safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	35	32	47.42

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.
MHABFFPN_13	1050	2193	cshA	Cell surface hydrophobicity proteins	Adherence	100.00	100.00	-
MHABFFPN_7	10418	11287	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
MHABFFPN_5	89554	90969	STER_RS05250	Capsule	Immune modulation	100.00	100.00	WP_011681165
MHABFFPN_5	86294	87274	STER_RS05260	Capsule	Immune modulation	100.00	100.00	WP_011681166
MHABFFPN_5	85117	86301	STER_RS05265	Capsule	Immune modulation	100.00	100.00	WP_011681167
MHABFFPN_5	84048	85100	STER_RS05270	Capsule	Immune modulation	100.00	100.00	WP_011681168
MHABFFPN_5	83125	84033	STER_RS05275	Capsule	Immune modulation	100.00	100.00	WP_011681169
MHABFFPN_5	82043	83104	STER_RS05280	Capsule	Immune modulation	100.00	100.00	WP_202964935
MHABFFPN_5	81515	82006	STER_RS05285	Capsule	Immune modulation	100.00	100.00	WP_011681171
MHABFFPN_5	81027	81503	STER_RS05290	Capsule	Immune modulation	100.00	100.00	WP_011681172
MHABFFPN_5	78107	78847	STER_RS05305	Capsule	Immune modulation	100.00	100.00	WP_011681174
MHABFFPN_5	77405	78097	STER_RS05310	Capsule	Immune modulation	100.00	100.00	WP_011681175
MHABFFPN_5	76665	77396	STER_RS05315	Capsule	Immune modulation	100.00	100.00	WP_011681176
MHABFFPN_5	75204	76664	STER_RS05320	Capsule	Immune modulation	100.00	100.00	WP_011681177
MHABFFPN_7	9825	10418	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
MHABFFPN_2	105015	106760	STER_RS07045	Capsule	Immune modulation	100.00	100.00	WP_011681434
MHABFFPN_2	103313	105013	STER_RS07050	Capsule	Immune modulation	100.00	100.00	WP_041827753
MHABFFPN_2	102093	103295	STER_RS07055	Capsule	Immune modulation	100.00	100.00	WP_011681436
MHABFFPN_2	101287	102093	STER_RS07060	Capsule	Immune modulation	100.00	100.00	WP_011681437
MHABFFPN_2	100346	101287	STER_RS07065	Capsule	Immune modulation	100.00	100.00	WP_011681438
MHABFFPN_2	99201	100349	STER_RS07070	Capsule	Immune modulation	100.00	100.00	WP_011681439
MHABFFPN_2	98306	99082	STER_RS07075	Capsule	Immune modulation	100.00	100.00	WP_011681440
MHABFFPN_2	97244	97960	STER_RS07085	Capsule	Immune modulation	100.00	100.00	WP_011681442
MHABFFPN_2	96275	97243	STER_RS07090	Capsule	Immune modulation	100.00	100.00	WP_011681443
MHABFFPN_2	95280	96257	STER_RS07095	Capsule	Immune modulation	100.00	100.00	WP_011681444
MHABFFPN_2	94024	95283	STER_RS07100	Capsule	Immune modulation	100.00	100.00	WP_011681445
MHABFFPN_5	78904	80271	STER_RS05300	Capsule	Immune modulation	99.85	100.00	WP_011681173
MHABFFPN_7	9825	10418	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
MHABFFPN_2	103313	105013	STR_RS06890	Capsule	Immune modulation	99.71	100.00	WP_041827077
MHABFFPN_7	9825	10418	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
MHABFFPN_6	89695	91353	fbp54	FBPs	Adherence	99.64	100.00	WP_011227179
MHABFFPN_2	101287	102093	STR_RS06900	Capsule	Immune modulation	99.50	100.00	WP_011227429
MHABFFPN_2	100346	101287	STR_RS06905	Capsule	Immune modulation	99.47	100.00	WP_011227430
MHABFFPN_2	102093	103295	STR_RS06895	Capsule	Immune modulation	99.42	100.00	WP_011227428
MHABFFPN_2	99201	100349	STR_RS06910	Capsule	Immune modulation	99.22	100.00	WP_011227431
MHABFFPN_17	34407	35375	cbpD	Autolysin	Exoenzyme	98.86	100.00	WP_082302295
MHABFFPN_5	78107	78842	STR_RS05250	Capsule	Immune modulation	98.50	98.13	WP_011227246
MHABFFPN_5	78107	78847	STU_RS14635	Capsule	Immune modulation	98.25	100.00	WP_011226046
MHABFFPN_5	76665	77396	STR_RS05260	Capsule	Immune modulation	98.22	100.00	WP_011227248
MHABFFPN_2	105015	106760	STR_RS06885	Capsule	Immune modulation	98.22	100.00	WP_011227426
MHABFFPN_5	76665	77396	STU_RS14645	Capsule	Immune modulation	98.09	100.00	WP_011226048
MHABFFPN_7	45187	45948	srtA	Sortase A	Exoenzyme	97.64	100.00	-
MHABFFPN_5	75204	76664	STU_RS14650	Capsule	Immune modulation	97.47	100.21	WP_011226049
MHABFFPN_5	75204	76664	STR_RS05265	Capsule	Immune modulation	96.92	100.21	WP_041827043
MHABFFPN_2	93054	93905	rfbD	Capsule	Immune modulation	96.83	100.00	WP_014621820
MHABFFPN_5	78904	80267	STU_RS14630	Capsule	Immune modulation	94.94	99.71	WP_011226045
MHABFFPN_5	77405	78097	STU_RS14640	Capsule	Immune modulation	89.90	100.00	WP_011226047
MHABFFPN_5	77405	78097	STR_RS05255	Capsule	Immune modulation	89.61	100.00	WP_011227247
MHABFFPN_3	46441	47744	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
