Probiotic potential risk score
| ARGs | VFs | PGs | PPRS |
|---|---|---|---|
| 13 | 10 | 9 | 18.71 |
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. |
|---|---|---|---|---|---|---|---|---|
| AGNKOGBN_91 | 192220 | 193389 | bmr | ARO:3003007 | bmr | 99.74 | 100.00 | M33768.1 |
| AGNKOGBN_77 | 127370 | 127963 | tmrB | ARO:3003059 | tmrB | 100.00 | 100.00 | AL009126.3 |
| AGNKOGBN_46 | 94307 | 96877 | Bacillus subtilis mprF | ARO:3003324 | Bsub_mprF | 100.00 | 100.00 | AL009126.3 |
| AGNKOGBN_77 | 76867 | 78306 | lmrB | ARO:3002813 | lmrB | 99.79 | 100.42 | JYFL01000006.1 |
| AGNKOGBN_77 | 64052 | 64972 | mphK | ARO:3004541 | mphK | 100.00 | 100.00 | CP010314.1 |
| AGNKOGBN_95 | 29467 | 31110 | vmlR | ARO:3004476 | vmlR | 100.00 | 100.00 | NC_000964.3 |
| AGNKOGBN_70 | 20925 | 21263 | ykkC | ARO:3003063 | ykkC | 100.00 | 100.00 | AL009126.1 |
| AGNKOGBN_70 | 20608 | 20925 | ykkD | ARO:3003064 | ykkD | 100.00 | 100.00 | AL009126.1 |
| AGNKOGBN_11 | 8998 | 9852 | aadK | ARO:3002627 | aadK | 100.00 | 100.00 | AL009126.1 |
| AGNKOGBN_29 | 6762 | 7964 | blt | ARO:3003006 | blt | 100.00 | 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. |
|---|---|---|---|---|---|---|---|
| AGNKOGBN_11 | 8998 | 9852 | aadK | Streptomycin | 100.00 | 100.00 | M26879 |
| AGNKOGBN_77 | 64052 | 64972 | mph(K) | Spiramycin, Telithromycin | 100.00 | 100.00 | NC_000964 |
| AGNKOGBN_22 | 11548 | 12924 | 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. |
|---|---|---|---|---|---|---|---|---|
| AGNKOGBN_11 | 8998 | 9849 | aadK | aminoglycoside 6-adenylyltransferase AadK | EXACTX | 100.00 | 100.00 | WP_003229862.1 |
| AGNKOGBN_77 | 64052 | 64969 | mphK | macrolide 2'-phosphotransferase MphK | EXACTX | 100.00 | 100.00 | WP_003246254.1 |
| AGNKOGBN_22 | 9030 | 9548 | satA | streptothricin N-acetyltransferase SatA | EXACTX | 100.00 | 100.00 | WP_003242546.1 |
| AGNKOGBN_22 | 11551 | 12924 | tet(L) | tetracycline efflux MFS transporter Tet(L) | EXACTX | 100.00 | 100.00 | WP_003242953.1 |
| AGNKOGBN_95 | 29467 | 31107 | vmlR | ABC-F type ribosomal protection protein VmlR | EXACTX | 100.00 | 100.00 | WP_003234144.1 |
| AGNKOGBN_84 | 3194 | 5788 | 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. |
|---|---|---|---|---|---|---|---|---|---|
| AGNKOGBN_69 | 91605 | 92747 | capA | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391469 |
| AGNKOGBN_69 | 89941 | 91122 | capB | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391471 |
| AGNKOGBN_69 | 91137 | 91586 | capC | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_391470 |
| AGNKOGBN_35 | 37068 | 38831 | dep/capD | 0.0 | Capsule | Immune modulation | 100.00 | 100.00 | NP_389723 |
| AGNKOGBN_54 | 172004 | 172789 | dhbA | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 100.00 | 100.00 | NP_391080 |
| AGNKOGBN_16 | 1385 | 2026 | hlyIII | 0.0 | Hemolysin III | Exotoxin | 100.00 | 100.00 | NP_390062 |
| AGNKOGBN_54 | 176645 | 183781 | dhbF | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.99 | 100.00 | NP_391076 |
| AGNKOGBN_54 | 175687 | 176625 | dhbB | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.89 | 100.00 | NP_391077 |
| AGNKOGBN_54 | 172815 | 174011 | dhbC | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.67 | 100.00 | NP_391079 |
| AGNKOGBN_54 | 174040 | 175659 | dhbE | 0.0 | Bacillibactin | Nutritional/Metabolic factor | 99.57 | 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 |
|---|---|---|---|---|---|---|---|---|
| AGNKOGBN_86 | 31864 | 33000 | tufA | 0.0 | elongation factor Tu | 84.96 | 95.69 | AHM69299 |
| AGNKOGBN_53 | 11141 | 10272 | pdxS | 1.12e-151 | encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS | 83.79 | 98.31 | ACE61268 |
| AGNKOGBN_32 | 292404 | 293180 | CodY | 2.38e-125 | nutrient-responsive regulator | 81.08 | 100.00 | ACJ80679 |
| AGNKOGBN_17 | 120934 | 120365 | ClpP | 1.20e-99 | part of proteolytic complex | 81.05 | 97.44 | BAB94595 |
| AGNKOGBN_87 | 37311 | 36919 | spxA1 | 4.68e-70 | redox-responsive transcription factor | 83.21 | 100.00 | AAF21893 |
| AGNKOGBN_7 | 34686 | 34444 | SpoVG | 7.52e-39 | RNA-binding protein | 81.48 | 79.41 | AAT02994 |
| AGNKOGBN_92 | 1454 | 1651 | CspA | 6.07e-34 | cold shock protein | 90.91 | 100.00 | CAA62903 |
| AGNKOGBN_91 | 5477 | 5671 | CspD | 1.56e-28 | cold shock protein | 81.54 | 98.48 | CAC99957 |
| AGNKOGBN_26 | 33157 | 32963 | CspB | 6.25e-28 | 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 |
|---|---|---|---|
| AGNKOGBN_2 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_3 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_4 | 1.0 | 0.0 | 1.0 |
