safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	25	29	38.29

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	e-value	VF name	VF category	Identity	Coverage	Accession no.
EJMLIOII_1	1130339	1130932	STER_RS06030	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
EJMLIOII_1	1004022	1005482	STER_RS05320	0.0	Capsule	Immune modulation	99.93	100.00	WP_011681177
EJMLIOII_1	1130339	1130932	STR_RS05880	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
EJMLIOII_1	1342988	1343797	STU_RS16245	0.0	Capsule	Immune modulation	99.75	100.00	WP_002948020
EJMLIOII_1	1130932	1131801	rfbA	0.0	Capsule	Immune modulation	99.66	100.00	WP_011681286
EJMLIOII_1	1130339	1130932	STU_RS15260	0.0	Capsule	Immune modulation	99.66	100.00	WP_011226149
EJMLIOII_1	885380	887038	fbp54	0.0	FBPs	Adherence	99.64	100.00	WP_011227179
EJMLIOII_1	1343781	1344737	STU_RS16250	0.0	Capsule	Immune modulation	99.58	100.00	WP_011226328
EJMLIOII_1	43570	44409	cbpD	0.0	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
EJMLIOII_1	1338915	1340699	STU_RS16230	0.0	Capsule	Immune modulation	99.44	100.00	WP_011226325
EJMLIOII_1	1341783	1342988	STU_RS16240	0.0	Capsule	Immune modulation	99.17	100.00	WP_011226326
EJMLIOII_1	1350924	1351775	rfbD	0.0	Capsule	Immune modulation	99.06	100.00	WP_014621820
EJMLIOII_1	1003290	1004021	STER_RS05315	0.0	Capsule	Immune modulation	98.91	100.00	WP_011681176
EJMLIOII_1	1167125	1167886	srtA	0.0	Sortase A	Exoenzyme	98.82	100.00	-
EJMLIOII_1	1344734	1345882	STU_RS16255	0.0	Capsule	Immune modulation	98.78	100.00	WP_041828290
EJMLIOII_1	1003290	1004021	STR_RS05260	0.0	Capsule	Immune modulation	98.50	100.00	WP_011227248
EJMLIOII_1	1003290	1004021	STU_RS14645	0.0	Capsule	Immune modulation	98.36	100.00	WP_011226048
EJMLIOII_1	1071364	1072157	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	98.24	100.25	-
EJMLIOII_1	991858	993273	STER_RS05250	0.0	Capsule	Immune modulation	98.23	100.00	WP_011681165
EJMLIOII_1	1001839	1002579	STU_RS14635	0.0	Capsule	Immune modulation	98.11	100.00	WP_011226046
EJMLIOII_1	1001839	1002579	STER_RS05305	0.0	Capsule	Immune modulation	97.71	100.00	WP_011681174
EJMLIOII_1	1004022	1005482	STU_RS14650	0.0	Capsule	Immune modulation	97.40	100.21	WP_011226049
EJMLIOII_1	1001844	1002579	STR_RS05250	0.0	Capsule	Immune modulation	97.15	98.13	WP_011227246
EJMLIOII_1	1000415	1001782	STU_RS14630	0.0	Capsule	Immune modulation	97.00	100.00	WP_011226045
EJMLIOII_1	1004022	1005482	STR_RS05265	0.0	Capsule	Immune modulation	96.85	100.21	WP_041827043
EJMLIOII_1	1002589	1003281	STR_RS05255	0.0	Capsule	Immune modulation	95.38	100.00	WP_011227247
EJMLIOII_1	1002589	1003281	STU_RS14640	0.0	Capsule	Immune modulation	95.38	100.00	WP_011226047
EJMLIOII_1	1340696	1341763	STU_RS16235	0.0	Capsule	Immune modulation	95.27	101.14	WP_002948022
EJMLIOII_1	1000417	1001782	STER_RS05300	0.0	Capsule	Immune modulation	94.58	99.85	WP_011681173
EJMLIOII_1	1002589	1003281	STER_RS05310	0.0	Capsule	Immune modulation	90.48	100.00	WP_011681175
EJMLIOII_1	1348547	1349821	STU_RS16265	0.0	Capsule	Immune modulation	89.42	99.92	WP_011226331
EJMLIOII_1	604675	605978	eno	0.0	Streptococcal enolase	Exoenzyme	88.02	99.46	WP_000022832
EJMLIOII_1	1637313	1638323	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
EJMLIOII_1	145607	146890	tig/ropA	0.0	Trigger factor	Stress survival	80.81	99.77	WP_000107753
EJMLIOII_1	1128864	1129910	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
EJMLIOII_1	989455	990038	SPD_RS01775	1.09e-151	Capsule	Immune modulation	83.59	96.20	WP_001819836

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
EJMLIOII_1	1170573	1171556	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
EJMLIOII_1	723946	725019	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
EJMLIOII_1	1514332	1516635	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
EJMLIOII_1	521037	522005	spr0084	0.0	pathogenitcity related	92.57	98.48	AAK98888
EJMLIOII_1	752265	754511	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
EJMLIOII_1	1240885	1242366	SPD_0310	0.0	UPF0371 protein SPD_0310	91.70	100.00	ABJ54480
EJMLIOII_1	63201	64199	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
EJMLIOII_1	27087	28058	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
EJMLIOII_1	1400315	1399164	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
EJMLIOII_1	1364952	1362964	uvrB	0.0	excinuclease ABC, B subunit	88.84	100.00	AE014259_2
EJMLIOII_1	1154374	1152644	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
EJMLIOII_1	1844353	1842875	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
EJMLIOII_1	604675	605976	Eno	0.0	enolase	86.21	99.77	ABP90468
EJMLIOII_1	1829164	1827272	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
EJMLIOII_1	757436	755727	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
EJMLIOII_1	1680711	1681721	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
EJMLIOII_1	908892	907531	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
EJMLIOII_1	1731055	1729163	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
EJMLIOII_1	590239	591129	bglB	5.26e-178	putative phospho--glucosidase	88.55	99.66	AAK33487
EJMLIOII_1	830283	829345	SP_0676	2.36e-167	transcription facot	81.15	97.20	AAK74821
EJMLIOII_1	754703	755560	metF	1.53e-164	methionine biosynthesis enzymes	86.36	99.31	AAK74739
EJMLIOII_1	1043684	1042980	covR	4.38e-131	responder protein	85.53	100.00	AAK71319
EJMLIOII_1	1221910	1221239	rr01	3.01e-124	response regulator	83.93	99.56	CAB54566
EJMLIOII_1	1043684	1042980	walR	1.85e-121	DNA-binding response regulator	82.13	100.00	ANC99504
EJMLIOII_1	298636	299322	CovR	1.01e-117	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
EJMLIOII_1	761390	762058	CiaR	2.02e-117	two-component response regulator	84.31	99.55	AAK74935
EJMLIOII_1	761390	762061	ciaR	1.99e-115	two component system response regulator	82.14	99.12	AIK75708
EJMLIOII_1	64475	64849	SpxA2	1.15e-69	transcriptional regulator	91.20	94.70	ERL21461
EJMLIOII_1	920254	920655	SpxA1	3.77e-66	transcriptional regulator	80.60	100.00	ERL19273
EJMLIOII_1	147048	147548	RopE (M5005_Spy_1611)	4.93e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
EJMLIOII_1	1514332	1516629	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
EJMLIOII_1	1716595	1715576	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
EJMLIOII_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