, PMN2A_1709 |
1.7E−02 |
| Secondary metabolite biosynthesis | dxs, gldA, ispE, ispG, lytB, pykF, tpiA | 4.6E−02 |
| Sugar degradation | deoC, pgi, PMN2A_1709 | 3.0E−03 |
| Enriched only in axenic cultures | ||
| Alcohol biosynthesis degradation, glycerol degradation |
gldA, pykF, tpiA | 1.5E−02 |
| CO2 fixation | glpX, prkB, rpi, tpiA | 1.2E−02 |
| Fatty acid and lipid biosynthesis | accA, accC, fabI, lpxC, PMN2A_1785 | 1.5E−02 |
| Fermentation | acnB, icd, pdhB, pykF, PMN2A_1709 | 1.0E−03 |
| Photosynthesis | glpX, tpiA, prkB, rpi, psaD, psbB, petD | 2.0E−03 |
| Respiration | acnB, icd, lpd, pdhB, pykF | 4.0E−02 |
| RubisCO shunt | prkB, pykF, rpi | 5.5E−02 |
| Unsaturated fatty acid biosynthesis | fabI, PMN2A_1785 | 3.6E−02 |
| Enriched only in coculture | ||
| Adenine and adenosine salvage | apt | 6.8E−02 |
| Lipoate salvage | lplA | 6.8E−02 |
| Proteinogenic amino acid degradation | lpd, gltB, PMN2A_1709 | 1.0E−01 |
| Purine nucleotide degradation | truB | 6.8E−02 |
| Terpenoid biosynthesis | dxs, ispG, ispE, lytB | 6.0E−03 |
| Tetrapyrrole biosynthesis | hemB, hemD | 7.5E−02 |
a
Prochlorococcus metabolic pathways with transcripts that were consistently enriched during the first 5 h of extended darkness (36- and 40-h time points) relative to the controls grown on a 13:11 diel light:dark cycle. Additional details on these and other significantly enriched transcripts can be found in Table S3.
b
Pathway definitions are from BioCyc (75). Acetyl-CoA, acetyl-coenzyme A.
c
P value indicates the result of a Fisher significance test (PathwayTools).