safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	21	28	35.00

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.
DKHLKGED_1	1029233	1030023	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	100.00	100.00	-
DKHLKGED_1	1287417	1288268	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
DKHLKGED_1	1074052	1074645	STU_RS15260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
DKHLKGED_1	1276966	1278750	STU_RS16230	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226325
DKHLKGED_1	1278747	1279802	STU_RS16235	0.0	Capsule	Immune modulation	100.00	100.00	WP_002948022
DKHLKGED_1	1279822	1281027	STU_RS16240	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226326
DKHLKGED_1	1281027	1281836	STU_RS16245	0.0	Capsule	Immune modulation	100.00	100.00	WP_002948020
DKHLKGED_1	1281820	1282776	STU_RS16250	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226328
DKHLKGED_1	1284030	1285040	STU_RS16260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226330
DKHLKGED_1	1285040	1286314	STU_RS16265	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226331
DKHLKGED_1	1282773	1283921	STU_RS16255	0.0	Capsule	Immune modulation	99.91	100.00	WP_041828290
DKHLKGED_1	1109411	1110172	srtA	0.0	Sortase A	Exoenzyme	99.87	100.00	-
DKHLKGED_1	963397	964851	STR_RS05265	0.0	Capsule	Immune modulation	99.86	100.00	WP_041827043
DKHLKGED_1	1074052	1074645	STR_RS05880	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
DKHLKGED_1	1074052	1074645	STER_RS06030	0.0	Capsule	Immune modulation	99.66	100.00	WP_011226149
DKHLKGED_1	44879	45718	cbpD	0.0	Autolysin	Exoenzyme	99.64	100.00	WP_011226733
DKHLKGED_1	855817	857475	fbp54	0.0	FBPs	Adherence	99.58	100.00	WP_011227179
DKHLKGED_1	1074645	1075514	rfbA	0.0	Capsule	Immune modulation	99.54	100.00	WP_011681286
DKHLKGED_1	963397	964851	STU_RS14650	0.0	Capsule	Immune modulation	97.94	100.00	WP_011226049
DKHLKGED_1	963397	964851	STER_RS05320	0.0	Capsule	Immune modulation	96.92	99.79	WP_011681177
DKHLKGED_1	602071	603374	eno	0.0	Streptococcal enolase	Exoenzyme	88.09	99.54	WP_000022832
DKHLKGED_1	1574032	1575042	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
DKHLKGED_1	1072576	1073622	rfbB	0.0	Capsule	Immune modulation	80.71	100.00	WP_009659423
DKHLKGED_1	150276	151559	tig/ropA	0.0	Trigger factor	Stress survival	80.50	99.77	WP_000107753
DKHLKGED_1	959426	960009	SPD_RS01775	1.05e-146	Capsule	Immune modulation	83.08	96.20	WP_001819836
DKHLKGED_1	962932	963396	STR_RS05260	0.0	Capsule	Immune modulation	100.00	63.52	WP_011227248
DKHLKGED_1	962932	963396	STU_RS14645	0.0	Capsule	Immune modulation	98.50	63.52	WP_011226048
DKHLKGED_1	962932	963396	STER_RS05315	0.0	Capsule	Immune modulation	97.42	63.52	WP_011681176

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
DKHLKGED_1	1112859	1113842	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
DKHLKGED_1	709652	710725	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
DKHLKGED_1	519834	520802	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
DKHLKGED_1	1451460	1453763	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
DKHLKGED_1	730174	732420	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
DKHLKGED_1	1192289	1193770	SPD_0310	0.0	UPF0371 protein SPD_0310	91.90	100.00	ABJ54480
DKHLKGED_1	65754	66746	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
DKHLKGED_1	28396	29367	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
DKHLKGED_1	1337723	1336572	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
DKHLKGED_1	1303250	1301268	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
DKHLKGED_1	1096665	1094935	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
DKHLKGED_1	1767776	1766298	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.42	100.00	ADE32434
DKHLKGED_1	602071	603372	Eno	0.0	enolase	86.21	99.77	ABP90468
DKHLKGED_1	1753040	1751148	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
DKHLKGED_1	735345	733636	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
DKHLKGED_1	1616973	1617983	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
DKHLKGED_1	883045	881684	mnmE	0.0	central tRNA-modifying GTPase	82.02	99.56	ABP90420
DKHLKGED_1	1668990	1667098	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
DKHLKGED_1	587641	588531	bglB	1.28e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
DKHLKGED_1	794739	793804	SP_0676	7.10e-168	transcription facot	81.73	96.89	AAK74821
DKHLKGED_1	732612	733469	metF	8.31e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
DKHLKGED_1	1001554	1000850	covR	3.37e-130	responder protein	84.68	100.00	AAK71319
DKHLKGED_1	1166018	1165347	rr01	1.15e-125	response regulator	84.38	99.56	CAB54566
DKHLKGED_1	1001554	1000850	walR	2.41e-120	DNA-binding response regulator	80.85	100.00	ANC99504
DKHLKGED_1	307917	308603	CovR	9.66e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
DKHLKGED_1	739299	739967	CiaR	6.82e-117	two-component response regulator	83.86	99.55	AAK74935
DKHLKGED_1	739299	739970	ciaR	6.78e-115	two component system response regulator	81.70	99.12	AIK75708
DKHLKGED_1	67043	67438	SpxA2	3.56e-74	transcriptional regulator	90.91	100.00	ERL21461
DKHLKGED_1	151717	152217	RopE (M5005_Spy_1611)	9.49e-75	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
DKHLKGED_1	1451460	1453757	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
DKHLKGED_1	1654529	1653510	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
DKHLKGED_1	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