| AGNKOGBN_5 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_6 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_7 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_8 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_9 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_10 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_11 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_12 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_13 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_16 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_17 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_18 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_19 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_20 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_21 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_22 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_23 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_24 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_26 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_27 | 1.0 | 0.0 | 1.0 |
| AGNKOGBN_28 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_29 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_30 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_31 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_32 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_33 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_35 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_38 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_39 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_40 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_41 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_43 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_44 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_45 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_46 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_47 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_48 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_49 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_50 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_51 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_53 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_54 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_55 | 1.0 | 0.0 | 1.0 |
| AGNKOGBN_56 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_57 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_59 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_60 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_61 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_62 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_63 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_64 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_65 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_67 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_68 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_69 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_70 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_71 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_72 | 1.0 | 0.0 | 1.0 |
| AGNKOGBN_73 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_74 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_75 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_76 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_77 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_79 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_80 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_81 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_82 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_83 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_84 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_86 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_87 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_88 | 1.0 | 0.0 | 1.0 |
| AGNKOGBN_89 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_90 | 1.0 | 0.0 | 1.0 |
| AGNKOGBN_91 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_92 | 1.0 | 0.0 | 1.0 |
| AGNKOGBN_93 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_94 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_95 | 0.0 | 1.0 | 0.0 |
| AGNKOGBN_96 | 0.0 | 1.0 | 0.0 |
PlasmidHunter v 1.4.5 (Database: May. 2024 release)
Prophage
Phigaro
| Query ID | Begin | End | Transposable | Taxonomy | pVOGs |
|---|---|---|---|---|---|
| AGNKOGBN_5 | 3885 | 25672 | False | Siphoviridae | VOG1659, VOG4918, VOG0641, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556 |
| AGNKOGBN_39 | 17187 | 47725 | 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 |
| AGNKOGBN_40 | 5910 | 8493 | False | Siphoviridae | VOG4552, VOG0181, VOG5353, VOG9667 |
| AGNKOGBN_70 | 51102 | 77210 | False | Myoviridae | VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667 |
Phigaro v2.4.0 (Database: Jan. 2024 release)