safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	33	33	46.67

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.
BCGNIMAK_25	20692	21531	cbpD	0.0	Autolysin	Exoenzyme	100.00	100.00	WP_011226733
BCGNIMAK_16	5133	5984	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
BCGNIMAK_44	65295	66056	srtA	0.0	Sortase A	Exoenzyme	100.00	100.00	-
BCGNIMAK_15	3934	4857	STR_RS05205	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227237
BCGNIMAK_15	4817	5767	STR_RS05210	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227238
BCGNIMAK_15	5792	6874	STR_RS05215	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227239
BCGNIMAK_15	6964	7938	STR_RS05220	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227240
BCGNIMAK_15	7944	8423	STR_RS05225	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827041
BCGNIMAK_15	8616	9734	STR_RS05230	0.0	Capsule	Immune modulation	100.00	100.00	WP_148148887
BCGNIMAK_15	11425	12024	STR_RS05245	0.0	Capsule	Immune modulation	100.00	100.00	WP_196767671
BCGNIMAK_15	13621	14352	STR_RS05260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227248
BCGNIMAK_44	29938	30531	STR_RS05880	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
BCGNIMAK_16	16717	18462	STR_RS06885	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227426
BCGNIMAK_16	15015	16715	STR_RS06890	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827077
BCGNIMAK_16	12989	13795	STR_RS06900	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227429
BCGNIMAK_16	12048	12989	STR_RS06905	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227430
BCGNIMAK_16	10903	12051	STR_RS06910	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227431
BCGNIMAK_49	13000	14658	fbp54	0.0	FBPs	Adherence	99.94	100.00	WP_011227179
BCGNIMAK_15	2505	3926	STR_RS05200	0.0	Capsule	Immune modulation	99.93	100.00	WP_011227236
BCGNIMAK_15	14353	15807	STR_RS05265	0.0	Capsule	Immune modulation	99.93	100.00	WP_041827043
BCGNIMAK_16	13795	14997	STR_RS06895	0.0	Capsule	Immune modulation	99.92	100.00	WP_011227428
BCGNIMAK_15	10302	11261	STR_RS05240	0.0	Capsule	Immune modulation	99.90	100.00	WP_041827042
BCGNIMAK_15	12161	12910	STR_RS05250	0.0	Capsule	Immune modulation	99.87	100.00	WP_011227246
BCGNIMAK_15	12920	13612	STR_RS05255	0.0	Capsule	Immune modulation	99.86	100.00	WP_011227247
BCGNIMAK_44	29938	30531	STER_RS06030	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
BCGNIMAK_44	29938	30531	STU_RS15260	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
BCGNIMAK_16	15015	16715	STER_RS07050	0.0	Capsule	Immune modulation	99.71	100.00	WP_041827753
BCGNIMAK_15	12920	13612	STU_RS14640	0.0	Capsule	Immune modulation	99.57	100.00	WP_011226047
BCGNIMAK_16	13795	14997	STER_RS07055	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681436
BCGNIMAK_16	12989	13795	STER_RS07060	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681437
BCGNIMAK_16	12048	12989	STER_RS07065	0.0	Capsule	Immune modulation	99.47	100.00	WP_011681438
BCGNIMAK_24	14289	15079	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	99.37	100.00	-
BCGNIMAK_16	10903	12051	STER_RS07070	0.0	Capsule	Immune modulation	99.22	100.00	WP_011681439
