Table 2. The usage of +4U (PU) in 100 nonpseudo and nonhypothetical UAA, UAG, and UGA-ending HEGs and LEGs, ranked by ITE, in 19 bacterial species, together with the species’ accession number and genomic GC content.
Species Name | Accession | GC% | UAA | UAG | UGA | |||
---|---|---|---|---|---|---|---|---|
PU.HEG | PU.LEG | PU.HEG | PU.LEG | PU.HEG | PU.LEG | |||
Microcystis aeruginosa | NC_010296 | 42.331 | 0.41 | 0.19 | 0.26 | 0.5 | 0.33 | 0.2 |
Bacillus anthracis | NC_005945 | 35.379 | 0.77 | 0.24 | 0.34 | 0.26 | 0.31 | 0.21 |
Bacillus subtilis | NC_000964 | 43.514 | 0.63 | 0.21 | 0.2 | 0.13 | 0.32 | 0.33 |
Staphylococcus aureus | NC_002758 | 32.878 | 0.79 | 0.35 | 0.36 | 0.33 | 0.49 | 0.40 |
Listeria monocytogenes | NC_003210 | 37.981 | 0.53 | 0.28 | 0.2 | 0.22 | 0.32 | 0.35 |
Streptococcus pyogenes | NC_002737 | 38.512 | 0.59 | 0.23 | 0.31 | 0.28 | 0.52 | 0.45 |
Lactococcus lactis | NC_002662 | 35.329 | 0.64 | 0.23 | 0.34 | 0.37 | 0.34 | 0.32 |
Deinococcus deserti | NC_002937 | 63.388 | 0.17 | 0.10 | 0.10 | 0.12 | 0.14 | 0.18 |
Bacteroides thetaiotaomicron | NC_004663 | 42.837 | 0.66 | 0.33 | 0.36 | 0.21 | 0.45 | 0.33 |
Escherichia coli | NC_000913 | 50.791 | 0.62 | 0.3 | 0.42 | 0.27 | 0.7 | 0.39 |
Salmonella enterica | NC_003197 | 52.222 | 0.57 | 0.35 | 0.36 | 0.27 | 0.6 | 0.35 |
Yersinia pestis | NC_003143 | 47.636 | 0.63 | 0.35 | 0.39 | 0.31 | 0.66 | 0.45 |
Shewanella oneidensis | NC_004347 | 45.961 | 0.7 | 0.29 | 0.32 | 0.27 | 0.43 | 0.36 |
Neisseria meningitidis | NC_003112 | 51.528 | 0.52 | 0.14 | 0.32 | 0.28 | 0.56 | 0.25 |
Legionella pneumophila | NC_002942 | 38.27 | 0.37 | 0.39 | 0.33 | 0.27 | 0.39 | 0.29 |
Acidithiobacillus ferrooxidans | NC_011761 | 58.773 | 0.28 | 0.29 | 0.16 | 0.19 | 0.32 | 0.26 |
Campylobacter jejuni | NC_002163 | 30.549 | 0.47 | 0.25 | 0.32 | 0.32 | 0.34 | 0.42 |
Desulfovibrio vulgaris | NC_002937 | 63.388 | 0.18 | 0.2 | 0.18 | 0.2 | 0.27 | 0.22 |
Mycobacterium tuberculosis | NC_000962 | 65.615 | 0.19 | 0.16 | 0.18 | 0.2 | 0.21 | 0.26 |
A value of 0.26 under UAA/PU.HEG means 26 genes out of 100 UAA-ending HEGs have +4U. Horizontal lines delineate major taxonomic groups corresponding to Figure 1. HEG, highly-expressed gene; LEG, lowly-expressed gene.