safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
2	20	29	35.28

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.
OMGAGMEM_1	646503	647720	mef(A)	Erythromycin, Azithromycin	100.00	100.00	U83667
OMGAGMEM_1	647840	649303	msr(D)	Erythromycin, Azithromycin, Telithromycin, Quinupristin, Pristinamycin IA, Virginiamycin S	100.00	100.00	AF274302

ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
OMGAGMEM_1	646503	647717	mef(A)	macrolide efflux MFS transporter Mef(A)	EXACTX	100.00	100.00	WP_000417519.1
OMGAGMEM_1	647840	649300	msr(D)	ABC-F type ribosomal protection protein Msr(D)	EXACTX	100.00	100.00	WP_000420313.1

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.
OMGAGMEM_1	1601962	1602677	STER_RS07085	0.0	Capsule	Immune modulation	96.65	99.86	WP_011681442
OMGAGMEM_1	993522	994262	STER_RS05305	0.0	Capsule	Immune modulation	95.01	100.00	WP_011681174
OMGAGMEM_1	1605987	1606838	rfbD	0.0	Capsule	Immune modulation	94.72	100.00	WP_014621820
OMGAGMEM_1	1602679	1603647	STER_RS07090	0.0	Capsule	Immune modulation	94.63	100.00	WP_011681443
OMGAGMEM_1	993522	994262	STU_RS14635	0.0	Capsule	Immune modulation	94.33	100.00	WP_011226046
OMGAGMEM_1	990619	992079	STU_RS14650	0.0	Capsule	Immune modulation	94.05	100.14	WP_011226049
OMGAGMEM_1	994319	995686	STU_RS14630	0.0	Capsule	Immune modulation	93.93	100.00	WP_011226045
OMGAGMEM_1	990619	992079	STER_RS05320	0.0	Capsule	Immune modulation	93.91	100.00	WP_011681177
OMGAGMEM_1	993522	994257	STR_RS05250	0.0	Capsule	Immune modulation	93.75	98.13	WP_011227246
OMGAGMEM_1	994319	995684	STER_RS05300	0.0	Capsule	Immune modulation	93.63	99.85	WP_011681173
OMGAGMEM_1	990619	992079	STR_RS05265	0.0	Capsule	Immune modulation	93.16	100.14	WP_041827043
OMGAGMEM_1	1600840	1601616	STER_RS07075	0.0	Capsule	Immune modulation	92.66	100.00	WP_011681440
OMGAGMEM_1	1604615	1605868	STER_RS07100	0.0	Capsule	Immune modulation	92.51	99.52	WP_011681445
OMGAGMEM_1	992080	992811	STU_RS14645	0.0	Capsule	Immune modulation	91.94	100.00	WP_011226048
OMGAGMEM_1	818827	819420	STR_RS05880	0.0	Capsule	Immune modulation	91.75	100.00	WP_011226149
OMGAGMEM_1	818827	819420	STER_RS06030	0.0	Capsule	Immune modulation	91.58	100.00	WP_011226149
OMGAGMEM_1	818827	819420	STU_RS15260	0.0	Capsule	Immune modulation	91.58	100.00	WP_011226149
OMGAGMEM_1	992080	992811	STER_RS05315	0.0	Capsule	Immune modulation	91.53	100.00	WP_011681176
OMGAGMEM_1	817958	818827	rfbA	0.0	Capsule	Immune modulation	91.38	100.00	WP_011681286
OMGAGMEM_1	1100372	1102029	fbp54	0.0	FBPs	Adherence	91.14	99.88	WP_011227179
OMGAGMEM_1	992080	992811	STR_RS05260	0.0	Capsule	Immune modulation	90.98	100.00	WP_011227248
OMGAGMEM_1	36873	37712	cbpD	0.0	Autolysin	Exoenzyme	90.95	100.00	WP_011226733
OMGAGMEM_1	1906854	1907864	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	88.45	99.80	WP_002986042
OMGAGMEM_1	618395	619698	eno	0.0	Streptococcal enolase	Exoenzyme	88.24	99.54	WP_000022832
OMGAGMEM_1	992820	993512	STR_RS05255	0.0	Capsule	Immune modulation	88.04	99.86	WP_011227247
OMGAGMEM_1	992820	993512	STU_RS14640	0.0	Capsule	Immune modulation	88.04	99.86	WP_011226047
OMGAGMEM_1	992820	993512	STER_RS05310	0.0	Capsule	Immune modulation	87.46	99.86	WP_011681175
OMGAGMEM_1	1247393	1248154	srtA	0.0	Sortase A	Exoenzyme	84.40	99.87	-
OMGAGMEM_1	819623	820669	rfbB	0.0	Capsule	Immune modulation	83.87	99.90	WP_002263087
