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.
FBMGPGPA_1	1138066	1138935	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
FBMGPGPA_1	1137473	1138066	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
FBMGPGPA_1	1345962	1347707	STER_RS07045	Capsule	Immune modulation	100.00	100.00	WP_011681434
FBMGPGPA_1	1347709	1349409	STER_RS07050	Capsule	Immune modulation	100.00	100.00	WP_041827753
FBMGPGPA_1	1349427	1350629	STER_RS07055	Capsule	Immune modulation	100.00	100.00	WP_011681436
FBMGPGPA_1	1350629	1351435	STER_RS07060	Capsule	Immune modulation	100.00	100.00	WP_011681437
FBMGPGPA_1	1351435	1352376	STER_RS07065	Capsule	Immune modulation	100.00	100.00	WP_011681438
FBMGPGPA_1	1352373	1353521	STER_RS07070	Capsule	Immune modulation	100.00	100.00	WP_011681439
FBMGPGPA_1	1353640	1354416	STER_RS07075	Capsule	Immune modulation	100.00	100.00	WP_011681440
FBMGPGPA_1	1354762	1355478	STER_RS07085	Capsule	Immune modulation	100.00	100.00	WP_011681442
FBMGPGPA_1	1355479	1356447	STER_RS07090	Capsule	Immune modulation	100.00	100.00	WP_011681443
FBMGPGPA_1	1356465	1357442	STER_RS07095	Capsule	Immune modulation	100.00	100.00	WP_011681444
FBMGPGPA_1	1357439	1358698	STER_RS07100	Capsule	Immune modulation	100.00	100.00	WP_011681445
FBMGPGPA_1	1137473	1138066	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
FBMGPGPA_1	1347709	1349409	STR_RS06890	Capsule	Immune modulation	99.71	100.00	WP_041827077
FBMGPGPA_1	1001444	1002136	STU_RS14640	Capsule	Immune modulation	99.71	100.00	WP_011226047
FBMGPGPA_1	1137473	1138066	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
FBMGPGPA_1	887997	889655	fbp54	FBPs	Adherence	99.64	100.00	WP_011227179
FBMGPGPA_1	45287	46126	cbpD	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
FBMGPGPA_1	1350629	1351435	STR_RS06900	Capsule	Immune modulation	99.50	100.00	WP_011227429
FBMGPGPA_1	1351435	1352376	STR_RS06905	Capsule	Immune modulation	99.47	100.00	WP_011227430
FBMGPGPA_1	1349427	1350629	STR_RS06895	Capsule	Immune modulation	99.42	100.00	WP_011227428
FBMGPGPA_1	1352373	1353521	STR_RS06910	Capsule	Immune modulation	99.22	100.00	WP_011227431
FBMGPGPA_1	1001444	1002136	STR_RS05255	Capsule	Immune modulation	99.13	100.00	WP_011227247
FBMGPGPA_1	1079923	1080713	cshA	Cell surface hydrophobicity proteins	Adherence	98.74	100.00	-
FBMGPGPA_1	1000694	1001434	STER_RS05305	Capsule	Immune modulation	98.38	100.00	WP_011681174
FBMGPGPA_1	1000694	1001434	STU_RS14635	Capsule	Immune modulation	98.38	100.00	WP_011226046
FBMGPGPA_1	1002145	1002876	STU_RS14645	Capsule	Immune modulation	98.36	100.00	WP_011226048
FBMGPGPA_1	1345962	1347707	STR_RS06885	Capsule	Immune modulation	98.22	100.00	WP_011227426
FBMGPGPA_1	984016	985431	STER_RS05250	Capsule	Immune modulation	98.09	100.00	WP_011681165
FBMGPGPA_1	1002145	1002876	STER_RS05315	Capsule	Immune modulation	98.09	100.00	WP_011681176
FBMGPGPA_1	1000699	1001434	STR_RS05250	Capsule	Immune modulation	97.96	98.13	WP_011227246
FBMGPGPA_1	1002877	1004337	STER_RS05320	Capsule	Immune modulation	97.74	100.00	WP_011681177
FBMGPGPA_1	1002145	1002876	STR_RS05260	Capsule	Immune modulation	97.68	100.00	WP_011227248
FBMGPGPA_1	1172834	1173595	srtA	Sortase A	Exoenzyme	97.64	100.00	-
FBMGPGPA_1	1002877	1004337	STU_RS14650	Capsule	Immune modulation	96.85	100.21	WP_011226049
FBMGPGPA_1	1358817	1359668	rfbD	Capsule	Immune modulation	96.83	100.00	WP_014621820
FBMGPGPA_1	1002877	1004337	STR_RS05265	Capsule	Immune modulation	95.89	100.21	WP_041827043
