Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 14 | 10 | 8 | 18.97 |
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. |
|---|---|---|---|---|---|---|---|---|
| BJNAKMIK_21 | 336062 | 336916 | aadK | ARO:3002627 | aadK | 100.00 | 100.00 | AL009126.1 |
| BJNAKMIK_34 | 321902 | 322822 | mphK | ARO:3004541 | mphK | 100.00 | 100.00 | CP010314.1 |
| BJNAKMIK_21 | 317353 | 318555 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| BJNAKMIK_34 | 308568 | 310007 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| BJNAKMIK_11 | 279129 | 279446 | ykkD | ARO:3003064 | ykkD | 100.00 | 100.00 | AL009126.1 |
| BJNAKMIK_11 | 278791 | 279129 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| BJNAKMIK_36 | 276651 | 279221 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| BJNAKMIK_34 | 258911 | 259504 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| BJNAKMIK_21 | 95048 | 96217 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| BJNAKMIK_34 | 29253 | 30896 | vmlR | ARO:3004476 | vmlR | 100.00 | 100.00 | NC_000964.3 |
| BJNAKMIK_38 | 1016 | 1768 | ANT(9)-Ib | ARO:3007401 | ANT(9)-Ib | 99.60 | 98.04 | M69221.1 |
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. |
|---|---|---|---|---|---|---|---|
| BJNAKMIK_21 | 336062 | 336916 | aadK | Streptomycin | 100.00 | 100.00 | M26879 |
| BJNAKMIK_38 | 1016 | 1783 | ant(9)-Ia | Spectinomycin | 100.00 | 100.00 | M69221 |
| BJNAKMIK_34 | 321902 | 322822 | mph(K) | Spiramycin, Telithromycin | 100.00 | 100.00 | NC_000964 |
| BJNAKMIK_1 | 36387 | 37763 | tet(L) | Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline | 100.00 | 100.00 | X08034 |
| BJNAKMIK_38 | 2064 | 2562 | aadD | Amikacin, Tobramycin | 100.00 | 65.49 | M19465 |
ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)
AMRFinderPlus
| Query ID | Begin | End | Gene symbol | Sequence name | Method | Identity | Coverage | Accession no. |
|---|---|---|---|---|---|---|---|---|
| BJNAKMIK_21 | 336065 | 336916 | aadK | aminoglycoside 6-adenylyltransferase AadK | EXACTX | 100.00 | 100.00 | WP_003229862.1 |
| BJNAKMIK_38 | 1019 | 1783 | ant(9)-Ib | aminoglycoside nucleotidyltransferase ANT(9)-Ib | EXACTX | 100.00 | 100.00 | WP_063840673.1 |
| BJNAKMIK_34 | 321905 | 322822 | mphK | macrolide 2'-phosphotransferase MphK | EXACTX | 100.00 | 100.00 | WP_003246254.1 |
| BJNAKMIK_1 | 39763 | 40281 | satA | streptothricin N-acetyltransferase SatA | EXACTX | 100.00 | 100.00 | WP_003242546.1 |
| BJNAKMIK_1 | 36387 | 37760 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| BJNAKMIK_34 | 29253 | 30893 | vmlR | ABC-F type ribosomal protection protein VmlR | EXACTX | 100.00 | 100.00 | WP_003234144.1 |
| BJNAKMIK_11 | 942827 | 945421 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.15 | 99.88 | WP_087347987.1 |
| BJNAKMIK_38 | 2065 | 2559 | aadD1 | aminoglycoside O-nucleotidyltransferase ANT(4')-Ia | PARTIALX | 100.00 | 65.22 | WP_001014230.1 |
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. |
|---|---|---|---|---|---|---|---|---|---|
| BJNAKMIK_37 | 194467 | 195609 | capA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391469 |
| BJNAKMIK_37 | 192803 | 193984 | capB | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391471 |
| BJNAKMIK_37 | 193999 | 194448 | capC | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391470 |
| BJNAKMIK_11 | 896169 | 897932 | dep/capD | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_389723 |
| BJNAKMIK_31 | 376116 | 376901 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| BJNAKMIK_31 | 379799 | 380737 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391077 |
| BJNAKMIK_31 | 376927 | 378123 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391079 |
| BJNAKMIK_31 | 378152 | 379771 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391078 |
| BJNAKMIK_31 | 380757 | 387893 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391076 |
| BJNAKMIK_11 | 1052392 | 1053033 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
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 |
|---|---|---|---|---|---|---|---|---|
| BJNAKMIK_3 | 31799 | 32935 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| BJNAKMIK_8 | 11309 | 10440 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| BJNAKMIK_11 | 592394 | 593170 | CodY | 9.38e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| BJNAKMIK_31 | 122178 | 121609 | ClpP | 2.48e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| BJNAKMIK_11 | 129968 | 130360 | spxA1 | 2.78e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| BJNAKMIK_5 | 20625 | 20867 | SpoVG | 3.92e-38 | RNA-binding protein | 80.25 | 79.41 | AAT02994 |
| BJNAKMIK_34 | 76368 | 76171 | CspA | 1.58e-31 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| BJNAKMIK_39 | 85881 | 86075 | CspB | 1.09e-27 | cold shock protein | 83.08 | 98.48 | CAD00094 |
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 |
|---|---|---|---|
| BJNAKMIK_1 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_2 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_3 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_4 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_5 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_6 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_7 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_8 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_11 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_21 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_31 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_34 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_35 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_36 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_37 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_38 | 0.0 | 1.0 | 0.0 |
| BJNAKMIK_39 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| BJNAKMIK_11 | 222844 | 248952 | 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 |
| BJNAKMIK_21 | 267425 | 297669 | False | Myoviridae | VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG9587, VOG4693, VOG0189, VOG11060, VOG1309, VOG4600 |
Phigaro v2.4.0 (Database: Jan. 2024 release)