safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	30	33	44.60

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	e-value	VF name	VF category	Identity	Coverage	Accession no.
GHCBJNHB_14	53599	54468	rfbA	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681286
GHCBJNHB_16	17230	18975	STER_RS07045	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681434
GHCBJNHB_16	20695	21897	STER_RS07055	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681436
GHCBJNHB_16	21897	22703	STER_RS07060	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681437
GHCBJNHB_16	22703	23644	STER_RS07065	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681438
GHCBJNHB_16	24908	25684	STER_RS07075	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681440
GHCBJNHB_16	26030	26746	STER_RS07085	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681442
GHCBJNHB_16	28706	29965	STER_RS07100	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681445
GHCBJNHB_16	18977	20677	STER_RS07050	0.0	Capsule	Immune modulation	99.94	100.00	WP_041827753
GHCBJNHB_14	53006	53599	STER_RS06030	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
GHCBJNHB_16	23641	24789	STER_RS07070	0.0	Capsule	Immune modulation	99.83	100.00	WP_011681439
GHCBJNHB_16	26747	27715	STER_RS07090	0.0	Capsule	Immune modulation	99.79	100.00	WP_011681443
GHCBJNHB_13	9572	10021	STU_RS14620	0.0	Capsule	Immune modulation	99.78	100.00	WP_011226042
GHCBJNHB_16	18977	20677	STR_RS06890	0.0	Capsule	Immune modulation	99.77	100.00	WP_041827077
GHCBJNHB_14	53006	53599	STR_RS05880	0.0	Capsule	Immune modulation	99.66	100.00	WP_011226149
GHCBJNHB_16	27733	28709	STER_RS07095	0.0	Capsule	Immune modulation	99.59	99.90	WP_011681444
GHCBJNHB_11	13046	14704	fbp54	0.0	FBPs	Adherence	99.58	100.00	WP_011227179
GHCBJNHB_16	21897	22703	STR_RS06900	0.0	Capsule	Immune modulation	99.50	100.00	WP_011227429
GHCBJNHB_14	53006	53599	STU_RS15260	0.0	Capsule	Immune modulation	99.50	100.00	WP_011226149
GHCBJNHB_16	22703	23644	STR_RS06905	0.0	Capsule	Immune modulation	99.47	100.00	WP_011227430
GHCBJNHB_16	20695	21897	STR_RS06895	0.0	Capsule	Immune modulation	99.42	100.00	WP_011227428
GHCBJNHB_1	20159	20998	cbpD	0.0	Autolysin	Exoenzyme	99.41	100.00	WP_011226733
GHCBJNHB_13	14141	14872	STER_RS05315	0.0	Capsule	Immune modulation	99.32	100.00	WP_011681176
GHCBJNHB_16	23641	24789	STR_RS06910	0.0	Capsule	Immune modulation	99.22	100.00	WP_011227431
GHCBJNHB_13	14141	14872	STU_RS14645	0.0	Capsule	Immune modulation	98.77	100.00	WP_011226048
GHCBJNHB_13	91507	92300	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	98.74	100.25	-
GHCBJNHB_13	14141	14872	STR_RS05260	0.0	Capsule	Immune modulation	98.63	100.00	WP_011227248
GHCBJNHB_13	10030	11024	STU_RS14625*	0.0	Capsule	Immune modulation	98.60	99.90	-
GHCBJNHB_16	17230	18975	STR_RS06885	0.0	Capsule	Immune modulation	98.22	100.00	WP_011227426
GHCBJNHB_13	14873	16333	STER_RS05320	0.0	Capsule	Immune modulation	97.67	100.00	WP_011681177
GHCBJNHB_14	88368	89129	srtA	0.0	Sortase A	Exoenzyme	97.64	100.00	-
GHCBJNHB_16	30084	30935	rfbD	0.0	Capsule	Immune modulation	97.30	100.00	WP_014621820
GHCBJNHB_13	14873	16333	STU_RS14650	0.0	Capsule	Immune modulation	96.37	100.21	WP_011226049
GHCBJNHB_13	12690	13430	STER_RS05305	0.0	Capsule	Immune modulation	95.82	100.00	WP_011681174
GHCBJNHB_13	14873	16333	STR_RS05265	0.0	Capsule	Immune modulation	95.55	100.21	WP_041827043
GHCBJNHB_13	12690	13430	STU_RS14635	0.0	Capsule	Immune modulation	95.41	100.00	WP_011226046
GHCBJNHB_13	13440	14132	STU_RS14640	0.0	Capsule	Immune modulation	95.25	99.86	WP_011226047
GHCBJNHB_13	12695	13430	STR_RS05250	0.0	Capsule	Immune modulation	95.11	98.13	WP_011227246
GHCBJNHB_13	13440	14132	STR_RS05255	0.0	Capsule	Immune modulation	94.96	99.86	WP_011227247
GHCBJNHB_13	11266	12633	STU_RS14630	0.0	Capsule	Immune modulation	94.81	99.93	WP_011226045
GHCBJNHB_13	11268	12633	STER_RS05300	0.0	Capsule	Immune modulation	94.44	99.71	WP_011681173
GHCBJNHB_13	13440	14132	STER_RS05310	0.0	Capsule	Immune modulation	92.35	100.00	WP_011681175
GHCBJNHB_6	95597	96900	eno	0.0	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