OMGAGMEM_1	143660	144943	tig/ropA	0.0	Trigger factor	Stress survival	80.84	99.61	WP_000107753
OMGAGMEM_1	1004759	1005344	SPD_RS01775	4.52e-146	Capsule	Immune modulation	82.96	96.53	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
OMGAGMEM_1	1250842	1251825	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	96.34	100.00	AAK75326
OMGAGMEM_1	1239259	1238186	MntE	0.0	manganese homeostasis	95.53	99.72	ABF32167
OMGAGMEM_1	1780299	1782605	pfl2(Sp_0459)	0.0	formate acetyltransferase	94.41	99.22	AAK74619
OMGAGMEM_1	1373394	1374875	SPD_0310	0.0	UPF0371 protein SPD_0310	93.32	100.00	ABJ54480
OMGAGMEM_1	527853	528821	spr0084	0.0	pathogenitcity related	92.88	98.48	AAK98888
OMGAGMEM_1	1220199	1217953	metE	0.0	methionine biosynthesis enzymes	92.79	100.00	AAK74738
OMGAGMEM_1	22452	23423	prsA2	0.0	ribose-phosphate pyrophosphokinase	91.67	100.00	ABF36968
OMGAGMEM_1	791159	792889	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	89.95	100.00	AAK34199
OMGAGMEM_1	1649104	1647953	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.58	99.74	AAL00050
OMGAGMEM_1	1620743	1618755	uvrB	0.0	excinuclease ABC, B subunit	89.44	100.00	AE014259_2
OMGAGMEM_1	2117285	2115807	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.83	100.00	ADE32434
OMGAGMEM_1	618395	619696	Eno	0.0	enolase	86.44	99.77	ABP90468
OMGAGMEM_1	2101912	2100020	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.58	98.90	ABP91129
OMGAGMEM_1	1215031	1216740	PGM	0.0	phosphoglucomutase	84.76	99.65	ACH87041
OMGAGMEM_1	56389	57480	recA	0.0	DNA recombination and repair	84.64	95.36	AAL00560
OMGAGMEM_1	1962470	1963480	pdh	0.0	pyruvate dehydrogenase	83.38	99.70	ABP91006
OMGAGMEM_1	1085908	1087269	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
OMGAGMEM_1	603979	604869	bglB	1.22e-176	putative phospho--glucosidase	87.54	99.66	AAK33487
OMGAGMEM_1	1172523	1173473	SP_0676	2.64e-169	transcription facot	81.39	98.45	AAK74821
OMGAGMEM_1	1217763	1216906	metF	2.50e-168	methionine biosynthesis enzymes	87.41	99.31	AAK74739
OMGAGMEM_1	1310795	1310124	rr01	5.14e-126	response regulator	84.38	99.56	CAB54566
OMGAGMEM_1	944954	945658	covR	9.50e-126	responder protein	85.53	100.00	AAK71319
OMGAGMEM_1	1211064	1210393	ciaR	2.46e-124	two component system response regulator	86.16	99.12	AIK75708
OMGAGMEM_1	1211064	1210396	CiaR	1.85e-123	two-component response regulator	87.00	99.55	AAK74935
OMGAGMEM_1	944954	945658	walR	2.16e-119	DNA-binding response regulator	82.13	100.00	ANC99504
OMGAGMEM_1	293970	294656	CovR	4.66e-119	serves to repress GAS virulence factor-encoding genes	81.66	100.00	ACE75886
OMGAGMEM_1	57654	58049	SpxA2	2.10e-74	transcriptional regulator	91.67	100.00	ERL21461
OMGAGMEM_1	1074437	1074036	SpxA1	5.46e-69	transcriptional regulator	82.84	100.00	ERL19273
OMGAGMEM_1	130352	130756	GrpE	3.67e-66	protein grpE	82.96	78.82	ABP89267
OMGAGMEM_1	145110	145601	RopE (M5005_Spy_1611)	1.03e-71	probable DNA-directed RNA polymerase subunit delta	82.93	85.86	AAK34603
OMGAGMEM_1	1780299	1782599	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	83.09	98.08	MYN69560
OMGAGMEM_1	1998909	1997890	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	97.35	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
OMGAGMEM_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