safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	27	29	39.62

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.
KBEBDDEN_1	1137828	1138697	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
KBEBDDEN_1	1137235	1137828	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
KBEBDDEN_1	1345724	1347469	STER_RS07045	Capsule	Immune modulation	100.00	100.00	WP_011681434
KBEBDDEN_1	1347471	1349171	STER_RS07050	Capsule	Immune modulation	100.00	100.00	WP_041827753
KBEBDDEN_1	1349189	1350391	STER_RS07055	Capsule	Immune modulation	100.00	100.00	WP_011681436
KBEBDDEN_1	1350391	1351197	STER_RS07060	Capsule	Immune modulation	100.00	100.00	WP_011681437
KBEBDDEN_1	1351197	1352138	STER_RS07065	Capsule	Immune modulation	100.00	100.00	WP_011681438
KBEBDDEN_1	1352135	1353283	STER_RS07070	Capsule	Immune modulation	100.00	100.00	WP_011681439
KBEBDDEN_1	1353402	1354178	STER_RS07075	Capsule	Immune modulation	100.00	100.00	WP_011681440
KBEBDDEN_1	1354524	1355240	STER_RS07085	Capsule	Immune modulation	100.00	100.00	WP_011681442
KBEBDDEN_1	1355241	1356209	STER_RS07090	Capsule	Immune modulation	100.00	100.00	WP_011681443
KBEBDDEN_1	1356227	1357204	STER_RS07095	Capsule	Immune modulation	100.00	100.00	WP_011681444
KBEBDDEN_1	1357201	1358460	STER_RS07100	Capsule	Immune modulation	100.00	100.00	WP_011681445
KBEBDDEN_1	1137235	1137828	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
KBEBDDEN_1	1347471	1349171	STR_RS06890	Capsule	Immune modulation	99.71	100.00	WP_041827077
KBEBDDEN_1	1001207	1001899	STU_RS14640	Capsule	Immune modulation	99.71	100.00	WP_011226047
KBEBDDEN_1	1137235	1137828	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
KBEBDDEN_1	887760	889418	fbp54	FBPs	Adherence	99.64	100.00	WP_011227179
KBEBDDEN_1	45046	45885	cbpD	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
KBEBDDEN_1	1350391	1351197	STR_RS06900	Capsule	Immune modulation	99.50	100.00	WP_011227429
KBEBDDEN_1	1351197	1352138	STR_RS06905	Capsule	Immune modulation	99.47	100.00	WP_011227430
KBEBDDEN_1	1349189	1350391	STR_RS06895	Capsule	Immune modulation	99.42	100.00	WP_011227428
KBEBDDEN_1	1352135	1353283	STR_RS06910	Capsule	Immune modulation	99.22	100.00	WP_011227431
KBEBDDEN_1	1001207	1001899	STR_RS05255	Capsule	Immune modulation	99.13	100.00	WP_011227247
KBEBDDEN_1	1079685	1080475	cshA	Cell surface hydrophobicity proteins	Adherence	98.74	100.00	-
KBEBDDEN_1	1000457	1001197	STER_RS05305	Capsule	Immune modulation	98.38	100.00	WP_011681174
KBEBDDEN_1	1000457	1001197	STU_RS14635	Capsule	Immune modulation	98.38	100.00	WP_011226046
KBEBDDEN_1	1001908	1002639	STU_RS14645	Capsule	Immune modulation	98.36	100.00	WP_011226048
KBEBDDEN_1	1345724	1347469	STR_RS06885	Capsule	Immune modulation	98.22	100.00	WP_011227426
KBEBDDEN_1	983779	985194	STER_RS05250	Capsule	Immune modulation	98.09	100.00	WP_011681165
KBEBDDEN_1	1001908	1002639	STER_RS05315	Capsule	Immune modulation	98.09	100.00	WP_011681176
KBEBDDEN_1	1000462	1001197	STR_RS05250	Capsule	Immune modulation	97.96	98.13	WP_011227246
KBEBDDEN_1	1002640	1004100	STER_RS05320	Capsule	Immune modulation	97.74	100.00	WP_011681177
KBEBDDEN_1	1001908	1002639	STR_RS05260	Capsule	Immune modulation	97.68	100.00	WP_011227248
KBEBDDEN_1	1172596	1173357	srtA	Sortase A	Exoenzyme	97.64	100.00	-
KBEBDDEN_1	1002640	1004100	STU_RS14650	Capsule	Immune modulation	96.85	100.21	WP_011226049
KBEBDDEN_1	1358579	1359430	rfbD	Capsule	Immune modulation	96.83	100.00	WP_014621820
KBEBDDEN_1	1002640	1004100	STR_RS05265	Capsule	Immune modulation	95.89	100.21	WP_041827043
KBEBDDEN_1	1001207	1001899	STER_RS05310	Capsule	Immune modulation	89.90	100.00	WP_011681175
