safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	27	31	41.11

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.
IOGLEDCI_1	1178279	1179148	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
IOGLEDCI_1	1177686	1178279	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
IOGLEDCI_1	1411105	1411914	STU_RS16245	Capsule	Immune modulation	99.88	100.00	WP_002948020
IOGLEDCI_1	1177686	1178279	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
IOGLEDCI_1	1411898	1412854	STU_RS16250	Capsule	Immune modulation	99.79	100.00	WP_011226328
IOGLEDCI_1	1412851	1413999	STU_RS16255	Capsule	Immune modulation	99.74	100.00	WP_041828290
IOGLEDCI_1	1177686	1178279	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
IOGLEDCI_1	1417495	1418346	rfbD	Capsule	Immune modulation	99.65	100.00	WP_014621820
IOGLEDCI_1	936905	938563	fbp54	FBPs	Adherence	99.58	100.00	WP_011227179
IOGLEDCI_1	1409900	1411105	STU_RS16240	Capsule	Immune modulation	99.58	100.00	WP_011226326
IOGLEDCI_1	43684	44523	cbpD	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
IOGLEDCI_1	1051128	1051727	STR_RS05245	Capsule	Immune modulation	99.50	100.00	WP_196767671
IOGLEDCI_1	1414108	1415118	STU_RS16260	Capsule	Immune modulation	99.50	100.00	WP_011226330
IOGLEDCI_1	1407044	1408828	STU_RS16230	Capsule	Immune modulation	99.44	100.00	WP_011226325
IOGLEDCI_1	1408825	1409880	STU_RS16235	Capsule	Immune modulation	99.43	100.00	WP_002948022
IOGLEDCI_1	1030428	1031843	STER_RS05250	Capsule	Immune modulation	99.15	100.00	WP_011681165
IOGLEDCI_1	1051879	1052614	STER_RS05305	Capsule	Immune modulation	98.91	99.33	WP_011681174
IOGLEDCI_1	1214473	1215234	srtA	Sortase A	Exoenzyme	98.82	100.00	-
IOGLEDCI_1	1053325	1054056	STER_RS05315	Capsule	Immune modulation	98.77	100.00	WP_011681176
IOGLEDCI_1	1054057	1055511	STR_RS05265	Capsule	Immune modulation	98.76	100.00	WP_041827043
IOGLEDCI_1	1050004	1050963	STR_RS05240	Capsule	Immune modulation	98.54	100.00	WP_041827042
IOGLEDCI_1	1053325	1054056	STU_RS14645	Capsule	Immune modulation	98.50	100.00	WP_011226048
IOGLEDCI_1	1120035	1120828	cshA	Cell surface hydrophobicity proteins	Adherence	98.36	100.25	-
IOGLEDCI_1	1053325	1054056	STR_RS05260	Capsule	Immune modulation	98.36	100.00	WP_011227248
IOGLEDCI_1	1051865	1052614	STR_RS05250	Capsule	Immune modulation	98.27	100.00	WP_011227246
IOGLEDCI_1	1054057	1055511	STU_RS14650	Capsule	Immune modulation	98.21	100.00	WP_011226049
IOGLEDCI_1	1051879	1052614	STU_RS14635	Capsule	Immune modulation	98.10	99.33	WP_011226046
IOGLEDCI_1	1415121	1416392	STU_RS16265	Capsule	Immune modulation	97.48	99.76	WP_011226331
IOGLEDCI_1	1054057	1055511	STER_RS05320	Capsule	Immune modulation	96.65	99.79	WP_011681177
IOGLEDCI_1	533823	538717	SAG_RS09105	Agglutinin receptor	Adherence	92.87	99.98	WP_000167699
IOGLEDCI_1	533775	538717	SSU98_0978	Agglutinin receptor	Adherence	92.82	99.78	YP_001200536
IOGLEDCI_1	533775	538717	SSU05_0965	Agglutinin receptor	Adherence	92.80	99.78	YP_001198331
IOGLEDCI_1	1052624	1053316	STER_RS05310	Capsule	Immune modulation	89.90	100.00	WP_011681175
IOGLEDCI_1	1052624	1053316	STU_RS14640	Capsule	Immune modulation	89.75	100.00	WP_011226047
IOGLEDCI_1	1052624	1053316	STR_RS05255	Capsule	Immune modulation	89.47	100.00	WP_011227247
IOGLEDCI_1	681837	683140	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
