safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	27	33	42.64

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.
No hit found

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.
No hit found

ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
No hit found

AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)

Virulence factors

Virulence Factor Database (VFDB)

Query ID	qstart	qend	Gene name	VF name	VF category	Identity	Coverage	Accession no.
HINJKDBP_13	245016	245609	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
HINJKDBP_16	89367	90083	STER_RS07085	Capsule	Immune modulation	100.00	100.00	WP_011681442
HINJKDBP_16	90084	91052	STER_RS07090	Capsule	Immune modulation	100.00	100.00	WP_011681443
HINJKDBP_16	82314	84014	STER_RS07050	Capsule	Immune modulation	99.94	100.00	WP_041827753
HINJKDBP_16	92043	93302	STER_RS07100	Capsule	Immune modulation	99.92	100.00	WP_011681445
HINJKDBP_16	86978	88126	STER_RS07070	Capsule	Immune modulation	99.91	100.00	WP_011681439
HINJKDBP_13	245609	246478	rfbA	Capsule	Immune modulation	99.89	100.00	WP_011681286
HINJKDBP_16	86040	86981	STER_RS07065	Capsule	Immune modulation	99.89	100.00	WP_011681438
HINJKDBP_16	88245	89021	STER_RS07075	Capsule	Immune modulation	99.87	100.00	WP_011681440
HINJKDBP_16	80567	82312	STER_RS07045	Capsule	Immune modulation	99.83	100.00	WP_011681434
HINJKDBP_16	84032	85234	STER_RS07055	Capsule	Immune modulation	99.83	100.00	WP_011681436
HINJKDBP_13	245016	245609	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
HINJKDBP_16	82314	84014	STR_RS06890	Capsule	Immune modulation	99.77	100.00	WP_041827077
HINJKDBP_13	13447	15105	fbp54	FBPs	Adherence	99.70	100.00	WP_011227179
HINJKDBP_13	245016	245609	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
HINJKDBP_16	85234	86040	STER_RS07060	Capsule	Immune modulation	99.63	100.00	WP_011681437
HINJKDBP_16	91070	92046	STER_RS07095	Capsule	Immune modulation	99.59	99.90	WP_011681444
HINJKDBP_16	84032	85234	STR_RS06895	Capsule	Immune modulation	99.58	100.00	WP_011227428
HINJKDBP_1	20923	21762	cbpD	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
HINJKDBP_16	86040	86981	STR_RS06905	Capsule	Immune modulation	99.36	100.00	WP_011227430
HINJKDBP_16	86978	88126	STR_RS06910	Capsule	Immune modulation	99.30	100.00	WP_011227431
HINJKDBP_16	85234	86040	STR_RS06900	Capsule	Immune modulation	99.13	100.00	WP_011227429
HINJKDBP_13	121954	122694	STER_RS05305	Capsule	Immune modulation	98.78	100.00	WP_011681174
HINJKDBP_13	190111	190901	cshA	Cell surface hydrophobicity proteins	Adherence	98.74	100.00	-
HINJKDBP_13	121959	122694	STR_RS05250	Capsule	Immune modulation	98.23	98.13	WP_011227246
HINJKDBP_16	80567	82312	STR_RS06885	Capsule	Immune modulation	98.17	100.00	WP_011227426
HINJKDBP_13	121954	122694	STU_RS14635	Capsule	Immune modulation	98.11	100.00	WP_011226046
HINJKDBP_13	122704	123396	STU_RS14640	Capsule	Immune modulation	97.69	100.00	WP_011226047
HINJKDBP_13	124137	125597	STER_RS05320	Capsule	Immune modulation	97.67	100.00	WP_011681177
HINJKDBP_14	14652	15413	srtA	Sortase A	Exoenzyme	97.64	100.00	-
HINJKDBP_13	123405	124136	STU_RS14645	Capsule	Immune modulation	97.54	100.00	WP_011226048
HINJKDBP_16	93421	94272	rfbD	Capsule	Immune modulation	97.42	100.00	WP_014621820
HINJKDBP_13	122704	123396	STR_RS05255	Capsule	Immune modulation	97.40	100.00	WP_011227247
HINJKDBP_13	123405	124136	STR_RS05260	Capsule	Immune modulation	97.40	100.00	WP_011227248
HINJKDBP_13	123405	124136	STER_RS05315	Capsule	Immune modulation	97.27	100.00	WP_011681176
HINJKDBP_13	124137	125597	STU_RS14650	Capsule	Immune modulation	96.51	100.21	WP_011226049
HINJKDBP_13	124137	125597	STR_RS05265	Capsule	Immune modulation	95.69	100.21	WP_041827043
HINJKDBP_13	120531	121896	STER_RS05300	Capsule	Immune modulation	95.24	99.85	WP_011681173
HINJKDBP_13	120529	121896	STU_RS14630	Capsule	Immune modulation	94.96	100.00	WP_011226045
HINJKDBP_13	122704	123396	STER_RS05310	Capsule	Immune modulation	91.05	100.00	WP_011681175
HINJKDBP_7	101227	102530	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
HINJKDBP_18	129	1139	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
HINJKDBP_16	85234	86040	SGO_RS05020	Capsule	Immune modulation	83.27	100.00	WP_012000440
HINJKDBP_4	7435	8718	tig/ropA	Trigger factor	Stress survival	80.65	99.77	WP_000107753
HINJKDBP_13	243541	244587	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423
HINJKDBP_16	84497	85234	SGO_RS05025	Capsule	Immune modulation	84.96	60.29	WP_012000441