KBEBDDEN_1	618981	620284	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
KBEBDDEN_1	1653808	1654818	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
KBEBDDEN_1	1350391	1351197	SGO_RS05020	Capsule	Immune modulation	82.90	100.00	WP_012000440
KBEBDDEN_1	157053	158336	tig/ropA	Trigger factor	Stress survival	80.73	99.77	WP_000107753
KBEBDDEN_1	1135760	1136806	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423
KBEBDDEN_1	1349654	1350391	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
KBEBDDEN_1	1176044	1177027	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
KBEBDDEN_1	729382	730455	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
KBEBDDEN_1	535339	536307	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
KBEBDDEN_1	1524644	1526947	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
KBEBDDEN_1	1247156	1248637	SPD_0310	0.0	UPF0371 protein SPD_0310	92.31	100.00	ABJ54480
KBEBDDEN_1	762715	764961	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
KBEBDDEN_1	64677	65675	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
KBEBDDEN_1	28562	29533	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
KBEBDDEN_1	1407966	1406815	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
KBEBDDEN_1	1372469	1370481	uvrB	0.0	excinuclease ABC, B subunit	89.14	100.00	AE014259_2
KBEBDDEN_1	1159846	1158116	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
KBEBDDEN_1	1850644	1849166	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
KBEBDDEN_1	618981	620282	Eno	0.0	enolase	86.21	99.77	ABP90468
KBEBDDEN_1	1835909	1834017	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.74	98.90	ABP91129
KBEBDDEN_1	767886	766177	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
KBEBDDEN_1	1696802	1697812	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
KBEBDDEN_1	913853	912492	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
KBEBDDEN_1	1747141	1745249	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
KBEBDDEN_1	604541	605431	bglB	5.28e-178	putative phospho--glucosidase	88.55	99.66	AAK33487
KBEBDDEN_1	834213	833275	SP_0676	8.25e-168	transcription facot	81.47	97.20	AAK74821
KBEBDDEN_1	765153	766010	metF	1.54e-164	methionine biosynthesis enzymes	86.36	99.31	AAK74739
KBEBDDEN_1	1040955	1040251	covR	4.40e-131	responder protein	85.53	100.00	AAK71319
KBEBDDEN_1	1228194	1227523	rr01	3.02e-124	response regulator	83.93	99.56	CAB54566
KBEBDDEN_1	1040955	1040251	walR	1.85e-121	DNA-binding response regulator	82.13	100.00	ANC99504
KBEBDDEN_1	771841	772509	CiaR	2.03e-117	two-component response regulator	84.31	99.55	AAK74935
KBEBDDEN_1	310072	310758	CovR	5.08e-117	serves to repress GAS virulence factor-encoding genes	80.35	100.00	ACE75886
KBEBDDEN_1	771841	772512	ciaR	2.00e-115	two component system response regulator	82.14	99.12	AIK75708
KBEBDDEN_1	65951	66325	SpxA2	1.16e-69	transcriptional regulator	91.20	94.70	ERL21461
KBEBDDEN_1	925216	925617	SpxA1	3.78e-66	transcriptional regulator	80.60	100.00	ERL19273
KBEBDDEN_1	158494	158994	RopE (M5005_Spy_1611)	4.94e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
KBEBDDEN_1	1524644	1526941	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
KBEBDDEN_1	1732686	1731667	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.
KBEBDDEN_2	1	949	rep37	949 / 948	99.47	AY250830

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

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
KBEBDDEN_1	0.0	1.0	0.0
KBEBDDEN_2	1.0	0.0	1.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Prophage

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
No hit found