Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 1 | 3 | 10 | 10.49 |
PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).
Antibiotic resistance genes
Comprehensive Antibiotic Resistance Database (CARD)
| Query ID | Begin | End | ARO name | ARO accession | CARD name | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
RGI v6.0.3 (Database: CARD Variants v4.0.2, Nov. 2023 release)
ResFinder
| Query ID | Begin | End | Resistance gene | Phenotype | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|
| GFAIBGNO_108 | 576887 | 578263 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 87.07 | 100.00 | X08034 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GFAIBGNO_108 | 576893 | 578263 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 86.21 | 99.78 | WP_003242953.1 |
AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)
Virulence factors
Virulence Factor Database (VFDB)
| Query ID | qstart | qend | Gene name | e-value | VF name | VF category | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|---|
| GFAIBGNO_48 | 12 | 401 | cheY | 0.0 | Peritrichous flagella | Motility | 98.72 | 100.00 | WP_000763867 |
| GFAIBGNO_218 | 229401 | 230582 | capB | 0.0 | Capsule | Immune modulation | 82.12 | 99.66 | NP_391471 |
| GFAIBGNO_218 | 228937 | 229386 | capC | 2.74e-114 | Capsule | Immune modulation | 83.59 | 99.78 | NP_391470 |
BLASTN v2.16.0 (Database: VFDB, Dec. 2024 release)
VirulenceFinder
| Query ID | Begin | End | Database | Virulence factor | Protein function | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| No hit found | ||||||||
VirulenceFinder v2.0. 4 (Database: virulencefinder_db, Feb . 2024 release)
Pathogenic genes
PHI-base
| Query ID | qstart | qend | Gene name | e-value | Function | Identity | Coverage | Gene ID |
|---|---|---|---|---|---|---|---|---|
| GFAIBGNO_323 | 31767 | 32903 | tufA | 0.0 | elongation factor Tu | 86.81 | 95.69 | AHM69299 |
| GFAIBGNO_11 | 12506 | 11637 | pdxS | 1.36e-152 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 84.83 | 98.31 | ACE61268 |
| GFAIBGNO_279 | 115404 | 116180 | CodY | 7.12e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GFAIBGNO_294 | 560 | 150 | STM14_RS15265 | 5.70e-90 | formate hydrogenlyase maturation protein | 91.97 | 87.82 | ACY89853 |
| GFAIBGNO_48 | 12 | 398 | cheY | 9.58e-77 | chemotaxis regulator protein | 96.90 | 100.00 | AAL20832 |
| GFAIBGNO_268 | 433578 | 433186 | spxA1 | 1.49e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| GFAIBGNO_176 | 448 | 155 | PccS1_001523 | 2.43e-65 | transcriptional regulator, Fis family, Fis | 96.94 | 100.00 | ACT11296 |
| GFAIBGNO_290 | 81398 | 81201 | CspA | 2.50e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| GFAIBGNO_268 | 649175 | 649369 | CspB | 1.42e-26 | cold shock protein | 84.61 | 98.48 | CAD00094 |
| GFAIBGNO_290 | 81398 | 81204 | CspR | 3.27e-26 | cold shock protein | 80.00 | 98.48 | AAO82613 |
| GFAIBGNO_301 | 157083 | 157955 | lipA (SAUSA300_0829) | 9.48e-163 | lipoic acid synthetase | 80.82 | 95.41 | ABD22039 |
| GFAIBGNO_298 | 555 | 100 | FNR | 1.88e-110 | global regulator | 100.00 | 60.80 | AAA87981 |
| GFAIBGNO_174 | 3 | 455 | phoU | 1.27e-107 | phosphate-specific transport system accessory protein PhoU | 96.03 | 62.66 | QPQ67540 |
| GFAIBGNO_324 | 535 | 74 | nlpE | 2.15e-91 | outer-membrane lipoprotein | 80.52 | 66.09 | CBG86980 |
BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)
Plasmid
PlasmidFinder
| Query ID | Begin | End | Plasmid | Query / Template | Identity | Accession no. |
|---|---|---|---|---|---|---|
| No hit found | ||||||
PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)
PlasmidHunter
| Query ID | Prediction | Chromosome | Plasmid |
|---|---|---|---|
| GFAIBGNO_11 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_22 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_64 | 1.0 | 0.0 | 1.0 |
| GFAIBGNO_75 | 1.0 | 0.0 | 1.0 |
| GFAIBGNO_86 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_108 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_218 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_268 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_279 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_290 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_301 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_312 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_323 | 0.0 | 1.0 | 0.0 |
| GFAIBGNO_333 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GFAIBGNO_268 | 306209 | 332405 | False | Myoviridae | VOG0753, VOG4705, VOG3390, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189 |
| GFAIBGNO_279 | 312480 | 332669 | False | Siphoviridae | VOG4660, VOG9712, VOG5042, VOG3389, VOG4910, VOG9312, VOG0275, VOG8610, VOG5008, VOG3390 |
Phigaro v2.4.0 (Database: Jan. 2024 release)