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
HINJKDBP_14	18100	19083	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.51	100.00	AAK75326
HINJKDBP_7	202934	204007	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
HINJKDBP_16	257733	260036	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
HINJKDBP_7	17583	18551	spr0084	0.0	pathogenitcity related	92.57	98.48	AAK98888
HINJKDBP_14	91350	92831	SPD_0310	0.0	UPF0371 protein SPD_0310	92.31	100.00	ABJ54480
HINJKDBP_7	223459	225705	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
HINJKDBP_1	40554	41552	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
HINJKDBP_1	4441	5412	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
HINJKDBP_16	143726	142575	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
HINJKDBP_16	107313	105325	uvrB	0.0	excinuclease ABC, B subunit	88.84	100.00	AE014259_2
HINJKDBP_14	1902	172	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.69	100.00	AAK34199
HINJKDBP_20	164114	162636	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
HINJKDBP_7	101227	102528	Eno	0.0	enolase	86.21	99.77	ABP90468
HINJKDBP_20	148925	147033	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
HINJKDBP_7	228630	226921	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
HINJKDBP_20	19670	20680	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
HINJKDBP_13	41584	40223	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
HINJKDBP_20	70003	68111	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
HINJKDBP_7	86791	87681	bglB	1.68e-179	putative phospho--glucosidase	88.89	99.66	AAK33487
HINJKDBP_12	11834	10896	SP_0676	7.02e-169	transcription facot	81.15	97.20	AAK74821
HINJKDBP_7	225897	226754	metF	1.93e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
HINJKDBP_13	162433	161729	covR	6.29e-132	responder protein	85.53	100.00	AAK71319
HINJKDBP_14	72378	71707	rr01	1.65e-126	response regulator	84.38	99.56	CAB54566
HINJKDBP_13	162433	161729	walR	2.65e-122	DNA-binding response regulator	82.13	100.00	ANC99504
HINJKDBP_4	152872	153558	CovR	1.09e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
HINJKDBP_7	232584	233252	CiaR	2.56e-118	two-component response regulator	84.31	99.55	AAK74935
HINJKDBP_7	232584	233255	ciaR	2.52e-116	two component system response regulator	82.14	99.12	AIK75708
HINJKDBP_1	41828	42202	SpxA2	2.64e-71	transcriptional regulator	91.20	94.70	ERL21461
HINJKDBP_13	52947	53348	SpxA1	5.40e-67	transcriptional regulator	80.60	100.00	ERL19273
HINJKDBP_4	175262	175549	spr0479	1.54e-48	essential gene	86.46	98.97	AAK99283
HINJKDBP_5	120995	121249	spr1327	1.51e-44	essential gene	94.12	100.00	AAL00131
HINJKDBP_20	110811	111074	spr0175	7.43e-42	pathogenitcity related	84.09	100.00	AAK98979
HINJKDBP_20	111638	111904	spr0177	1.62e-33	essential gene	84.27	88.12	AAK98981
HINJKDBP_4	8876	9376	RopE (M5005_Spy_1611)	5.33e-76	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
HINJKDBP_16	257733	260030	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
HINJKDBP_20	55534	54515	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	96.47	100.00	ABJ55451

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
HINJKDBP_1	0.0	1.0	0.0
HINJKDBP_2	0.0	1.0	0.0
HINJKDBP_3	0.0	1.0	0.0
HINJKDBP_4	0.0	1.0	0.0
HINJKDBP_5	0.0	1.0	0.0
HINJKDBP_6	0.0	1.0	0.0
HINJKDBP_7	0.0	1.0	0.0
HINJKDBP_8	0.0	1.0	0.0
HINJKDBP_9	0.0	1.0	0.0
HINJKDBP_10	0.0	1.0	0.0
HINJKDBP_11	1.0	0.0	1.0
HINJKDBP_12	0.0	1.0	0.0
HINJKDBP_13	0.0	1.0	0.0
HINJKDBP_14	0.0	1.0	0.0
HINJKDBP_15	0.0	1.0	0.0
HINJKDBP_16	0.0	1.0	0.0
HINJKDBP_17	0.0	1.0	0.0
HINJKDBP_18	0.0	1.0	0.0
HINJKDBP_19	0.0	1.0	0.0
HINJKDBP_20	0.0	1.0	0.0
HINJKDBP_22	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Prophage

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
No hit found