FBMGPGPA_1	1001444	1002136	STER_RS05310	Capsule	Immune modulation	89.90	100.00	WP_011681175
FBMGPGPA_1	619219	620522	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
FBMGPGPA_1	1654108	1655118	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
FBMGPGPA_1	1350629	1351435	SGO_RS05020	Capsule	Immune modulation	82.90	100.00	WP_012000440
FBMGPGPA_1	157294	158577	tig/ropA	Trigger factor	Stress survival	80.73	99.77	WP_000107753
FBMGPGPA_1	1135998	1137044	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423
FBMGPGPA_1	1349892	1350629	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
FBMGPGPA_1	1176282	1177265	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
FBMGPGPA_1	729620	730693	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
FBMGPGPA_1	535577	536545	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
FBMGPGPA_1	1524948	1527251	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
FBMGPGPA_1	1247394	1248875	SPD_0310	0.0	UPF0371 protein SPD_0310	92.31	100.00	ABJ54480
FBMGPGPA_1	762953	765199	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
FBMGPGPA_1	64918	65916	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
FBMGPGPA_1	28803	29774	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
FBMGPGPA_1	1408270	1407119	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
FBMGPGPA_1	1372707	1370719	uvrB	0.0	excinuclease ABC, B subunit	89.14	100.00	AE014259_2
FBMGPGPA_1	1160084	1158354	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
FBMGPGPA_1	1850956	1849478	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
FBMGPGPA_1	619219	620520	Eno	0.0	enolase	86.21	99.77	ABP90468
FBMGPGPA_1	1836221	1834329	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.74	98.90	ABP91129
FBMGPGPA_1	768124	766415	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
FBMGPGPA_1	1697102	1698112	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
FBMGPGPA_1	914090	912729	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
FBMGPGPA_1	1747453	1745561	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
FBMGPGPA_1	604779	605669	bglB	5.28e-178	putative phospho--glucosidase	88.55	99.66	AAK33487
FBMGPGPA_1	834450	833512	SP_0676	8.25e-168	transcription facot	81.47	97.20	AAK74821
FBMGPGPA_1	765391	766248	metF	1.54e-164	methionine biosynthesis enzymes	86.36	99.31	AAK74739
FBMGPGPA_1	1041192	1040488	covR	4.40e-131	responder protein	85.53	100.00	AAK71319
FBMGPGPA_1	1228432	1227761	rr01	3.02e-124	response regulator	83.93	99.56	CAB54566
FBMGPGPA_1	1041192	1040488	walR	1.85e-121	DNA-binding response regulator	82.13	100.00	ANC99504
FBMGPGPA_1	772079	772747	CiaR	2.03e-117	two-component response regulator	84.31	99.55	AAK74935
FBMGPGPA_1	310312	310998	CovR	5.08e-117	serves to repress GAS virulence factor-encoding genes	80.35	100.00	ACE75886
FBMGPGPA_1	772079	772750	ciaR	2.00e-115	two component system response regulator	82.14	99.12	AIK75708
FBMGPGPA_1	66192	66566	SpxA2	1.16e-69	transcriptional regulator	91.20	94.70	ERL21461
FBMGPGPA_1	925453	925854	SpxA1	3.78e-66	transcriptional regulator	80.60	100.00	ERL19273
FBMGPGPA_1	158735	159235	RopE (M5005_Spy_1611)	4.94e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
FBMGPGPA_1	1524948	1527245	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
FBMGPGPA_1	1732998	1731979	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
FBMGPGPA_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