BCGNIMAK_44	30531	31400	rfbA	0.0	Capsule	Immune modulation	99.19	100.00	WP_011681286
BCGNIMAK_15	13621	14352	STU_RS14645	0.0	Capsule	Immune modulation	98.77	100.00	WP_011226048
BCGNIMAK_15	12175	12910	STER_RS05305	0.0	Capsule	Immune modulation	98.37	99.33	WP_011681174
BCGNIMAK_15	13621	14352	STER_RS05315	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681176
BCGNIMAK_16	16717	18462	STER_RS07045	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681434
BCGNIMAK_15	14353	15807	STU_RS14650	0.0	Capsule	Immune modulation	98.01	100.00	WP_011226049
BCGNIMAK_15	12175	12910	STU_RS14635	0.0	Capsule	Immune modulation	97.83	99.33	WP_011226046
BCGNIMAK_16	6105	7364	STER_RS07100	0.0	Capsule	Immune modulation	97.70	100.00	WP_011681445
BCGNIMAK_15	14353	15807	STER_RS05320	0.0	Capsule	Immune modulation	96.99	99.79	WP_011681177
BCGNIMAK_15	12920	13612	STER_RS05310	0.0	Capsule	Immune modulation	89.75	100.00	WP_011681175
BCGNIMAK_55	43667	44970	eno	0.0	Streptococcal enolase	Exoenzyme	88.02	99.54	WP_000022832
BCGNIMAK_88	14298	15308	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
BCGNIMAK_16	12989	13795	SGO_RS05020	0.0	Capsule	Immune modulation	82.90	100.00	WP_012000440
BCGNIMAK_43	62939	64222	tig/ropA	0.0	Trigger factor	Stress survival	80.65	99.77	WP_000107753
BCGNIMAK_44	28463	29509	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
BCGNIMAK_16	7361	8059	STER_RS07095	5.34e-154	Capsule	Immune modulation	81.15	70.35	WP_011681444
BCGNIMAK_15	10010	10246	STR_RS05235*	1.03e-120	Capsule	Immune modulation	100.00	100.00	-
BCGNIMAK_15	97	811	waaB	0.0	Capsule	Immune modulation	100.00	67.52	WP_157822584
BCGNIMAK_16	8413	8879	STER_RS07085	0.0	Capsule	Immune modulation	94.02	65.13	WP_011681442
BCGNIMAK_16	13795	14532	SGO_RS05025	0.0	Capsule	Immune modulation	85.23	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
BCGNIMAK_44	68743	69726	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
BCGNIMAK_77	13900	12827	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
BCGNIMAK_55	127206	126238	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
BCGNIMAK_1	155161	157464	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
BCGNIMAK_2	63540	65021	SPD_0310	0.0	UPF0371 protein SPD_0310	92.11	100.00	ABJ54480
BCGNIMAK_38	5686	7932	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
BCGNIMAK_25	1900	908	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
BCGNIMAK_23	121	1092	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
BCGNIMAK_1	41330	40179	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
BCGNIMAK_1	6857	4875	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
BCGNIMAK_44	52549	50819	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
BCGNIMAK_22	26999	28477	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
BCGNIMAK_55	44970	43669	Eno	0.0	enolase	86.21	99.77	ABP90468
BCGNIMAK_22	41735	43627	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
BCGNIMAK_38	10857	9148	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
BCGNIMAK_74	10751	9741	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
BCGNIMAK_66	44717	46078	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
BCGNIMAK_33	4705	6597	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
