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.
GNCMBPMD_1	1185746	1186615	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
GNCMBPMD_1	1185153	1185746	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
GNCMBPMD_1	1418574	1419383	STU_RS16245	Capsule	Immune modulation	99.88	100.00	WP_002948020
GNCMBPMD_1	1185153	1185746	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
GNCMBPMD_1	1419367	1420323	STU_RS16250	Capsule	Immune modulation	99.79	100.00	WP_011226328
GNCMBPMD_1	1420320	1421468	STU_RS16255	Capsule	Immune modulation	99.74	100.00	WP_041828290
GNCMBPMD_1	1185153	1185746	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
GNCMBPMD_1	1424964	1425815	rfbD	Capsule	Immune modulation	99.65	100.00	WP_014621820
GNCMBPMD_1	944368	946026	fbp54	FBPs	Adherence	99.58	100.00	WP_011227179
GNCMBPMD_1	1417369	1418574	STU_RS16240	Capsule	Immune modulation	99.58	100.00	WP_011226326
GNCMBPMD_1	43689	44528	cbpD	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
GNCMBPMD_1	1058591	1059190	STR_RS05245	Capsule	Immune modulation	99.50	100.00	WP_196767671
GNCMBPMD_1	1421577	1422587	STU_RS16260	Capsule	Immune modulation	99.50	100.00	WP_011226330
GNCMBPMD_1	1414513	1416297	STU_RS16230	Capsule	Immune modulation	99.44	100.00	WP_011226325
GNCMBPMD_1	1416294	1417349	STU_RS16235	Capsule	Immune modulation	99.43	100.00	WP_002948022
GNCMBPMD_1	1037891	1039306	STER_RS05250	Capsule	Immune modulation	99.15	100.00	WP_011681165
GNCMBPMD_1	1059342	1060077	STER_RS05305	Capsule	Immune modulation	98.91	99.33	WP_011681174
GNCMBPMD_1	1221940	1222701	srtA	Sortase A	Exoenzyme	98.82	100.00	-
GNCMBPMD_1	1060788	1061519	STER_RS05315	Capsule	Immune modulation	98.77	100.00	WP_011681176
GNCMBPMD_1	1061520	1062974	STR_RS05265	Capsule	Immune modulation	98.76	100.00	WP_041827043
GNCMBPMD_1	1057467	1058426	STR_RS05240	Capsule	Immune modulation	98.54	100.00	WP_041827042
GNCMBPMD_1	1060788	1061519	STU_RS14645	Capsule	Immune modulation	98.50	100.00	WP_011226048
GNCMBPMD_1	1127498	1128291	cshA	Cell surface hydrophobicity proteins	Adherence	98.36	100.25	-
GNCMBPMD_1	1060788	1061519	STR_RS05260	Capsule	Immune modulation	98.36	100.00	WP_011227248
GNCMBPMD_1	1059328	1060077	STR_RS05250	Capsule	Immune modulation	98.27	100.00	WP_011227246
GNCMBPMD_1	1061520	1062974	STU_RS14650	Capsule	Immune modulation	98.21	100.00	WP_011226049
GNCMBPMD_1	1059342	1060077	STU_RS14635	Capsule	Immune modulation	98.10	99.33	WP_011226046
GNCMBPMD_1	1422590	1423861	STU_RS16265	Capsule	Immune modulation	97.48	99.76	WP_011226331
GNCMBPMD_1	1061520	1062974	STER_RS05320	Capsule	Immune modulation	96.65	99.79	WP_011681177
GNCMBPMD_1	539947	544841	SAG_RS09105	Agglutinin receptor	Adherence	92.87	99.98	WP_000167699
GNCMBPMD_1	539899	544841	SSU98_0978	Agglutinin receptor	Adherence	92.82	99.78	YP_001200536
GNCMBPMD_1	539899	544841	SSU05_0965	Agglutinin receptor	Adherence	92.80	99.78	YP_001198331
GNCMBPMD_1	1060087	1060779	STER_RS05310	Capsule	Immune modulation	89.90	100.00	WP_011681175
GNCMBPMD_1	1060087	1060779	STU_RS14640	Capsule	Immune modulation	89.75	100.00	WP_011226047
GNCMBPMD_1	1060087	1060779	STR_RS05255	Capsule	Immune modulation	89.47	100.00	WP_011227247
GNCMBPMD_1	687957	689260	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
