Table 1.
Marker genes from biofilm UMAP clusters, p-values are FDR-adjusted
| Cluster | Gene symbol | Locus tag | Product | TIGRFAM main role | TIGRFAM sub role | Log2 fold-change | Adj. p-value |
|---|---|---|---|---|---|---|---|
| 0 | sasA | SAUSA300_RS14395 | Serine-rich repeat glycoprotein adhesin SasA | Virulence | Virulence | 0.25 | 4.0E-15 |
| pnpA | SAUSA300_RS06315 | Polyribonucleotide nucleotidyltransferase | Transcription | Degradation of RNA | 0.24 | 4.0E-15 | |
| - | SAUSA300_RS04570 | Sodium:proton antiporter, TRAP transporter- DctM subunit | Transport and binding proteins | Carbohydrates, organic alcohols, and acids | 0.20 | 4.4E-12 | |
| - | SAUSA300_RS09575 | ATP-binding protein, DnaA regulatory inactivator Hda | DNA metabolism | DNA replication, recombination, and repair | 0.16 | 5.6E-06 | |
| - | SAUSA300_RS06415 | Energy coupling factor transporter S component ThiW | Biosynthesis of cofactors, prosthetic groups, and carriers; Transport and binding proteins | Thiamine; Other | 0.16 | 2.3E-08 | |
| 1 | citB | SAUSA300_RS06765 | Aconitate hydratase | Energy metabolism | TCA cycle | 1.33 | 8.3E-66 |
| ltaS | SAUSA300_RS03775 | Lipoteichoic acid synthase | Cell envelope | Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides | 1.28 | 3.2E-65 | |
| isdH | SAUSA300_RS09160 | Iron-regulated surface determinant protein H | Transport and binding proteins | Cations and iron-carrying compounds | 1.11 | 1.3E-48 | |
| - | SAUSA300_RS15340 | RNase P RNA component class B | - | - | 1.07 | 7.0E-43 | |
| ebpS | SAUSA300_RS07485 | Elastin-binding protein EbpS | Virulence | Virulence | 0.35 | 1.3E-05 | |
| 2 | rpoB | SAUSA300_RS02820 | DNA-directed RNA polymerase subunit beta | Transcription | DNA-dependent RNA polymerase | 6.43 | <1.0E-323 |
| - | SAUSA300_RS01265 | Nucleoside hydrolase, translation initiation factor 2 gamma subunit | - | - | 0.45 | 3.8E-09 | |
| - | SAUSA300_RS01440 | MFS transporter | Cellular processes; Transport and binding proteins | Toxin production and resistance; Other | 0.34 | 3.9E-02 | |
| rpsC | SAUSA300_RS12120 | 30S ribosomal protein S3 | Protein synthesis | Ribosomal proteins: synthesis and modification | 0.30 | 1.1E-02 | |
| ispA | SAUSA300_RS08025 | Geranyltranstransferase | Biosynthesis of cofactors, prosthetic groups, and carriers | Menaquinone and ubiquinone | 0.29 | 6.1E-04 | |
| 3 | clfB | SAUSA300_RS14270 | Clumping factor B | Virulence | Virulence | 6.75 | <1.0E-323 |
| cspB | SAUSA300_RS14655 | Cold-shock protein | DNA metabolism; Cellular processes | DNA replication, recombination, and repair; Adaptations to atypical conditions | 0.75 | 2.0E-06 | |
| arcA | SAUSA300_RS14295 | Arginine deiminase | Energy metabolism | Amino acids and amines | 0.50 | 9.6E-11 | |
| fnbB | SAUSA300_RS13525 | Fibronectin-binding protein B | Virulence | Virulence | 0.47 | 2.4E-05 | |
| - | SAUSA300_RS14010 | Fructosamine kinase family protein | - | - | 0.45 | 9.0E-08 | |
| 4 | qoxA | SAUSA300_RS05175 | Quinol oxidase subunit 2 | Energy metabolism | Electron transport | 7.32 | <1.0E-323 |
| hemY | SAUSA300_RS09750 | Protoporphyrinogen oxidase | Biosynthesis of cofactors, prosthetic groups, and carriers | Heme, porphyrin, and cobalamin | 0.54 | 9.4E-03 | |
| ulaA | SAUSA300_RS01755 | PTS ascorbate transporter subunit IIC | - | - | 0.50 | 1.5E-02 | |
| bglR | SAUSA300_RS01375 | GntR family transcriptional regulator | Regulatory functions | DNA interactions | 0.38 | 7.3E-03 | |
| rplY | SAUSA300_RS02575 | 50S ribosomal protein L25/general stress protein Ctc | Protein synthesis | Ribosomal proteins: synthesis and modification | 0.36 | 7.3E-03 | |
| 5 | gpmA | SAUSA300_RS13045 | 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase | - | - | 6.29 | <1.0E-323 |
| thiW | SAUSA300_RS05255 | ABC transporter ATP-binding protein | Transport and binding proteins | Unknown substrate | 2.28 | 6.5E-21 | |
| - | SAUSA300_RS12980 | Zinc ABC transporter substrate-binding protein | Transport and binding proteins | Unknown substrate | 1.72 | 1.1E-24 | |
| polX | SAUSA300_RS05610 | DNA polymerase/3’−5’ exonuclease PolX | DNA metabolism | DNA replication, recombination, and repair | 1.47 | 2.9E-26 | |
| fdaB | SAUSA300_RS14100 | Class I fructose-bisphosphate aldolase | Biosynthesis of cofactors, prosthetic groups, and carriers | Other | 1.46 | 2.4E-27 | |
| 6 | nrdE | SAUSA300_RS03845 | Ribonucleotide-diphosphate reductase subunit alpha | Purines, pyrimidines, nucleosides, and nucleotides | 2’-Deoxyribonucleotide metabolism | 6.97 | 6.8E-233 |