safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	28	33	43.28

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.
MGMDCLKP_13	10132	11001	rfbA	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681286
MGMDCLKP_13	9539	10132	STER_RS06030	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
MGMDCLKP_16	17945	19690	STER_RS07045	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681434
MGMDCLKP_16	19692	21392	STER_RS07050	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827753
MGMDCLKP_16	21410	22612	STER_RS07055	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681436
MGMDCLKP_16	22612	23418	STER_RS07060	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681437
MGMDCLKP_16	23418	24359	STER_RS07065	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681438
MGMDCLKP_16	24356	25504	STER_RS07070	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681439
MGMDCLKP_16	25623	26399	STER_RS07075	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681440
MGMDCLKP_16	26745	27461	STER_RS07085	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681442
MGMDCLKP_16	27462	28430	STER_RS07090	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681443
MGMDCLKP_16	29422	30681	STER_RS07100	0.0	Capsule	Immune modulation	100.00	100.00	WP_011681445
MGMDCLKP_16	28448	29425	STER_RS07095	0.0	Capsule	Immune modulation	99.90	100.00	WP_011681444
MGMDCLKP_13	9539	10132	STR_RS05880	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
MGMDCLKP_16	19692	21392	STR_RS06890	0.0	Capsule	Immune modulation	99.71	100.00	WP_041827077
MGMDCLKP_13	9539	10132	STU_RS15260	0.0	Capsule	Immune modulation	99.66	100.00	WP_011226149
MGMDCLKP_9	13047	14705	fbp54	0.0	FBPs	Adherence	99.58	100.00	WP_011227179
MGMDCLKP_1	20790	21629	cbpD	0.0	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
MGMDCLKP_16	22612	23418	STR_RS06900	0.0	Capsule	Immune modulation	99.50	100.00	WP_011227429
MGMDCLKP_16	23418	24359	STR_RS06905	0.0	Capsule	Immune modulation	99.47	100.00	WP_011227430
MGMDCLKP_16	21410	22612	STR_RS06895	0.0	Capsule	Immune modulation	99.42	100.00	WP_011227428
MGMDCLKP_16	24356	25504	STR_RS06910	0.0	Capsule	Immune modulation	99.22	100.00	WP_011227431
MGMDCLKP_11	17912	18643	STER_RS05315	0.0	Capsule	Immune modulation	98.50	100.00	WP_011681176
MGMDCLKP_11	17912	18643	STU_RS14645	0.0	Capsule	Immune modulation	98.50	100.00	WP_011226048
MGMDCLKP_11	17912	18643	STR_RS05260	0.0	Capsule	Immune modulation	98.36	100.00	WP_011227248
MGMDCLKP_16	17945	19690	STR_RS06885	0.0	Capsule	Immune modulation	98.22	100.00	WP_011227426
MGMDCLKP_11	18644	20104	STER_RS05320	0.0	Capsule	Immune modulation	97.81	100.00	WP_011681177
MGMDCLKP_13	44903	45664	srtA	0.0	Sortase A	Exoenzyme	97.77	100.00	-
MGMDCLKP_11	18644	20104	STU_RS14650	0.0	Capsule	Immune modulation	97.06	100.21	WP_011226049
MGMDCLKP_11	16461	17201	STU_RS14635	0.0	Capsule	Immune modulation	97.03	100.00	WP_011226046
MGMDCLKP_11	16461	17201	STER_RS05305	0.0	Capsule	Immune modulation	96.90	100.00	WP_011681174
MGMDCLKP_16	30800	31651	rfbD	0.0	Capsule	Immune modulation	96.83	100.00	WP_014621820
MGMDCLKP_11	16466	17201	STR_RS05250	0.0	Capsule	Immune modulation	96.47	98.13	WP_011227246
MGMDCLKP_11	18644	20104	STR_RS05265	0.0	Capsule	Immune modulation	96.23	100.21	WP_041827043
MGMDCLKP_11	15040	16405	STER_RS05300	0.0	Capsule	Immune modulation	95.39	99.85	WP_011681173
MGMDCLKP_11	17211	17903	STR_RS05255	0.0	Capsule	Immune modulation	95.25	99.86	WP_011227247
MGMDCLKP_11	17211	17903	STU_RS14640	0.0	Capsule	Immune modulation	95.25	99.86	WP_011226047
MGMDCLKP_11	15038	16405	STU_RS14630	0.0	Capsule	Immune modulation	94.37	100.00	WP_011226045
MGMDCLKP_11	84536	85314	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	93.19	99.37	-
MGMDCLKP_11	17211	17903	STER_RS05310	0.0	Capsule	Immune modulation	89.61	100.00	WP_011681175
MGMDCLKP_34	95548	96851	eno	0.0	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
MGMDCLKP_19	123	1133	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
MGMDCLKP_16	22612	23418	SGO_RS05020	0.0	Capsule	Immune modulation	82.90	100.00	WP_012000440
MGMDCLKP_29	6383	7666	tig/ropA	0.0	Trigger factor	Stress survival	80.73	99.77	WP_000107753
