safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	21	27	34.21

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.
AFEKBOOP_1	988773	989563	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	100.00	100.00	-
AFEKBOOP_1	732194	733045	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
AFEKBOOP_1	944151	944744	STU_RS15260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
AFEKBOOP_1	741712	743496	STU_RS16230	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226325
AFEKBOOP_1	739435	740640	STU_RS16240	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226326
AFEKBOOP_1	738626	739435	STU_RS16245	0.0	Capsule	Immune modulation	100.00	100.00	WP_002948020
AFEKBOOP_1	737686	738642	STU_RS16250	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226328
AFEKBOOP_1	736541	737689	STU_RS16255	0.0	Capsule	Immune modulation	100.00	100.00	WP_041828290
AFEKBOOP_1	735422	736432	STU_RS16260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226330
AFEKBOOP_1	734148	735422	STU_RS16265	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226331
AFEKBOOP_1	740660	741715	STU_RS16235	0.0	Capsule	Immune modulation	99.91	100.00	WP_002948022
AFEKBOOP_1	908624	909385	srtA	0.0	Sortase A	Exoenzyme	99.87	100.00	-
AFEKBOOP_1	1053943	1055397	STR_RS05265	0.0	Capsule	Immune modulation	99.86	100.00	WP_041827043
AFEKBOOP_1	944151	944744	STR_RS05880	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
AFEKBOOP_1	944151	944744	STER_RS06030	0.0	Capsule	Immune modulation	99.66	100.00	WP_011226149
AFEKBOOP_1	194754	195593	cbpD	0.0	Autolysin	Exoenzyme	99.64	100.00	WP_011226733
AFEKBOOP_1	1161319	1162977	fbp54	0.0	FBPs	Adherence	99.58	100.00	WP_011227179
AFEKBOOP_1	943282	944151	rfbA	0.0	Capsule	Immune modulation	99.54	100.00	WP_011681286
AFEKBOOP_1	1053943	1055397	STU_RS14650	0.0	Capsule	Immune modulation	97.94	100.00	WP_011226049
AFEKBOOP_1	1053943	1055397	STER_RS05320	0.0	Capsule	Immune modulation	96.92	99.79	WP_011681177
AFEKBOOP_1	1425111	1426414	eno	0.0	Streptococcal enolase	Exoenzyme	88.09	99.54	WP_000022832
AFEKBOOP_1	445417	446427	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
AFEKBOOP_1	945174	946220	rfbB	0.0	Capsule	Immune modulation	80.71	100.00	WP_009659423
AFEKBOOP_1	94721	96004	tig/ropA	0.0	Trigger factor	Stress survival	80.58	99.77	WP_000107753
AFEKBOOP_1	1058785	1059368	SPD_RS01775	1.05e-146	Capsule	Immune modulation	83.08	96.20	WP_001819836
AFEKBOOP_1	1055398	1055862	STR_RS05260	0.0	Capsule	Immune modulation	99.78	63.52	WP_011227248
AFEKBOOP_1	1055398	1055862	STU_RS14645	0.0	Capsule	Immune modulation	98.28	63.52	WP_011226048
AFEKBOOP_1	1055398	1055862	STER_RS05315	0.0	Capsule	Immune modulation	97.20	63.52	WP_011681176

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
AFEKBOOP_1	905937	904954	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
AFEKBOOP_1	1317499	1316426	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
AFEKBOOP_1	1508651	1507683	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
AFEKBOOP_1	568999	566696	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
AFEKBOOP_1	1288819	1286573	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
AFEKBOOP_1	828168	826687	SPD_0310	0.0	UPF0371 protein SPD_0310	91.90	100.00	ABJ54480
AFEKBOOP_1	174718	173726	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
AFEKBOOP_1	212077	211106	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
AFEKBOOP_1	682739	683890	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
AFEKBOOP_1	717212	719194	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
AFEKBOOP_1	252683	254161	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.42	100.00	ADE32434
AFEKBOOP_1	1426414	1425113	Eno	0.0	enolase	86.21	99.77	ABP90468
AFEKBOOP_1	267419	269311	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
AFEKBOOP_1	1283648	1285357	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
AFEKBOOP_1	403486	402476	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
AFEKBOOP_1	1135749	1137110	mnmE	0.0	central tRNA-modifying GTPase	82.02	99.56	ABP90420
AFEKBOOP_1	351469	353361	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
AFEKBOOP_1	1440844	1439954	bglB	1.27e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
AFEKBOOP_1	1224257	1225192	SP_0676	7.07e-168	transcription facot	81.73	96.89	AAK74821
AFEKBOOP_1	1286381	1285524	metF	8.27e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
AFEKBOOP_1	1017242	1017946	covR	3.35e-130	responder protein	84.68	100.00	AAK71319
AFEKBOOP_1	852753	853424	rr01	1.15e-125	response regulator	84.38	99.56	CAB54566
AFEKBOOP_1	1017242	1017946	walR	2.40e-120	DNA-binding response regulator	80.85	100.00	ANC99504
AFEKBOOP_1	1719126	1718440	CovR	9.63e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
AFEKBOOP_1	1279694	1279026	CiaR	6.80e-117	two-component response regulator	83.86	99.55	AAK74935
AFEKBOOP_1	1279694	1279023	ciaR	6.76e-115	two component system response regulator	81.70	99.12	AIK75708
AFEKBOOP_1	173429	173034	SpxA2	3.54e-74	transcriptional regulator	90.91	100.00	ERL21461
AFEKBOOP_1	94563	94063	RopE (M5005_Spy_1611)	9.45e-75	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
AFEKBOOP_1	568999	566702	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
AFEKBOOP_1	365930	366949	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	96.18	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.
AFEKBOOP_2	948	1895	rep37	950 / 948	94.74	AF177168

PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
AFEKBOOP_1	0.0	1.0	0.0
AFEKBOOP_2	1.0	0.0	1.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Prophage

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
No hit found