BCGNIMAK_55	59400	58510	bglB	2.20e-179	putative phospho--glucosidase	88.55	99.66	AAK33487
BCGNIMAK_37	47015	47950	SP_0676	1.90e-169	transcription facot	81.73	96.89	AAK74821
BCGNIMAK_38	8124	8981	metF	7.68e-167	methionine biosynthesis enzymes	86.36	99.31	AAK74739
BCGNIMAK_46	16711	17415	covR	7.71e-132	responder protein	84.68	100.00	AAK71319
BCGNIMAK_2	29859	29188	rr01	6.55e-127	response regulator	84.38	99.56	CAB54566
BCGNIMAK_46	16711	17415	walR	5.52e-122	DNA-binding response regulator	80.85	100.00	ANC99504
BCGNIMAK_12	10112	9426	CovR	1.70e-119	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
BCGNIMAK_38	14810	15460	CiaR	1.24e-118	two-component response regulator	86.17	96.88	AAK74935
BCGNIMAK_38	14810	15460	ciaR	6.38e-116	two component system response regulator	83.87	96.02	AIK75708
BCGNIMAK_25	611	216	SpxA2	4.30e-76	transcriptional regulator	90.91	100.00	ERL21461
BCGNIMAK_66	33359	32958	SpxA1	1.05e-67	transcriptional regulator	80.60	100.00	ERL19273
BCGNIMAK_13	25398	25111	spr0479	3.36e-49	essential gene	86.46	98.97	AAK99283
BCGNIMAK_47	9897	9643	spr1327	1.05e-45	essential gene	95.29	100.00	AAL00131
BCGNIMAK_22	75379	75116	spr0175	4.05e-42	pathogenitcity related	84.09	100.00	AAK98979
BCGNIMAK_22	74552	74286	spr0177	1.05e-33	essential gene	84.27	88.12	AAK98981
BCGNIMAK_43	62781	62281	RopE (M5005_Spy_1611)	3.53e-76	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
BCGNIMAK_1	155161	157458	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
BCGNIMAK_33	19165	20184	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	96.18	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
BCGNIMAK_1	0.0	1.0	0.0
BCGNIMAK_2	0.0	1.0	0.0
BCGNIMAK_3	0.0	1.0	0.0
BCGNIMAK_4	0.0	1.0	0.0
BCGNIMAK_5	0.0	1.0	0.0
BCGNIMAK_6	0.0	1.0	0.0
BCGNIMAK_7	0.0	1.0	0.0
BCGNIMAK_8	0.0	1.0	0.0
BCGNIMAK_9	0.0	1.0	0.0
BCGNIMAK_10	0.0	1.0	0.0
BCGNIMAK_11	0.0	1.0	0.0
BCGNIMAK_12	0.0	1.0	0.0
BCGNIMAK_13	0.0	1.0	0.0
BCGNIMAK_14	0.0	1.0	0.0
BCGNIMAK_15	0.0	1.0	0.0
BCGNIMAK_16	0.0	1.0	0.0
BCGNIMAK_17	1.0	0.0	1.0
BCGNIMAK_18	0.0	1.0	0.0
BCGNIMAK_20	0.0	1.0	0.0
BCGNIMAK_21	0.0	1.0	0.0
BCGNIMAK_22	0.0	1.0	0.0
BCGNIMAK_23	0.0	1.0	0.0
BCGNIMAK_24	0.0	1.0	0.0
BCGNIMAK_25	0.0	1.0	0.0
BCGNIMAK_28	0.0	1.0	0.0
BCGNIMAK_29	0.0	1.0	0.0
BCGNIMAK_32	0.0	1.0	0.0
BCGNIMAK_33	0.0	1.0	0.0
BCGNIMAK_34	0.0	1.0	0.0
BCGNIMAK_35	0.0	1.0	0.0
BCGNIMAK_36	0.0	1.0	0.0
BCGNIMAK_37	0.0	1.0	0.0
BCGNIMAK_38	0.0	1.0	0.0
BCGNIMAK_39	0.0	1.0	0.0
BCGNIMAK_40	0.0	1.0	0.0
BCGNIMAK_41	0.0	1.0	0.0
BCGNIMAK_42	0.0	1.0	0.0
BCGNIMAK_43	0.0	1.0	0.0
BCGNIMAK_44	0.0	1.0	0.0
BCGNIMAK_45	0.0	1.0	0.0
BCGNIMAK_46	0.0	1.0	0.0
BCGNIMAK_47	0.0	1.0	0.0
BCGNIMAK_48	0.0	1.0	0.0
BCGNIMAK_49	0.0	1.0	0.0
BCGNIMAK_50	0.0	1.0	0.0
BCGNIMAK_52	1.0	0.0	1.0
BCGNIMAK_53	0.0	1.0	0.0
BCGNIMAK_54	1.0	0.0	1.0
BCGNIMAK_55	0.0	1.0	0.0
BCGNIMAK_57	0.0	1.0	0.0
BCGNIMAK_58	0.0	1.0	0.0
BCGNIMAK_59	0.0	1.0	0.0
BCGNIMAK_61	0.0	1.0	0.0
BCGNIMAK_62	1.0	0.0	1.0
BCGNIMAK_65	0.0	1.0	0.0
BCGNIMAK_66	0.0	1.0	0.0
BCGNIMAK_69	0.0	1.0	0.0
BCGNIMAK_74	0.0	1.0	0.0
BCGNIMAK_77	0.0	1.0	0.0
BCGNIMAK_79	0.0	1.0	0.0
BCGNIMAK_81	0.0	1.0	0.0
BCGNIMAK_83	0.0	1.0	0.0
BCGNIMAK_88	0.0	1.0	0.0
BCGNIMAK_93	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