MGMDCLKP_13	8064	9110	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
MGMDCLKP_11	5507	6090	SPD_RS01775	7.65e-148	Capsule	Immune modulation	83.11	96.04	WP_001819836
MGMDCLKP_16	21875	22612	SGO_RS05025	0.0	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
MGMDCLKP_2	27707	28780	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
MGMDCLKP_13	48351	49334	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.21	100.00	AAK75326
MGMDCLKP_34	13309	14277	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
MGMDCLKP_17	57612	59915	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
MGMDCLKP_13	128568	130049	SPD_0310	0.0	UPF0371 protein SPD_0310	92.71	100.00	ABJ54480
MGMDCLKP_3	6177	8423	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
MGMDCLKP_12	11076	12074	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
MGMDCLKP_1	4306	5277	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
MGMDCLKP_16	80578	79427	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
MGMDCLKP_16	44688	42700	uvrB	0.0	excinuclease ABC, B subunit	88.84	100.00	AE014259_2
MGMDCLKP_13	32152	30422	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
MGMDCLKP_26	62257	60779	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
MGMDCLKP_34	95548	96849	Eno	0.0	enolase	86.21	99.77	ABP90468
MGMDCLKP_26	47519	45627	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.74	98.90	ABP91129
MGMDCLKP_3	11348	9639	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
MGMDCLKP_20	22397	23407	pdh	0.0	pyruvate dehydrogenase	82.79	99.70	ABP91006
MGMDCLKP_9	39682	38321	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
MGMDCLKP_20	72715	70823	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
MGMDCLKP_34	81113	82003	bglB	1.24e-179	putative phospho--glucosidase	88.89	99.66	AAK33487
MGMDCLKP_8	11841	10906	SP_0676	2.03e-169	transcription facot	81.73	96.89	AAK74821
MGMDCLKP_3	8615	9472	metF	1.40e-166	methionine biosynthesis enzymes	86.36	99.31	AAK74739
MGMDCLKP_11	56904	56200	covR	3.05e-132	responder protein	85.53	100.00	AAK71319
MGMDCLKP_13	100464	99793	rr01	2.29e-125	response regulator	83.93	99.56	CAB54566
MGMDCLKP_11	56904	56200	walR	1.28e-122	DNA-binding response regulator	82.13	100.00	ANC99504
MGMDCLKP_3	15302	15970	CiaR	4.18e-121	two-component response regulator	84.75	99.55	AAK74935
MGMDCLKP_31	66152	66838	CovR	6.19e-119	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
MGMDCLKP_3	15302	15973	ciaR	8.25e-119	two component system response regulator	82.59	99.12	AIK75708
MGMDCLKP_12	12350	12724	SpxA2	7.97e-72	transcriptional regulator	91.20	94.70	ERL21461
MGMDCLKP_9	51147	51548	SpxA1	1.32e-67	transcriptional regulator	80.60	100.00	ERL19273
MGMDCLKP_31	88536	88823	spr0479	8.74e-49	essential gene	86.46	98.97	AAK99283
MGMDCLKP_32	125965	126219	spr1327	1.56e-44	essential gene	94.12	100.00	AAL00131
MGMDCLKP_26	13871	14134	spr0175	3.44e-42	pathogenitcity related	84.09	100.00	AAK98979
MGMDCLKP_26	14698	14964	spr0177	7.52e-34	essential gene	84.27	88.12	AAK98981
MGMDCLKP_29	7824	8324	RopE (M5005_Spy_1611)	2.27e-76	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
MGMDCLKP_17	57612	59909	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
MGMDCLKP_20	58261	57242	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
MGMDCLKP_1	0.0	1.0	0.0
MGMDCLKP_2	0.0	1.0	0.0
MGMDCLKP_3	0.0	1.0	0.0
MGMDCLKP_4	0.0	1.0	0.0
MGMDCLKP_5	0.0	1.0	0.0
MGMDCLKP_6	1.0	0.0	1.0
MGMDCLKP_7	1.0	0.0	1.0
MGMDCLKP_8	0.0	1.0	0.0
MGMDCLKP_9	0.0	1.0	0.0
MGMDCLKP_10	0.0	1.0	0.0
MGMDCLKP_11	0.0	1.0	0.0
MGMDCLKP_12	0.0	1.0	0.0
MGMDCLKP_13	0.0	1.0	0.0
MGMDCLKP_14	0.0	1.0	0.0
MGMDCLKP_15	0.0	1.0	0.0
MGMDCLKP_16	0.0	1.0	0.0
MGMDCLKP_17	0.0	1.0	0.0
MGMDCLKP_18	0.0	1.0	0.0
MGMDCLKP_19	0.0	1.0	0.0
MGMDCLKP_20	0.0	1.0	0.0
MGMDCLKP_21	1.0	0.0	1.0
MGMDCLKP_22	0.0	1.0	0.0
MGMDCLKP_23	0.0	1.0	0.0
MGMDCLKP_24	1.0	0.0	1.0
MGMDCLKP_25	0.0	1.0	0.0
MGMDCLKP_26	0.0	1.0	0.0
MGMDCLKP_27	1.0	0.0	1.0
MGMDCLKP_29	0.0	1.0	0.0
MGMDCLKP_30	1.0	0.0	1.0
MGMDCLKP_31	0.0	1.0	0.0
MGMDCLKP_32	0.0	1.0	0.0
MGMDCLKP_33	0.0	1.0	0.0
MGMDCLKP_34	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