Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 14 | 10 | 9 | 19.42 |
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. |
|---|---|---|---|---|---|---|---|---|
| CBEBCIHK_22 | 676923 | 678092 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| CBEBCIHK_11 | 591190 | 591528 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| CBEBCIHK_11 | 590873 | 591190 | ykkD | ARO:3003064 | ykkD | 100.00 | 100.00 | AL009126.1 |
| CBEBCIHK_22 | 454572 | 455774 | blt | ARO:3003006 | blt | 100.00 | 100.00 | L32599.1 |
| CBEBCIHK_22 | 436211 | 437065 | aadK | ARO:3002627 | aadK | 100.00 | 100.00 | AL009126.1 |
| CBEBCIHK_45 | 276349 | 278919 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| CBEBCIHK_41 | 256233 | 257153 | mphK | ARO:3004541 | mphK | 100.00 | 100.00 | CP010314.1 |
| CBEBCIHK_41 | 242899 | 244338 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| CBEBCIHK_41 | 200576 | 201226 | Streptococcus suis chloramphenicol acetyltransferase | ARO:3004455 | Ssui_ACT_CHL | 94.91 | 100.00 | AB080798.1 |
| CBEBCIHK_41 | 189008 | 189601 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| CBEBCIHK_48 | 47320 | 48963 | vmlR | ARO:3004476 | vmlR | 100.00 | 100.00 | NC_000964.3 |
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. |
|---|---|---|---|---|---|---|---|
| CBEBCIHK_22 | 436211 | 437065 | aadK | Streptomycin | 100.00 | 100.00 | M26879 |
| CBEBCIHK_41 | 200576 | 201226 | cat(pC194) | Chloramphenicol | 100.00 | 100.00 | NC_002013 |
| CBEBCIHK_41 | 256233 | 257153 | mph(K) | Spiramycin, Telithromycin | 100.00 | 100.00 | NC_000964 |
| CBEBCIHK_49 | 32613 | 33989 | tet(L) | Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline | 100.00 | 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. |
|---|---|---|---|---|---|---|---|---|
| CBEBCIHK_22 | 436211 | 437062 | aadK | aminoglycoside 6-adenylyltransferase AadK | EXACTX | 100.00 | 100.00 | WP_003229862.1 |
| CBEBCIHK_41 | 200579 | 201226 | catA | type A-9 chloramphenicol O-acetyltransferase | EXACTX | 100.00 | 100.00 | WP_001010387.1 |
| CBEBCIHK_41 | 256236 | 257153 | mphK | macrolide 2'-phosphotransferase MphK | EXACTX | 100.00 | 100.00 | WP_003246254.1 |
| CBEBCIHK_49 | 30095 | 30613 | satA | streptothricin N-acetyltransferase SatA | EXACTX | 100.00 | 100.00 | WP_003242546.1 |
| CBEBCIHK_49 | 32616 | 33989 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| CBEBCIHK_48 | 47323 | 48963 | vmlR | ABC-F type ribosomal protection protein VmlR | EXACTX | 100.00 | 100.00 | WP_003234144.1 |
| CBEBCIHK_47 | 55848 | 58442 | rphC | rifamycin-inactivating phosphotransferase RphC | BLASTX | 81.15 | 99.88 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| CBEBCIHK_31 | 519082 | 520224 | capA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391469 |
| CBEBCIHK_31 | 520707 | 521888 | capB | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391471 |
| CBEBCIHK_31 | 520243 | 520692 | capC | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391470 |
| CBEBCIHK_47 | 9190 | 10953 | dep/capD | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_389723 |
| CBEBCIHK_31 | 112772 | 113557 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| CBEBCIHK_31 | 108936 | 109874 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391077 |
| CBEBCIHK_31 | 111550 | 112746 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391079 |
| CBEBCIHK_31 | 109902 | 111521 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391078 |
| CBEBCIHK_31 | 101780 | 108916 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391076 |
| CBEBCIHK_22 | 876803 | 877444 | 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 |
|---|---|---|---|---|---|---|---|---|
| CBEBCIHK_41 | 201705 | 204767 | lacZ | 0.0 | beta-galactosidase | 99.22 | 99.61 | AAA24053 |
| CBEBCIHK_1 | 27982 | 26846 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| CBEBCIHK_4 | 11169 | 10300 | pdxS | 1.10e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| CBEBCIHK_11 | 277926 | 277150 | CodY | 8.23e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| CBEBCIHK_31 | 367495 | 368064 | ClpP | 4.07e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| CBEBCIHK_11 | 740351 | 739959 | spxA1 | 2.44e-69 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| CBEBCIHK_2 | 34633 | 34391 | SpoVG | 2.72e-38 | RNA-binding protein | 80.25 | 79.41 | AAT02994 |
| CBEBCIHK_48 | 1848 | 2045 | CspA | 3.36e-32 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| CBEBCIHK_22 | 864841 | 864647 | CspD | 5.69e-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 |
|---|---|---|---|
| CBEBCIHK_1 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_2 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_3 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_4 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_5 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_6 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_9 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_10 | 1.0 | 0.0 | 1.0 |
| CBEBCIHK_11 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_22 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_31 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_41 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_45 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_46 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_47 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_48 | 0.0 | 1.0 | 0.0 |
| CBEBCIHK_49 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| CBEBCIHK_11 | 621367 | 647475 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
| CBEBCIHK_22 | 475325 | 505702 | False | Myoviridae | VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718 |
Phigaro v2.4.0 (Database: Jan. 2024 release)