MHABFFPN_24	14335	15345	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
MHABFFPN_2	101287	102093	SGO_RS05020	Capsule	Immune modulation	82.90	100.00	WP_012000440
MHABFFPN_1	5292	6575	tig/ropA	Trigger factor	Stress survival	80.73	99.77	WP_000107753
MHABFFPN_7	8350	9396	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423
MHABFFPN_2	102093	102830	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
MHABFFPN_7	48635	49618	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
MHABFFPN_8	27617	28690	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
MHABFFPN_4	57509	59812	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
MHABFFPN_13	17608	18576	spr0084	0.0	pathogenitcity related	92.88	98.48	AAK98888
MHABFFPN_9	14399	12918	SPD_0310	0.0	UPF0371 protein SPD_0310	92.51	100.00	ABJ54480
MHABFFPN_8	59527	61773	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
MHABFFPN_18	1844	846	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
MHABFFPN_18	37959	36988	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
MHABFFPN_2	44916	46067	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
MHABFFPN_2	80015	82003	uvrB	0.0	excinuclease ABC, B subunit	89.14	100.00	AE014259_2
MHABFFPN_7	32436	30706	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
MHABFFPN_12	13804	15282	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
MHABFFPN_3	46441	47742	Eno	0.0	enolase	86.21	99.77	ABP90468
MHABFFPN_12	28539	30431	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.74	98.90	ABP91129
MHABFFPN_8	64698	62989	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
MHABFFPN_11	22503	23513	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
MHABFFPN_6	65260	66621	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
MHABFFPN_3	32005	32895	bglB	3.79e-179	putative phospho--glucosidase	88.55	99.66	AAK33487
MHABFFPN_14	39289	40227	SP_0676	2.23e-169	transcription facot	81.47	97.20	AAK74821
MHABFFPN_8	61965	62822	metF	5.80e-166	methionine biosynthesis enzymes	86.36	99.31	AAK74739
MHABFFPN_5	38381	39085	covR	2.16e-132	responder protein	85.53	100.00	AAK71319
MHABFFPN_9	39006	39677	rr01	1.09e-125	response regulator	83.93	99.56	CAB54566
MHABFFPN_5	38381	39085	walR	9.08e-123	DNA-binding response regulator	82.13	100.00	ANC99504
MHABFFPN_8	68653	69321	CiaR	7.68e-119	two-component response regulator	84.31	99.55	AAK74935
MHABFFPN_1	157991	158677	CovR	8.98e-119	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
MHABFFPN_8	68653	69324	ciaR	7.56e-117	two component system response regulator	82.14	99.12	AIK75708
MHABFFPN_18	570	196	SpxA2	5.29e-71	transcriptional regulator	91.20	94.70	ERL21461
MHABFFPN_6	53897	53496	SpxA1	2.11e-67	transcriptional regulator	80.60	100.00	ERL19273
MHABFFPN_18	72216	71929	spr0479	6.51e-49	essential gene	86.46	98.97	AAK99283
MHABFFPN_19	33654	33908	spr1327	4.07e-45	essential gene	94.12	100.00	AAL00131
MHABFFPN_22	1196	933	spr0175	8.82e-43	pathogenitcity related	84.09	100.00	AAK98979
MHABFFPN_22	369	103	spr0177	1.93e-34	essential gene	84.27	88.12	AAK98981
MHABFFPN_1	6733	7233	RopE (M5005_Spy_1611)	4.39e-76	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
MHABFFPN_4	57509	59806	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
MHABFFPN_11	58364	57345	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.
MHABFFPN_35	775	1719	rep37	945 / 945	100.00	HM050421

PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
MHABFFPN_1	0.0	1.0	0.0
MHABFFPN_2	0.0	1.0	0.0
MHABFFPN_3	0.0	1.0	0.0
MHABFFPN_4	0.0	1.0	0.0
MHABFFPN_5	0.0	1.0	0.0
MHABFFPN_6	0.0	1.0	0.0
MHABFFPN_7	0.0	1.0	0.0
MHABFFPN_8	0.0	1.0	0.0
MHABFFPN_9	0.0	1.0	0.0
MHABFFPN_10	0.0	1.0	0.0
MHABFFPN_11	0.0	1.0	0.0
MHABFFPN_12	0.0	1.0	0.0
MHABFFPN_13	0.0	1.0	0.0
MHABFFPN_14	0.0	1.0	0.0
MHABFFPN_15	0.0	1.0	0.0
MHABFFPN_16	0.0	1.0	0.0
MHABFFPN_17	0.0	1.0	0.0
MHABFFPN_18	0.0	1.0	0.0
MHABFFPN_19	0.0	1.0	0.0
MHABFFPN_20	0.0	1.0	0.0
MHABFFPN_21	0.0	1.0	0.0
MHABFFPN_22	0.0	1.0	0.0
MHABFFPN_23	0.0	1.0	0.0
MHABFFPN_24	0.0	1.0	0.0
MHABFFPN_25	0.0	1.0	0.0
MHABFFPN_26	0.0	1.0	0.0
MHABFFPN_27	0.0	1.0	0.0
MHABFFPN_28	0.0	1.0	0.0
MHABFFPN_29	0.0	1.0	0.0
MHABFFPN_30	0.0	1.0	0.0
MHABFFPN_31	0.0	1.0	0.0
MHABFFPN_32	0.0	1.0	0.0
MHABFFPN_33	0.0	1.0	0.0
MHABFFPN_34	1.0	0.0	1.0
MHABFFPN_35	1.0	0.0	1.0
MHABFFPN_36	0.0	1.0	0.0
MHABFFPN_37	1.0	0.0	1.0
MHABFFPN_38	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