safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	34	32	46.69

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.
KIOFINJO_16	5134	5985	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
KIOFINJO_2	65296	66057	srtA	0.0	Sortase A	Exoenzyme	100.00	100.00	-
KIOFINJO_14	4690	5613	STR_RS05205	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227237
KIOFINJO_14	5573	6523	STR_RS05210	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227238
KIOFINJO_14	6548	7630	STR_RS05215	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227239
KIOFINJO_14	7720	8694	STR_RS05220	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227240
KIOFINJO_14	8700	9179	STR_RS05225	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827041
KIOFINJO_14	9372	10490	STR_RS05230	0.0	Capsule	Immune modulation	100.00	100.00	WP_148148887
KIOFINJO_14	12181	12780	STR_RS05245	0.0	Capsule	Immune modulation	100.00	100.00	WP_196767671
KIOFINJO_14	14377	15108	STR_RS05260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227248
KIOFINJO_2	29940	30533	STR_RS05880	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
KIOFINJO_16	16718	18463	STR_RS06885	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227426
KIOFINJO_16	15016	16716	STR_RS06890	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827077
KIOFINJO_16	12990	13796	STR_RS06900	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227429
KIOFINJO_16	12049	12990	STR_RS06905	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227430
KIOFINJO_16	10904	12052	STR_RS06910	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227431
KIOFINJO_17	16880	18538	fbp54	0.0	FBPs	Adherence	99.94	100.00	WP_011227179
KIOFINJO_14	3261	4682	STR_RS05200	0.0	Capsule	Immune modulation	99.93	100.00	WP_011227236
KIOFINJO_14	15109	16563	STR_RS05265	0.0	Capsule	Immune modulation	99.93	100.00	WP_041827043
KIOFINJO_16	13796	14998	STR_RS06895	0.0	Capsule	Immune modulation	99.92	100.00	WP_011227428
KIOFINJO_14	11058	12017	STR_RS05240	0.0	Capsule	Immune modulation	99.90	100.00	WP_041827042
KIOFINJO_14	12917	13666	STR_RS05250	0.0	Capsule	Immune modulation	99.87	100.00	WP_011227246
KIOFINJO_14	13676	14368	STR_RS05255	0.0	Capsule	Immune modulation	99.86	100.00	WP_011227247
KIOFINJO_2	29940	30533	STER_RS06030	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
KIOFINJO_2	29940	30533	STU_RS15260	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
KIOFINJO_14	510	1567	waaB	0.0	Capsule	Immune modulation	99.81	99.91	WP_157822584
KIOFINJO_16	15016	16716	STER_RS07050	0.0	Capsule	Immune modulation	99.71	100.00	WP_041827753
KIOFINJO_14	13676	14368	STU_RS14640	0.0	Capsule	Immune modulation	99.57	100.00	WP_011226047
KIOFINJO_16	13796	14998	STER_RS07055	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681436
KIOFINJO_16	12990	13796	STER_RS07060	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681437
KIOFINJO_16	12049	12990	STER_RS07065	0.0	Capsule	Immune modulation	99.47	100.00	WP_011681438
KIOFINJO_13	187010	187978	cbpD	0.0	Autolysin	Exoenzyme	99.38	100.00	WP_082302295
KIOFINJO_7	47135	47925	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	99.37	100.00	-
KIOFINJO_16	10904	12052	STER_RS07070	0.0	Capsule	Immune modulation	99.22	100.00	WP_011681439
KIOFINJO_2	30533	31402	rfbA	0.0	Capsule	Immune modulation	99.19	100.00	WP_011681286
KIOFINJO_14	14377	15108	STU_RS14645	0.0	Capsule	Immune modulation	98.77	100.00	WP_011226048
KIOFINJO_14	12931	13666	STER_RS05305	0.0	Capsule	Immune modulation	98.37	99.33	WP_011681174
KIOFINJO_14	14377	15108	STER_RS05315	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681176
KIOFINJO_16	16718	18463	STER_RS07045	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681434
KIOFINJO_14	15109	16563	STU_RS14650	0.0	Capsule	Immune modulation	98.01	100.00	WP_011226049
KIOFINJO_14	12931	13666	STU_RS14635	0.0	Capsule	Immune modulation	97.83	99.33	WP_011226046
KIOFINJO_16	6106	7365	STER_RS07100	0.0	Capsule	Immune modulation	97.70	100.00	WP_011681445
KIOFINJO_14	15109	16563	STER_RS05320	0.0	Capsule	Immune modulation	96.99	99.79	WP_011681177
KIOFINJO_14	13676	14368	STER_RS05310	0.0	Capsule	Immune modulation	89.75	100.00	WP_011681175
KIOFINJO_13	27929	29232	eno	0.0	Streptococcal enolase	Exoenzyme	88.02	99.54	WP_000022832
KIOFINJO_26	318	1328	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
KIOFINJO_16	12990	13796	SGO_RS05020	0.0	Capsule	Immune modulation	82.90	100.00	WP_012000440
KIOFINJO_6	63686	64969	tig/ropA	0.0	Trigger factor	Stress survival	80.65	99.77	WP_000107753