IOGLEDCI_1	1709319	1710329	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
IOGLEDCI_1	146518	147801	tig/ropA	Trigger factor	Stress survival	80.73	99.77	WP_000107753
IOGLEDCI_1	1176211	1177257	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423

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
IOGLEDCI_1	1217921	1218904	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
IOGLEDCI_1	790688	791761	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
IOGLEDCI_1	533802	538712	B9H01_RS04765	0.0	glucan-binding protein	93.40	99.63	AUS90958
IOGLEDCI_1	598151	599119	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
IOGLEDCI_1	1586161	1588464	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
IOGLEDCI_1	1307285	1308766	SPD_0310	0.0	UPF0371 protein SPD_0310	92.31	100.00	ABJ54480
IOGLEDCI_1	812630	814876	metE	0.0	methionine biosynthesis enzymes	91.72	100.00	AAK74738
IOGLEDCI_1	72292	73290	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
IOGLEDCI_1	27201	28172	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
IOGLEDCI_1	1471133	1469982	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
IOGLEDCI_1	1433316	1431328	uvrB	0.0	excinuclease ABC, B subunit	88.99	100.00	AE014259_2
IOGLEDCI_1	1201722	1199992	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
IOGLEDCI_1	1917621	1916143	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.22	100.00	ADE32434
IOGLEDCI_1	681837	683138	Eno	0.0	enolase	86.21	99.77	ABP90468
IOGLEDCI_1	1902432	1900540	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
IOGLEDCI_1	817801	816092	PGM	0.0	phosphoglucomutase	83.71	99.65	ACH87041
IOGLEDCI_1	1751810	1752820	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
IOGLEDCI_1	964977	963616	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
IOGLEDCI_1	1803854	1801962	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
IOGLEDCI_1	667402	668292	bglB	1.39e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
IOGLEDCI_1	878857	877919	SP_0676	2.45e-167	transcription facot	81.15	97.20	AAK74821
IOGLEDCI_1	815068	815925	metF	1.59e-164	methionine biosynthesis enzymes	86.36	99.31	AAK74739
IOGLEDCI_1	1092354	1091650	covR	4.56e-131	responder protein	85.53	100.00	AAK71319
IOGLEDCI_1	1266093	1265422	rr01	3.13e-124	response regulator	83.93	99.56	CAB54566
IOGLEDCI_1	1092354	1091650	walR	1.92e-121	DNA-binding response regulator	82.13	100.00	ANC99504
IOGLEDCI_1	304552	305238	CovR	1.05e-117	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
IOGLEDCI_1	821755	822423	CiaR	2.10e-117	two-component response regulator	84.31	99.55	AAK74935
IOGLEDCI_1	821755	822426	ciaR	2.07e-115	two component system response regulator	82.14	99.12	AIK75708
IOGLEDCI_1	73566	73940	SpxA2	1.20e-69	transcriptional regulator	91.20	94.70	ERL21461
IOGLEDCI_1	976336	976737	SpxA1	3.91e-66	transcriptional regulator	80.60	100.00	ERL19273
IOGLEDCI_1	147959	148459	RopE (M5005_Spy_1611)	5.12e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
IOGLEDCI_1	1586161	1588458	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
IOGLEDCI_1	568425	569621	AUS90997 (B9H01_RS07385)	0.0	site-specific integrase	97.74	100.00	AUS90997
IOGLEDCI_1	1789382	1788363	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
IOGLEDCI_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