Probiotic potential risk score

ARGs (CARD)	VFs (VFDB)	PGs (PHI-base)	PPRS
0	34	29	44.69

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.
VFG005322	cbpD	100.00	100.00	0.0	Autolysin	Exoenzyme	WP_011226733
VFG005190	fbp54	100.00	100.00	0.0	FBPs	Adherence	WP_002952952
VFG006052	rfbA	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226150
VFG006022	rfbB	100.00	100.00	0.0	Capsule	Immune modulation	WP_002947383
VFG006081	rfbD	100.00	100.00	0.0	Capsule	Immune modulation	WP_014621820
VFG006020	STR_RS05260	100.00	100.00	0.0	Capsule	Immune modulation	WP_011227248
VFG006046	STR_RS05880	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226149
VFG006057	STR_RS06885	100.00	100.00	0.0	Capsule	Immune modulation	WP_011227426
VFG006061	STR_RS06890	100.00	100.00	0.0	Capsule	Immune modulation	WP_041827077
VFG006069	STR_RS06900	100.00	100.00	0.0	Capsule	Immune modulation	WP_011227429
VFG006073	STR_RS06905	100.00	100.00	0.0	Capsule	Immune modulation	WP_011227430
VFG006077	STR_RS06910	100.00	100.00	0.0	Capsule	Immune modulation	WP_011227431
VFG005843	STU_RS14545	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226028
VFG005867	STU_RS14550	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226029
VFG005891	STU_RS14555	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226030
VFG005915	STU_RS14565	100.00	100.00	0.0	Capsule	Immune modulation	WP_179970486
VFG005927	STU_RS14570	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226034
VFG005939	STU_RS14575	100.00	100.00	0.0	Capsule	Immune modulation	WP_041828375
VFG005987	STU_RS14615	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226041
VFG005999	STU_RS14620	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226042
VFG006031	STU_RS14630	100.00	100.00	0.0	Capsule	Immune modulation	WP_011226045
VFG005951	STU_RS19955	100.00	100.00	0.0	Capsule	Immune modulation	WP_148148905
VFG005554	tig/ropA	100.00	100.00	0.0	Trigger factor	Stress survival	WP_011225339
VFG005998	STR_RS05250	100.00	98.13	0.0	Capsule	Immune modulation	WP_011227246
VFG006030	STR_RS05265	99.93	100.00	0.0	Capsule	Immune modulation	WP_041827043
VFG006065	STR_RS06895	99.92	100.00	0.0	Capsule	Immune modulation	WP_011227428
VFG005903	STU_RS14560	99.92	100.00	0.0	Capsule	Immune modulation	WP_011226032
VFG006009	STR_RS05255	99.86	100.00	0.0	Capsule	Immune modulation	WP_011227247
VFG005963	STU_RS14590	99.84	99.53	0.0	Capsule	Immune modulation	WP_041828240
VFG005975	STU_RS14610	99.79	100.00	0.0	Capsule	Immune modulation	WP_011226040
VFG006087	STER_RS07100	97.70	100.00	0.0	Capsule	Immune modulation	WP_011681445
VFG019077	plr/gapA	93.58	100.10	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	WP_000260685
VFG005580	eno	90.20	99.92	0.0	Streptococcal enolase	Exoenzyme	WP_000022813
VFG006085	STER_RS07095	81.18	70.35	5.10e-157	Capsule	Immune modulation	WP_011681444

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
Q1JLQ2	MntE	94.41	99.44	0.0	Manganese Homeostasis	ABF32167
P67331	spr0084	93.19	98.18	0.0	pathogenitcity related	AAK98888
Q97S31	metE	91.99	99.87	0.0	Methionine biosynthesis enzymes	AAK74738
Q1J943	prsA2	90.62	98.46	0.0	Ribose-phosphate pyrophosphokinase	ABF36968
Q8DPC2	potA	89.32	99.48	0.0	ABC transporter ATP-binding protein - spermidine/putrescine transport	AAL00050
Q8DYL6	uvrB	88.99	99.85	0.0	Excinuclease ABC, B subunit	AE014259_2
P0C0B9	bglB	88.89	99.33	0.0	Putative phospho--glucosidase	AAK33487
Q99Z66	ptsI	87.87	99.83	0.0	Phosphoenolpyruvate-protein phosphotransferase	AAK34199
D5AF41	IMPDH	87.63	99.80	0.0	Inosine-5'-monophosphate dehydrogenase	ADE32434
Q97S30	metF	86.36	98.96	0.0	Methionine biosynthesis enzymes	AAK74739
A4VWH9	Eno	86.21	99.54	0.0	Enolase	ABP90468
A4VYE0	gidA	85.89	98.75	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	ABP91129
P0A452	recA	84.72	98.71	0.0	DNA recombination and repair	AAL00560
B5TQV9	PGM	83.89	99.48	0.0	phosphoglucomutase	ACH87041
A4VY17	pdh	83.09	99.41	0.0	Pyruvate dehydrogenase	ABP91006
Q97RW0	SP_0676	83.06	93.19	0.0	Transcription facot	AAK74821
A4VWD1	mnmE	82.24	99.34	0.0	Central tRNA-modifying GTPase	ABP90420
Q1JJJ3	PepO	80.03	99.84	0.0	Endopeptidase	ABF32980
Q93MY4	covR	84.68	99.58	3.73e-150	Responder protein	AAK71319
Q9S1K2	rr01	84.38	99.12	1.47e-144	Response regulator	CAB54566
B3VA60	CovR	80.79	99.56	3.97e-136	serves to repress GAS virulence factor-encoding genes	ACE75886
P0A4H7	CiaR	84.85	73.33	1.46e-101	Two-component response regulator	AAK74935
U2W9V3	SpxA2	90.91	99.25	3.11e-88	Transcriptional regulator	ERL21461
U2UML5	SpxA1	80.60	99.26	4.97e-79	Transcriptional regulator	ERL19273
Q8DQV4	spr0479	86.46	97.96	1.05e-58	essential gene	AAK99283
Q8DP67	spr1327	95.29	98.84	3.84e-55	essential gene	AAL00131
Q8DRE1	spr0177	84.27	87.25	2.15e-51	essential gene	AAK98981
Q8CZ89	spr0175	84.09	98.88	3.95e-51	pathogenitcity related	AAK98979
Q04M32	ilvC (SPD_0406)	96.18	99.71	0.0	Ketol-acid reductoisomerase (NADP(+))	ABJ55451

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)