Probiotic potential risk score

ARGs (CARD)	VFs (VFDB)	PGs (PHI-base)	PPRS
0	14	29	32.20

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.
No hit found

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

ResFinder

Resistance gene	Identity	Coverage	Phenotype	Accession no.
No hit found

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

AMRFinderPlus

Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
No hit found

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.
VFG004737	nuc	98.54	100.00	0.0	Thermonuclease nuc	Exoenzyme	WP_001643461
VFG006089	rfbD	95.54	100.00	0.0	Capsule	Immune modulation	WP_011681446
VFG005556	tig/ropA	94.78	100.00	0.0	Trigger factor	Stress survival	WP_011680653
VFG006022	rfbB	93.84	83.67	0.0	Capsule	Immune modulation	WP_002947383
VFG006074	STU_RS16230	92.60	98.43	0.0	Capsule	Immune modulation	WP_011226325
VFG006084	STU_RS16245	92.23	99.88	0.0	Capsule	Immune modulation	WP_002948020
VFG006082	STU_RS16240	92.12	100.00	0.0	Capsule	Immune modulation	WP_011226326
VFG006088	STU_RS16255	91.56	99.91	0.0	Capsule	Immune modulation	WP_041828290
VFG006078	STU_RS16235	91.10	99.15	0.0	Capsule	Immune modulation	WP_002948022
VFG005323	cbpD	91.07	100.00	0.0	Autolysin	Exoenzyme	WP_011225268
VFG006052	rfbA	90.92	100.00	0.0	Capsule	Immune modulation	WP_011226150
VFG005579	eno	90.50	100.00	0.0	Streptococcal enolase	Exoenzyme	WP_000022815
VFG018652	plr/gapA	90.16	100.00	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	WP_006154814
VFG019102	psaA	84.27	88.71	0.0	PsaA	Nutritional/Metabolic factor	WP_000733056
VFG006032	STER_RS06030	91.98	62.96	5.31e-150	Capsule	Immune modulation	WP_011226149
VFG005381	srtA	84.76	64.57	1.94e-140	Sortase A	Exoenzyme	-

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
Q97S30	metF	98.96	99.65	0.0	Methionine biosynthesis enzymes	AAK74739
Q1JLQ2	MntE	96.09	99.44	0.0	Manganese Homeostasis	ABF32167
A0A0H2ZPC1	EstA	95.37	99.62	0.0	Tributyrin esterase	ABJ54736
P67331	spr0084	93.19	98.18	0.0	pathogenitcity related	AAK98888
Q97S31	metE	92.52	99.87	0.0	Methionine biosynthesis enzymes	AAK74738
Q99Z66	ptsI	89.88	70.07	0.0	Phosphoenolpyruvate-protein phosphotransferase	AAK34199
Q8DPC2	potA	89.58	99.48	0.0	ABC transporter ATP-binding protein - spermidine/putrescine transport	AAL00050
Q8DYL6	uvrB	88.46	78.31	0.0	Excinuclease ABC, B subunit	AE014259_2
P0C0B9	bglB	87.88	99.33	0.0	Putative phospho--glucosidase	AAK33487
D5AF41	IMPDH	87.83	99.80	0.0	Inosine-5'-monophosphate dehydrogenase	ADE32434
A4VWH9	Eno	86.21	99.54	0.0	Enolase	ABP90468
A4VYE0	gidA	85.58	98.75	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	ABP91129
B5TQV9	PGM	85.19	75.22	0.0	phosphoglucomutase	ACH87041
Q97RW0	SP_0676	83.44	93.50	0.0	Transcription facot	AAK74821
A4VY17	pdh	82.79	99.41	0.0	Pyruvate dehydrogenase	ABP91006
A4VWD1	mnmE	82.67	99.34	0.0	Central tRNA-modifying GTPase	ABP90420
Q2G2U6	yycF	100.00	99.57	6.70e-175	Transcriptional regulatory protein	AF136709_1
Q93MY4	covR	85.53	99.58	3.48e-151	Responder protein	AAK71319
Q9S1K2	rr01	84.38	99.12	9.65e-145	Response regulator	CAB54566
R4Z8M6	ciaR	85.71	98.68	1.45e-142	Two component system response regulator	AIK75708
B3VA60	CovR	82.10	99.56	3.63e-138	serves to repress GAS virulence factor-encoding genes	ACE75886
U2W9V3	SpxA2	91.67	99.25	1.44e-88	Transcriptional regulator	ERL21461
U2UML5	SpxA1	82.09	99.26	5.95e-82	Transcriptional regulator	ERL19273
Q8DQV4	spr0479	85.42	97.96	5.42e-58	essential gene	AAK99283
Q8DP67	spr1327	90.59	98.84	1.52e-53	essential gene	AAL00131
Q8CZ89	spr0175	85.23	98.88	3.30e-52	pathogenitcity related	AAK98979
Q8DRE1	spr0177	83.15	87.25	1.27e-50	essential gene	AAK98981
Q2FH36	msaB	80.30	98.51	2.05e-34	Cold shock protein	ABD22065
Q04M32	ilvC (SPD_0406)	85.88	99.71	0.0	Ketol-acid reductoisomerase (NADP(+))	ABJ55451
Q1JJJ3	PepO	81.91	66.46	0.0	Endopeptidase	ABF32980

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
No hit found

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