safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	35	29	45.45

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.
IPGBNJNP_1	1399706	1400575	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
IPGBNJNP_1	1253769	1255184	STER_RS05250	Capsule	Immune modulation	100.00	100.00	WP_011681165
IPGBNJNP_1	1256384	1257364	STER_RS05260	Capsule	Immune modulation	100.00	100.00	WP_011681166
IPGBNJNP_1	1257357	1258541	STER_RS05265	Capsule	Immune modulation	100.00	100.00	WP_011681167
IPGBNJNP_1	1258558	1259610	STER_RS05270	Capsule	Immune modulation	100.00	100.00	WP_011681168
IPGBNJNP_1	1259625	1260533	STER_RS05275	Capsule	Immune modulation	100.00	100.00	WP_011681169
IPGBNJNP_1	1260554	1261615	STER_RS05280	Capsule	Immune modulation	100.00	100.00	WP_202964935
IPGBNJNP_1	1261652	1262143	STER_RS05285	Capsule	Immune modulation	100.00	100.00	WP_011681171
IPGBNJNP_1	1262155	1262631	STER_RS05290	Capsule	Immune modulation	100.00	100.00	WP_011681172
IPGBNJNP_1	1264811	1265551	STER_RS05305	Capsule	Immune modulation	100.00	100.00	WP_011681174
IPGBNJNP_1	1265561	1266253	STER_RS05310	Capsule	Immune modulation	100.00	100.00	WP_011681175
IPGBNJNP_1	1266262	1266993	STER_RS05315	Capsule	Immune modulation	100.00	100.00	WP_011681176
IPGBNJNP_1	1266994	1268454	STER_RS05320	Capsule	Immune modulation	100.00	100.00	WP_011681177
IPGBNJNP_1	1399113	1399706	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
IPGBNJNP_1	1612728	1614473	STER_RS07045	Capsule	Immune modulation	100.00	100.00	WP_011681434
IPGBNJNP_1	1614475	1616175	STER_RS07050	Capsule	Immune modulation	100.00	100.00	WP_041827753
IPGBNJNP_1	1616193	1617395	STER_RS07055	Capsule	Immune modulation	100.00	100.00	WP_011681436
IPGBNJNP_1	1617395	1618201	STER_RS07060	Capsule	Immune modulation	100.00	100.00	WP_011681437
IPGBNJNP_1	1618201	1619142	STER_RS07065	Capsule	Immune modulation	100.00	100.00	WP_011681438
IPGBNJNP_1	1620405	1621181	STER_RS07075	Capsule	Immune modulation	100.00	100.00	WP_011681440
IPGBNJNP_1	1621527	1622243	STER_RS07085	Capsule	Immune modulation	100.00	100.00	WP_011681442
IPGBNJNP_1	1622244	1623212	STER_RS07090	Capsule	Immune modulation	100.00	100.00	WP_011681443
IPGBNJNP_1	1623230	1624207	STER_RS07095	Capsule	Immune modulation	100.00	100.00	WP_011681444
IPGBNJNP_1	1624204	1625462	STER_RS07100	Capsule	Immune modulation	99.92	99.92	WP_011681445
IPGBNJNP_1	1619139	1620286	STER_RS07070	Capsule	Immune modulation	99.91	99.91	WP_011681439
IPGBNJNP_1	1263387	1264754	STER_RS05300	Capsule	Immune modulation	99.85	100.00	WP_011681173
IPGBNJNP_1	1399113	1399706	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
IPGBNJNP_1	1614475	1616175	STR_RS06890	Capsule	Immune modulation	99.71	100.00	WP_041827077
IPGBNJNP_1	1399113	1399706	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
IPGBNJNP_1	1160676	1162334	fbp54	FBPs	Adherence	99.64	100.00	WP_011227179
IPGBNJNP_1	318626	319465	cbpD	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
IPGBNJNP_1	1617395	1618201	STR_RS06900	Capsule	Immune modulation	99.50	100.00	WP_011227429
IPGBNJNP_1	1618201	1619142	STR_RS06905	Capsule	Immune modulation	99.47	100.00	WP_011227430
IPGBNJNP_1	1616193	1617395	STR_RS06895	Capsule	Immune modulation	99.42	100.00	WP_011227428
IPGBNJNP_1	1619139	1620286	STR_RS06910	Capsule	Immune modulation	99.13	99.91	WP_011227431
IPGBNJNP_1	1341569	1342359	cshA	Cell surface hydrophobicity proteins	Adherence	98.74	100.00	-
IPGBNJNP_1	1264816	1265551	STR_RS05250	Capsule	Immune modulation	98.50	98.13	WP_011227246
IPGBNJNP_1	1264811	1265551	STU_RS14635	Capsule	Immune modulation	98.25	100.00	WP_011226046
IPGBNJNP_1	1266262	1266993	STR_RS05260	Capsule	Immune modulation	98.22	100.00	WP_011227248
IPGBNJNP_1	1612728	1614473	STR_RS06885	Capsule	Immune modulation	98.22	100.00	WP_011227426
IPGBNJNP_1	1266262	1266993	STU_RS14645	Capsule	Immune modulation	98.09	100.00	WP_011226048
IPGBNJNP_1	1434469	1435230	srtA	Sortase A	Exoenzyme	97.64	100.00	-