KIOFINJO_2	28465	29511	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
KIOFINJO_16	7362	8060	STER_RS07095	5.34e-154	Capsule	Immune modulation	81.15	70.35	WP_011681444
KIOFINJO_14	10766	11002	STR_RS05235*	1.25e-120	Capsule	Immune modulation	100.00	100.00	-
KIOFINJO_16	8414	8880	STER_RS07085	0.0	Capsule	Immune modulation	94.02	65.13	WP_011681442
KIOFINJO_16	13796	14533	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
KIOFINJO_2	68743	69726	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
KIOFINJO_5	13869	12796	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
KIOFINJO_13	111463	110495	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
KIOFINJO_30	156289	158592	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
KIOFINJO_48	38075	36594	SPD_0310	0.0	UPF0371 protein SPD_0310	92.11	100.00	ABJ54480
KIOFINJO_24	11332	9086	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
KIOFINJO_22	20127	21119	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
KIOFINJO_27	122	1093	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
KIOFINJO_30	42462	41311	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
KIOFINJO_2	52550	50820	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
KIOFINJO_3	63182	61704	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
KIOFINJO_13	29232	27931	Eno	0.0	enolase	86.21	99.77	ABP90468
KIOFINJO_3	48445	46553	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
KIOFINJO_24	6161	7870	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
KIOFINJO_4	55031	54021	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
KIOFINJO_9	7433	6072	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
KIOFINJO_4	4706	6436	PepO	0.0	endopeptidase	80.42	91.44	ABF32980
KIOFINJO_13	43662	42772	bglB	3.29e-179	putative phospho--glucosidase	88.55	99.66	AAK33487
KIOFINJO_10	13326	12391	SP_0676	2.05e-169	transcription facot	81.73	96.89	AAK74821
KIOFINJO_24	8894	8037	metF	7.60e-167	methionine biosynthesis enzymes	86.36	99.31	AAK74739
KIOFINJO_48	71755	72426	rr01	6.55e-127	response regulator	84.38	99.56	CAB54566
KIOFINJO_19	16141	16827	CovR	1.40e-119	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
KIOFINJO_24	2209	1559	CiaR	1.23e-118	two-component response regulator	86.17	96.88	AAK74935
KIOFINJO_24	2209	1559	ciaR	6.32e-116	two component system response regulator	83.87	96.02	AIK75708
KIOFINJO_7	19301	18735	covR	8.98e-108	responder protein	87.30	80.43	AAK71319
KIOFINJO_22	21416	21811	SpxA2	4.37e-76	transcriptional regulator	90.91	100.00	ERL21461
KIOFINJO_9	18790	19191	SpxA1	1.05e-67	transcriptional regulator	80.60	100.00	ERL19273
KIOFINJO_12	25400	25113	spr0479	3.36e-49	essential gene	86.46	98.97	AAK99283
KIOFINJO_13	146136	145882	spr1327	3.13e-45	essential gene	95.29	100.00	AAL00131
KIOFINJO_3	14804	15067	spr0175	4.32e-42	pathogenitcity related	84.09	100.00	AAK98979
KIOFINJO_3	15631	15897	spr0177	1.11e-33	essential gene	84.27	88.12	AAK98981
KIOFINJO_6	63528	63028	RopE (M5005_Spy_1611)	3.57e-76	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
KIOFINJO_30	156289	158586	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
KIOFINJO_4	19165	20184	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	96.18	100.00	ABJ55451
KIOFINJO_30	7992	6730	uvrB	0.0	excinuclease ABC, B subunit	90.97	63.50	AE014259_2

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
KIOFINJO_1	0.0	1.0	0.0
KIOFINJO_2	0.0	1.0	0.0
KIOFINJO_3	0.0	1.0	0.0
KIOFINJO_4	0.0	1.0	0.0
KIOFINJO_5	0.0	1.0	0.0
KIOFINJO_6	0.0	1.0	0.0
KIOFINJO_7	0.0	1.0	0.0
KIOFINJO_8	0.0	1.0	0.0
KIOFINJO_9	0.0	1.0	0.0
KIOFINJO_10	0.0	1.0	0.0
KIOFINJO_11	0.0	1.0	0.0
KIOFINJO_12	0.0	1.0	0.0
KIOFINJO_13	0.0	1.0	0.0
KIOFINJO_14	0.0	1.0	0.0
KIOFINJO_15	0.0	1.0	0.0
KIOFINJO_16	0.0	1.0	0.0
KIOFINJO_17	0.0	1.0	0.0
KIOFINJO_18	0.0	1.0	0.0
KIOFINJO_19	0.0	1.0	0.0
KIOFINJO_20	0.0	1.0	0.0
KIOFINJO_21	0.0	1.0	0.0
KIOFINJO_22	0.0	1.0	0.0
KIOFINJO_23	0.0	1.0	0.0
KIOFINJO_24	0.0	1.0	0.0
KIOFINJO_25	0.0	1.0	0.0
KIOFINJO_26	0.0	1.0	0.0
KIOFINJO_27	0.0	1.0	0.0
KIOFINJO_28	0.0	1.0	0.0
KIOFINJO_29	0.0	1.0	0.0
KIOFINJO_30	0.0	1.0	0.0
KIOFINJO_31	0.0	1.0	0.0
KIOFINJO_32	0.0	1.0	0.0
KIOFINJO_33	0.0	1.0	0.0
KIOFINJO_34	0.0	1.0	0.0
KIOFINJO_35	1.0	0.0	1.0
KIOFINJO_36	0.0	1.0	0.0
KIOFINJO_37	0.0	1.0	0.0
KIOFINJO_38	1.0	0.0	1.0
KIOFINJO_40	0.0	1.0	0.0
KIOFINJO_41	1.0	0.0	1.0
KIOFINJO_42	0.0	1.0	0.0
KIOFINJO_43	0.0	1.0	0.0
KIOFINJO_44	1.0	0.0	1.0
KIOFINJO_45	0.0	1.0	0.0
KIOFINJO_46	1.0	0.0	1.0
KIOFINJO_48	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