GHCBJNHB_16	316952	317962	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.86	99.90	WP_002986042
GHCBJNHB_16	21897	22703	SGO_RS05020	0.0	Capsule	Immune modulation	82.90	100.00	WP_012000440
GHCBJNHB_3	5420	6703	tig/ropA	0.0	Trigger factor	Stress survival	80.73	99.77	WP_000107753
GHCBJNHB_14	51531	52577	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
GHCBJNHB_13	2284	2867	SPD_RS01775	8.94e-143	Capsule	Immune modulation	82.56	96.20	WP_001819836
GHCBJNHB_16	21160	21897	SGO_RS05025	0.0	Capsule	Immune modulation	84.96	60.29	WP_012000441
GHCBJNHB_13	9265	9572	STU_RS14615	4.10e-151	Capsule	Immune modulation	98.38	63.37	WP_011226041

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
GHCBJNHB_14	91816	92799	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
GHCBJNHB_7	63870	64943	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
GHCBJNHB_6	13301	14269	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
GHCBJNHB_16	195063	197366	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.84	99.22	AAK74619
GHCBJNHB_14	162106	163587	SPD_0310	0.0	UPF0371 protein SPD_0310	92.51	100.00	ABJ54480
GHCBJNHB_7	87606	89852	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
GHCBJNHB_1	39790	40788	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
GHCBJNHB_1	3676	4647	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
GHCBJNHB_16	81152	80001	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
GHCBJNHB_16	43973	41985	uvrB	0.0	excinuclease ABC, B subunit	88.84	100.00	AE014259_2
GHCBJNHB_14	75618	73888	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
GHCBJNHB_18	98734	97256	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
GHCBJNHB_6	95597	96898	Eno	0.0	enolase	86.21	99.77	ABP90468
GHCBJNHB_18	83544	81652	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
GHCBJNHB_7	92776	91067	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
GHCBJNHB_17	22676	23686	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
GHCBJNHB_12	1523	162	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
GHCBJNHB_17	73033	71141	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
GHCBJNHB_6	81161	82051	bglB	3.92e-179	putative phospho--glucosidase	88.55	99.66	AAK33487
GHCBJNHB_13	106052	105114	SP_0676	6.63e-169	transcription facot	81.47	97.20	AAK74821
GHCBJNHB_7	90044	90901	metF	5.23e-166	methionine biosynthesis enzymes	86.36	99.31	AAK74739
GHCBJNHB_13	53142	52438	covR	1.71e-132	responder protein	85.53	100.00	AAK71319
GHCBJNHB_14	143157	142486	rr01	2.84e-125	response regulator	83.93	99.56	CAB54566
GHCBJNHB_7	96731	97399	CiaR	5.28e-124	two-component response regulator	86.10	99.55	AAK74935
GHCBJNHB_13	53142	52438	walR	1.61e-122	DNA-binding response regulator	81.70	100.00	ANC99504
GHCBJNHB_7	96731	97402	ciaR	7.15e-122	two component system response regulator	83.93	99.12	AIK75708
GHCBJNHB_3	158374	159060	CovR	1.12e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
GHCBJNHB_1	41064	41438	SpxA2	2.58e-71	transcriptional regulator	91.20	94.70	ERL21461
GHCBJNHB_12	12940	13341	SpxA1	1.30e-67	transcriptional regulator	80.60	100.00	ERL19273
GHCBJNHB_3	180753	181040	spr0479	1.58e-48	essential gene	86.46	98.97	AAK99283
GHCBJNHB_4	120924	121178	spr1327	2.17e-45	essential gene	95.29	100.00	AAL00131
GHCBJNHB_18	49917	50180	spr0175	4.84e-42	pathogenitcity related	84.09	100.00	AAK98979
GHCBJNHB_18	50744	51010	spr0177	1.90e-33	essential gene	83.15	88.12	AAK98981
GHCBJNHB_3	6861	7361	RopE (M5005_Spy_1611)	5.47e-76	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
GHCBJNHB_16	195063	197360	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.81	98.08	MYN69560
GHCBJNHB_17	58561	57542	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
GHCBJNHB_1	0.0	1.0	0.0
GHCBJNHB_2	0.0	1.0	0.0
GHCBJNHB_3	0.0	1.0	0.0
GHCBJNHB_4	0.0	1.0	0.0
GHCBJNHB_5	0.0	1.0	0.0
GHCBJNHB_6	0.0	1.0	0.0
GHCBJNHB_7	0.0	1.0	0.0
GHCBJNHB_8	0.0	1.0	0.0
GHCBJNHB_9	0.0	1.0	0.0
GHCBJNHB_10	1.0	0.0	1.0
GHCBJNHB_11	0.0	1.0	0.0
GHCBJNHB_12	0.0	1.0	0.0
GHCBJNHB_13	0.0	1.0	0.0
GHCBJNHB_14	0.0	1.0	0.0
GHCBJNHB_15	0.0	1.0	0.0
GHCBJNHB_16	0.0	1.0	0.0
GHCBJNHB_17	0.0	1.0	0.0
GHCBJNHB_18	0.0	1.0	0.0
GHCBJNHB_19	1.0	0.0	1.0
GHCBJNHB_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