Probiotic potential risk score

ARGs (CARD)	VFs (VFDB)	PGs (PHI-base)	PPRS
7	9	8	13.93

PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).

Antibiotic resistance genes

Comprehensive Antibiotic Resistance Database (CARD)

ARO accession	ARO name	Identity	Coverage	CARD name	Accession no.
ARO:3006902	BSU-1	99.25	100.00	BSU-1	NG_050942.1
ARO:3002813	lmrB	97.90	100.00	lmrB	JYFL01000006.1
ARO:3003324	Bacillus subtilis mprF	96.26	100.00	Bsub_mprF	AL009126.3
ARO:3003064	ykkD	96.19	100.00	ykkD	AL009126.1
ARO:3004476	vmlR	94.27	98.90	vmlR	NC_000964.3
ARO:3003059	tmrB	89.85	100.00	tmrB	AL009126.3
ARO:3004541	mphK	80.72	100.00	mphK	CP010314.1

RGI v6.0.0 (Database: CARD Variants v4.0.0, Jul. 2022 release)

ResFinder

Resistance gene	Identity	Coverage	Phenotype	Accession no.
mph(K)	84.51	99.78	Warning: gene is missing from Notes file. Please inform curator.	NC_000964

ResFinder v4.0 (Database: resfinder_db, May 2022 release)

AMRFinderPlus

Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
blaBSU	BSU family class D beta-lactamase	BLASTX	99.25	100.00	WP_003235647.1
vmlR	ABC-F type ribosomal protection protein VmlR	BLASTX	94.27	98.90	WP_003234144.1
satA	streptothricin N-acetyltransferase SatA	BLASTX	83.82	100.00	WP_003242546.1
rphC	rifamycin-inactivating phosphotransferase RphC	BLASTX	81.86	100.00	WP_087347987.1
mphK	macrolide 2'-phosphotransferase MphK	BLASTX	80.72	100.00	WP_003246254.1

AMRFinderPlus v3.10.42 (Database: Oct. 2022 release)

Virulence factors

Virulence Factor Database (VFDB)

Gene ID	Gene name	Identity	Coverage	e-value	VF name	VF category	Accession no.
VFG016299	capB	97.29	100.00	0.0	Capsule	Immune modulation	NP_391471
VFG016295	capC	96.89	100.00	0.0	Capsule	Immune modulation	NP_391470
VFG049999	dhbA	94.66	100.00	0.0	Bacillibactin	Nutritional/Metabolic factor	NP_391080
VFG016303	dep/capD	93.94	99.94	0.0	Capsule	Immune modulation	NP_389723
VFG016291	capA	93.88	100.00	0.0	Capsule	Immune modulation	NP_391469
VFG016234	hlyIII	92.53	99.84	0.0	Hemolysin III	Exotoxin	NP_390062
VFG050021	dhbE	92.35	99.94	0.0	Bacillibactin	Nutritional/Metabolic factor	NP_391078
VFG050043	dhbF	92.25	100.01	0.0	Bacillibactin	Nutritional/Metabolic factor	NP_391076
VFG050010	dhbC	91.57	99.92	0.0	Bacillibactin	Nutritional/Metabolic factor	NP_391079
VFG050032	dhbB	92.42	63.26	0.0	Bacillibactin	Nutritional/Metabolic factor	NP_391077

BLASTN v2.8.1+ (Database: VFDB, Jun. 2022 release)

VirulenceFinder

Database	Virulence factor	Identity	Coverage	Protein function	Accession no.
No hit found

VirulenceFinder v2.0.3 (Database: virulencefinder_db, Dec. 2022 release)

Pathogenic genes

PHI-base

Protein ID	Gene name	Identity	Coverage	e-value	Function	Gene ID
W8TRT9	tufA	85.53	99.24	0.0	Elongation factor Tu	AHM69299
B3GXB6	pdxS	83.79	97.97	0.0	Encodes the putative pyridoxal 5�-phosphate synthase subunit PdxS	ACE61268
B7HLG1	CodY	81.08	99.62	4.87e-148	Nutrient-responsive regulator	ACJ80679
Q9RGX0	spxA1	83.97	99.24	5.48e-83	Redox-responsive transcription factor	AAF21893
Q724L7	SpoVG	82.72	78.64	2.39e-47	RNA-Binding Protein	AAT02994
P0A355	CspA	92.42	98.51	1.94e-40	Cold shock protein	CAA62903
Q92AD0	CspD	80.00	97.01	1.14e-35	Cold shock protein	CAC99957
P0A357	CspB	83.08	97.01	3.02e-34	Cold shock protein	CAD00094

BLASTP v2.8.1+ (Database: PHI-base v4.14, Nov. 2022 release)

Plasmid

PlasmidFinder

Plasmid	Identity	Query / Template	Accession no.
No hit found

PlasmidFinder 2.0.1 (Database: plasmidfinder_db, Jan. 2023 release)

Prophage

Phigaro

Scaffold	Begin	End	Transposable	Taxonomy	pVOGs
CAJNQO010000003.1	366409	392407	False	Myoviridae	VOG9667, VOG10994, VOG0189, VOG4843, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705, VOG0753
CAJNQO010000004.1	188773	216309	False	Siphoviridae	VOG4615, VOG0136, VOG5221, VOG7896, VOG3390, VOG4612, VOG4705, VOG3390, VOG4626, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581, VOG0713, VOG0198, VOG4567, VOG7372

Phigaro v2.3.0 (Database: Aug. 2017 release)