Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 7 | 17.83 |
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. |
|---|---|---|---|---|---|---|---|---|
| KCGOOLIF_1 | 692013 | 693182 | bmr | ARO:3003007 | bmr | 99.23 | 100.00 | M33768.1 |
| KCGOOLIF_16 | 515370 | 515708 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| KCGOOLIF_16 | 515053 | 515370 | ykkD | ARO:3003064 | ykkD | 99.05 | 100.00 | AL009126.1 |
| KCGOOLIF_1 | 462250 | 463452 | blt | ARO:3003006 | blt | 99.50 | 100.00 | L32599.1 |
| KCGOOLIF_1 | 445521 | 446375 | aadK | ARO:3002627 | aadK | 97.89 | 100.00 | AL009126.1 |
| KCGOOLIF_17 | 415939 | 417582 | vmlR | ARO:3004476 | vmlR | 98.35 | 100.00 | NC_000964.3 |
| KCGOOLIF_18 | 268146 | 270716 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 99.88 | 100.00 | AL009126.3 |
| KCGOOLIF_17 | 161692 | 162285 | tmrB | ARO:3003059 | tmrB | 98.48 | 100.00 | AL009126.3 |
| KCGOOLIF_17 | 111136 | 112569 | lmrB | ARO:3002813 | lmrB | 99.37 | 100.00 | JYFL01000006.1 |
| KCGOOLIF_17 | 98320 | 99240 | mphK | ARO:3004541 | mphK | 99.02 | 100.00 | CP010314.1 |
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. |
|---|---|---|---|---|---|---|---|
| KCGOOLIF_12 | 34717 | 36093 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 100.00 | 100.00 | X08034 |
| KCGOOLIF_1 | 445521 | 446373 | aadK | Streptomycin | 98.59 | 99.77 | M26879 |
| KCGOOLIF_17 | 98320 | 99240 | mph(K) | Spiramycin, Telithromycin | 98.05 | 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. |
|---|---|---|---|---|---|---|---|---|
| KCGOOLIF_12 | 34717 | 36090 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| KCGOOLIF_17 | 98320 | 99237 | mphK | macrolide 2'-phosphotransferase MphK | BLASTX | 99.02 | 100.00 | WP_003246254.1 |
| KCGOOLIF_17 | 415942 | 417582 | vmlR | ABC-F type ribosomal protection protein VmlR | BLASTX | 98.35 | 100.00 | WP_003234144.1 |
| KCGOOLIF_1 | 445521 | 446372 | aadK | aminoglycoside 6-adenylyltransferase AadK | BLASTX | 97.89 | 100.00 | WP_003229862.1 |
| KCGOOLIF_12 | 38092 | 38610 | satA | streptothricin N-acetyltransferase SatA | BLASTX | 89.60 | 100.00 | WP_003242546.1 |
| KCGOOLIF_1 | 1129176 | 1131773 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.40 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| KCGOOLIF_1 | 891709 | 892350 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| KCGOOLIF_12 | 519387 | 520568 | capB | 0.0 | Capsule | Immune modulation | 99.66 | 100.00 | NP_391471 |
| KCGOOLIF_12 | 934067 | 934852 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391080 |
| KCGOOLIF_12 | 937750 | 938688 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.36 | 100.00 | NP_391077 |
| KCGOOLIF_12 | 934878 | 936074 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.17 | 100.00 | NP_391079 |
| KCGOOLIF_1 | 1180091 | 1181854 | dep/capD | 0.0 | Capsule | Immune modulation | 99.15 | 100.00 | NP_389723 |
| KCGOOLIF_12 | 938708 | 945842 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.06 | 99.97 | NP_391076 |
| KCGOOLIF_12 | 521051 | 522193 | capA | 0.0 | Capsule | Immune modulation | 98.95 | 100.00 | NP_391469 |
| KCGOOLIF_12 | 520583 | 521032 | capC | 0.0 | Capsule | Immune modulation | 98.67 | 100.00 | NP_391470 |
| KCGOOLIF_12 | 936103 | 937722 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 98.52 | 100.00 | NP_391078 |
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 |
|---|---|---|---|---|---|---|---|---|
| KCGOOLIF_20 | 28182 | 27046 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| KCGOOLIF_2 | 4363 | 5232 | pdxS | 1.13e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| KCGOOLIF_16 | 205471 | 204695 | CodY | 7.66e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| KCGOOLIF_12 | 681922 | 681353 | ClpP | 6.30e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| KCGOOLIF_16 | 667759 | 667367 | spxA1 | 6.02e-70 | redox-responsive transcription factor | 83.97 | 100.00 | AAF21893 |
| KCGOOLIF_16 | 667759 | 667367 | spx | 3.59e-68 | essential gene which is a thiol/oxidative stress sensor | 80.15 | 100.00 | BAB57159 |
| KCGOOLIF_21 | 34839 | 34597 | SpoVG | 7.53e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| KCGOOLIF_17 | 365129 | 365326 | CspA | 1.93e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
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 |
|---|---|---|---|
| KCGOOLIF_1 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_2 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_12 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_16 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_17 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_18 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_19 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_20 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_21 | 0.0 | 1.0 | 0.0 |
| KCGOOLIF_22 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| KCGOOLIF_1 | 496686 | 514998 | False | Myoviridae | VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
| KCGOOLIF_1 | 934506 | 946423 | False | Unknown | VOG9712, VOG5042, VOG3389, VOG4910 |
| KCGOOLIF_1 | 1008203 | 1013365 | False | Unknown | VOG6211, VOG0322, VOG7476, VOG0025 |
| KCGOOLIF_16 | 545196 | 572180 | False | Myoviridae | VOG0753, VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490 |
Phigaro v2.4.0 (Database: Jan. 2024 release)