Skip to main content
. 2015 Apr 16;7(5):1313–1328. doi: 10.1093/gbe/evv066

Table 1.

Genes for Which Single-gene Phylogenies do not Segregate Clearly by Species (S. aureus / S. epidermidis)

Gene Name Alias Homologs in Other Annotated Genomesa Description Prevalence in S. aureus (n = 181) Prevalence in S. epidermidis (n = 143) Frequency of Species Overlap S. aureus Reference Genomic Positionb S. epidermidis Reference Genomic Positionc
SERP1173 — IS200 family transposase 60 143 1.000 — 1,208,761
SERP2221 — cadmium resistance family protein 75 143 1.000 — 2,258,410
SERP2240 — IS200 family transposase 60 143 1.000 — 2,268,628
SERP2521 mecA Methicillin resistance penicillin-binding protein MecA 110 74 1.000 — 2,578,662
SERP1583 — Mobile element protein 138 136 0.993 — 1,612,684
SERP2501 — SA0056, SE0055 hypothetical protein 98 103 0.990 — 2,561,164
SERP2422 — FIG01108158: hypothetical protein 181 142 0.979 — 2,482,195
SERP1588 — Mobile element protein 139 139 0.971 — 1,617,610
SAR1828 tnpR SH1761 (S. haemolyticus) DNA-invertase transposon Tn552 121 75 0.960 1,911,329 —
SAR0374 — SA1829, SACOL0896 Hypothetical SAV0790 homolog in superantigen-encoding pathogenicity islands SaPI 84 47 0.957 414,760 —
SERP1579 — Mobile element protein 137 131 0.954 — 1,610,300
SERP2526 — Mobile element protein 137 131 0.947 — 2,581,912
SERP2499 ccrB Cassette chromosome recombinase B 108 93 0.903 — 2,560,296
SERP2467 — FIG01108090: hypothetical protein 113 123 0.885 — 2,521,017
SERP2504 — SA0054, SE0030 FIG01108090: hypothetical protein 113 123 0.876 — 2,562,086
SERP2496 — SA0059 hypothetical protein 107 86 0.872 — 2,557,063
SERP2498 ccrA Cassette chromosome recombinase A 108 84 0.857 — 2,558,646
SERP0249 — SA0026, SA0034, SE0071, SE0079, SE0090 IS431mec-like transposase 137 131 0.825 — 257,823
SAR1893 — SACOL1857 hypothetical protein [Genomic island νSaβ2] 110 44 0.750 1,977,960 —
SAR0382 — SA1820, SAV0800 Putative terminase, superantigen-encoding pathogenicity islands SaPI 121 92 0.728 421,037 —
SERP2495 — SA0060 FIG01108228: hypothetical protein 72 48 0.667 — 2,555,270
SAR0377 — SA1826, SACOL0900 Hypothetical SAV0794 homolog in superantigen-encoding pathogenicity islands SaPI 91 56 0.643 417,811 —
SERP2453 — hypothetical protein 181 142 0.585 — 2,506,887
SERP2431 arsC-2 SAR0692 Arsenate reductase (EC 1.20.4.1) 105 139 0.581 — 2,489,753
SERP0209 arsC-1 SAR0692 Arsenate reductase (EC 1.20.4.1) 105 143 0.559 — 221,772
SAR2594 — SE0212, SA2302 ABC transporter ATP-binding protein 181 74 0.554 2,679,952 —
SERP2503 — SA0057 FIG01107894: hypothetical protein 108 108 0.546 — 2,561,562
SERP2423 — FIG01108158: hypothetical protein 181 142 0.536 — 2,483,315
SERP2465 — lipoprotein 181 142 0.521 — 2,519,564
SERP1460 blaR1-1 Beta-lactamase regulatory sensor-transducer BlaR1 132 115 0.513 — 1,526,822
SERP2515 — SA0044 Disulfide bond regulator 124 111 0.468 — 2,571,330
SERP0265 — Mobile element protein 173 142 0.462 — 272,732
SAR2595 — SA2303, SE0213 Membrane spanning protein 181 61 0.443 2,680,724 —
SERP2520 mecR1 Methicillin resistance regulatory sensor-transducer MecR1 104 69 0.413 — 2,576,556
SERP1370 — Cadmium resistance protein 75 143 0.350 — 1,428,085
SERP2434 — SA0046 Disulfide bond regulator 124 111 0.315 — 2,492,038
SERP2452 — Conserved domain protein 62 79 0.304 — 2,506,105
SERP0479 — Mobile element protein 162 143 0.284 — 476,253
SERP2491 — SA1014 hypothetical protein 181 141 0.276 — 2,551,832
SAR2392 — SA2101 Hypothetical protein 181 142 0.254 2,461,526 —
SERP2435 — SA0043 Zn-dependent hydroxyacylglutathione hydrolase / Polysulfide binding protein 127 110 0.181 — 2,493,385
SAR0698 tnp SACOL0036, SE0629 Putative transposase 138 109 0.174 743,744 —
SERP2513 — SA0046 FIG003846: hypothetical protein 124 112 0.143 — 2,569,855
SERP2443 — FIG01110589: hypothetical protein 181 142 0.127 — 2,500,392
SERP2429 arsR-2 SA1591, SAR0690, SE0136 Arsenical resistance operon repressor 181 134 0.119 — 2,488,047
SAR0445 lpl5 SA0401 Tandem lipoprotein within Pathogenicity island 173 99 0.104 473,389 —
SERP2432 — SA0080 FIG003846: hypothetical protein 124 112 0.054 — 2,490,572
SERP2451 — Tandem lipoprotein within Pathogenicity island 181 139 0.044 — 2,505,694
SERP2418 — FIG01109629: hypothetical protein 180 128 0.033 — 2,479,100
SAR0248 — SA0243, SA0247, SE0321, SERP0198 Teichoic acid biosynthesis protein B 179 142 0.021 290,744 —
SERP2445 — FIG01108771: hypothetical protein 181 142 0.021 — 2,501,497
SERP0369 — Mobile element protein 176 143 0.017 — 367,885
SERP0478 — Mobile element protein 176 143 0.017 — 476,113
SERP1393 — Mobile element protein 176 143 0.017 — 1,449,378
SERP1995 — Mobile element protein 176 143 0.017 — 2,014,786
SERP2002 — Mobile element protein 176 143 0.017 — 2,020,995
SERP2268 — Mobile element protein 176 143 0.017 — 2,301,670
SERP2323 — Mobile element protein 176 143 0.017 — 2,360,017
SERP2447 — FIG01108158: hypothetical protein 181 142 0.017 — 2,502,826
SERP2163 — Mobile element protein 177 143 0.011 — 2,192,271
SERP2390 sspB Staphopain A precursor (EC 3.4.22.48) 180 141 0.006 — 2,441,865
SERP0465 — Cobalt–zinc–cadmium resistance protein 181 142 0.006 — 467,605

aAs inferred from the AureusDB website: http://aureusdb.biologie.uni-greifswald.de/ (last accessed April 22, 2015).

bPosition on the reference genome of S. aureus strain MRSA252 [GenBank accession: NC_002952].

cPosition on the reference genome of S. epidermidis strain RP62A [GenBank accession: NC_002976].