IPGBNJNP_1	1266994	1268454	STU_RS14650	Capsule	Immune modulation	97.47	100.21	WP_011226049
IPGBNJNP_1	1266994	1268454	STR_RS05265	Capsule	Immune modulation	96.92	100.21	WP_041827043
IPGBNJNP_1	1625581	1626432	rfbD	Capsule	Immune modulation	96.83	100.00	WP_014621820
IPGBNJNP_1	1263391	1264754	STU_RS14630	Capsule	Immune modulation	94.94	99.71	WP_011226045
IPGBNJNP_1	1265561	1266253	STU_RS14640	Capsule	Immune modulation	89.90	100.00	WP_011226047
IPGBNJNP_1	1265561	1266253	STR_RS05255	Capsule	Immune modulation	89.61	100.00	WP_011227247
IPGBNJNP_1	893522	894825	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
IPGBNJNP_1	64352	65362	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
IPGBNJNP_1	1617395	1618201	SGO_RS05020	Capsule	Immune modulation	82.90	100.00	WP_012000440
IPGBNJNP_1	1397638	1398684	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423
IPGBNJNP_1	430605	431888	tig/ropA	Trigger factor	Stress survival	80.51	99.69	WP_000107753
IPGBNJNP_1	1616658	1617395	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
IPGBNJNP_1	1437916	1438899	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
IPGBNJNP_1	998805	999878	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
IPGBNJNP_1	1791236	1793539	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
IPGBNJNP_1	808473	809441	spr0084	0.0	pathogenitcity related	92.88	98.48	AAK98888
IPGBNJNP_1	1514660	1516141	SPD_0310	0.0	UPF0371 protein SPD_0310	92.51	100.00	ABJ54480
IPGBNJNP_1	1030712	1032958	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
IPGBNJNP_1	338253	339251	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
IPGBNJNP_1	302145	303116	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
IPGBNJNP_1	1674564	1673413	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
IPGBNJNP_1	1639468	1637480	uvrB	0.0	excinuclease ABC, B subunit	89.14	100.00	AE014259_2
IPGBNJNP_1	1421721	1419997	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.65	99.65	AAK34199
IPGBNJNP_1	262574	261096	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
IPGBNJNP_1	893522	894823	Eno	0.0	enolase	86.21	99.77	ABP90468
IPGBNJNP_1	247842	245950	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.74	98.90	ABP91129
IPGBNJNP_1	1035883	1034174	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
IPGBNJNP_1	107340	108350	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
IPGBNJNP_1	1186765	1185404	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
IPGBNJNP_1	159071	157179	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
IPGBNJNP_1	879087	879977	bglB	5.15e-178	putative phospho--glucosidase	88.55	99.66	AAK33487
IPGBNJNP_1	1107144	1106206	SP_0676	9.68e-168	transcription facot	81.47	97.20	AAK74821
IPGBNJNP_1	1033150	1034007	metF	1.50e-164	methionine biosynthesis enzymes	86.36	99.31	AAK74739
IPGBNJNP_1	1305265	1304561	covR	4.29e-131	responder protein	85.53	100.00	AAK71319
IPGBNJNP_1	1490055	1489384	rr01	2.95e-124	response regulator	83.93	99.56	CAB54566
IPGBNJNP_1	1305265	1304561	walR	1.81e-121	DNA-binding response regulator	82.13	100.00	ANC99504
IPGBNJNP_1	583508	584194	CovR	9.87e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
IPGBNJNP_1	1039837	1040505	CiaR	1.98e-117	two-component response regulator	84.31	99.55	AAK74935
IPGBNJNP_1	1039837	1040508	ciaR	1.95e-115	two component system response regulator	82.14	99.12	AIK75708
IPGBNJNP_1	339527	339901	SpxA2	1.13e-69	transcriptional regulator	91.20	94.70	ERL21461
IPGBNJNP_1	1198125	1198526	SpxA1	3.69e-66	transcriptional regulator	80.60	100.00	ERL19273
IPGBNJNP_1	432046	432546	RopE (M5005_Spy_1611)	4.83e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
IPGBNJNP_1	1791236	1793533	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
IPGBNJNP_1	143199	142180	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
IPGBNJNP_1	0.0	1.0	0.0
IPGBNJNP_2	0.0	1.0	0.0
IPGBNJNP_3	0.0	1.0	0.0
IPGBNJNP_4	0.0	1.0	0.0
IPGBNJNP_5	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