GNCMBPMD_1	1716791	1717801	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
GNCMBPMD_1	152335	153618	tig/ropA	Trigger factor	Stress survival	80.73	99.77	WP_000107753
GNCMBPMD_1	1183678	1184724	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
GNCMBPMD_1	1225388	1226371	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
GNCMBPMD_1	798151	799224	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
GNCMBPMD_1	539926	544836	B9H01_RS04765	0.0	glucan-binding protein	93.40	99.63	AUS90958
GNCMBPMD_1	604271	605239	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
GNCMBPMD_1	1593630	1595933	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
GNCMBPMD_1	1314752	1316233	SPD_0310	0.0	UPF0371 protein SPD_0310	92.31	100.00	ABJ54480
GNCMBPMD_1	820093	822339	metE	0.0	methionine biosynthesis enzymes	91.72	100.00	AAK74738
GNCMBPMD_1	72298	73296	recA	0.0	DNA recombination and repair	90.99	85.82	AAL00560
GNCMBPMD_1	27206	28177	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
GNCMBPMD_1	1478602	1477451	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
GNCMBPMD_1	1440785	1438797	uvrB	0.0	excinuclease ABC, B subunit	88.99	100.00	AE014259_2
GNCMBPMD_1	1209189	1207459	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
GNCMBPMD_1	1925097	1923619	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.22	100.00	ADE32434
GNCMBPMD_1	687957	689258	Eno	0.0	enolase	86.21	99.77	ABP90468
GNCMBPMD_1	1909908	1908016	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
GNCMBPMD_1	825264	823555	PGM	0.0	phosphoglucomutase	83.71	99.65	ACH87041
GNCMBPMD_1	1759286	1760296	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
GNCMBPMD_1	972440	971079	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
GNCMBPMD_1	1811330	1809438	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
GNCMBPMD_1	673522	674412	bglB	1.39e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
GNCMBPMD_1	886320	885382	SP_0676	2.46e-167	transcription facot	81.15	97.20	AAK74821
GNCMBPMD_1	822531	823388	metF	1.60e-164	methionine biosynthesis enzymes	86.36	99.31	AAK74739
GNCMBPMD_1	1099817	1099113	covR	4.58e-131	responder protein	85.53	100.00	AAK71319
GNCMBPMD_1	1273560	1272889	rr01	3.14e-124	response regulator	83.93	99.56	CAB54566
GNCMBPMD_1	1099817	1099113	walR	1.93e-121	DNA-binding response regulator	82.13	100.00	ANC99504
GNCMBPMD_1	310375	311061	CovR	1.05e-117	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
GNCMBPMD_1	829218	829886	CiaR	2.11e-117	two-component response regulator	84.31	99.55	AAK74935
GNCMBPMD_1	829218	829889	ciaR	2.08e-115	two component system response regulator	82.14	99.12	AIK75708
GNCMBPMD_1	73572	73946	SpxA2	1.20e-69	transcriptional regulator	91.20	94.70	ERL21461
GNCMBPMD_1	983799	984200	SpxA1	3.93e-66	transcriptional regulator	80.60	100.00	ERL19273
GNCMBPMD_1	153776	154276	RopE (M5005_Spy_1611)	5.14e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
GNCMBPMD_1	1593630	1595927	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
GNCMBPMD_1	574549	575745	AUS90997 (B9H01_RS07385)	0.0	site-specific integrase	97.74	100.00	AUS90997
GNCMBPMD_1	1796858	1795839	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
GNCMBPMD_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