Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 8 | 18.25 |
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. |
|---|---|---|---|---|---|---|---|---|
| GABLIMEM_10 | 427632 | 427949 | ykkD | ARO:3003064 | ykkD | 97.14 | 100.00 | AL009126.1 |
| GABLIMEM_10 | 427294 | 427632 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| GABLIMEM_8 | 156545 | 157138 | tmrB | ARO:3003059 | tmrB | 96.95 | 100.00 | AL009126.3 |
| GABLIMEM_8 | 105994 | 107433 | lmrB | ARO:3002813 | lmrB | 98.95 | 100.42 | JYFL01000006.1 |
| GABLIMEM_8 | 93180 | 94100 | mphK | ARO:3004541 | mphK | 98.37 | 100.00 | CP010314.1 |
| GABLIMEM_11 | 48696 | 49865 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| GABLIMEM_6 | 29002 | 30648 | vmlR | ARO:3004476 | vmlR | 97.99 | 100.18 | NC_000964.3 |
| GABLIMEM_4 | 27211 | 29781 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.65 | 100.00 | AL009126.3 |
| GABLIMEM_5 | 26713 | 27567 | aadK | ARO:3002627 | aadK | 98.24 | 100.00 | AL009126.1 |
| GABLIMEM_5 | 8024 | 9226 | blt | ARO:3003006 | blt | 99.75 | 100.00 | L32599.1 |
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. |
|---|---|---|---|---|---|---|---|
| GABLIMEM_1 | 39299 | 40675 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 99.56 | 100.00 | D12567 |
| GABLIMEM_5 | 26715 | 27567 | aadK | Streptomycin | 98.48 | 99.77 | M26879 |
| GABLIMEM_8 | 93180 | 94100 | mph(K) | Spiramycin, Telithromycin | 97.83 | 100.00 | NC_000964 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| GABLIMEM_1 | 39299 | 40672 | tet(L) | tetracycline efflux MFS transporter Tet(L) | BLASTX | 99.56 | 100.00 | WP_063856081.1 |
| GABLIMEM_8 | 93180 | 94097 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 98.37 | 100.00 | WP_003246254.1 |
| GABLIMEM_5 | 26716 | 27567 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 98.24 | 100.00 | WP_003229862.1 |
| GABLIMEM_6 | 29002 | 30645 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 97.99 | 100.00 | WP_003234144.1 |
| GABLIMEM_1 | 42682 | 43200 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 92.49 | 100.00 | WP_003242546.1 |
| GABLIMEM_12 | 277434 | 280031 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 80.60 | 100.00 | WP_087347987.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| GABLIMEM_1 | 518007 | 519188 | capB | 0.0 | Capsule | Immune modulation | 99.58 | 100.00 | NP_391471 |
| GABLIMEM_1 | 519203 | 519652 | capC | 0.0 | Capsule | Immune modulation | 99.56 | 100.00 | NP_391470 |
| GABLIMEM_1 | 962893 | 963678 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| GABLIMEM_1 | 519671 | 520813 | capA | 0.0 | Capsule | Immune modulation | 99.12 | 100.00 | NP_391469 |
| GABLIMEM_12 | 168420 | 169061 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 99.06 | 100.00 | NP_390062 |
| GABLIMEM_1 | 963704 | 964900 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.00 | 100.00 | NP_391079 |
| GABLIMEM_1 | 967534 | 974670 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.99 | 100.00 | NP_391076 |
| GABLIMEM_12 | 325174 | 326937 | dep/capD | 0.0 | Capsule | Immune modulation | 98.75 | 100.00 | NP_389723 |
| GABLIMEM_1 | 964929 | 966548 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.46 | 100.00 | NP_391078 |
| GABLIMEM_1 | 966576 | 967514 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.08 | 100.00 | NP_391077 |
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 |
|---|---|---|---|---|---|---|---|---|
| GABLIMEM_7 | 28160 | 27024 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| GABLIMEM_15 | 11231 | 10362 | pdxS | 1.11e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| GABLIMEM_10 | 758005 | 758781 | CodY | 7.72e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| GABLIMEM_1 | 665825 | 665256 | ClpP | 6.47e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| GABLIMEM_10 | 276330 | 276722 | spxA1 | 6.07e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| GABLIMEM_10 | 276330 | 276722 | spx | 3.62e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| GABLIMEM_14 | 34702 | 34460 | SpoVG | 7.51e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| GABLIMEM_6 | 81418 | 81221 | CspA | 9.46e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| GABLIMEM_12 | 156455 | 156261 | CspD | 2.06e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
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 |
|---|---|---|---|
| GABLIMEM_1 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_2 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_3 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_4 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_5 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_6 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_7 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_8 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_9 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_10 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_11 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_12 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_14 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_15 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_17 | 0.0 | 1.0 | 0.0 |
| GABLIMEM_20 | 1.0 | 0.0 | 1.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| GABLIMEM_1 | 779727 | 803033 | False | Siphoviridae | VOG0275, VOG4841, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704, VOG4586, VOG0541, VOG6163, VOG0801, VOG4619, VOG4660, VOG4612, VOG3390, VOG4705, VOG0641, VOG4707 |
| GABLIMEM_10 | 370096 | 397448 | False | Myoviridae | VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705 |
Phigaro v2.4.0 (Database: Jan. 2024 release)