safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	26	29	38.95

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.
FLINNDBO_1	668043	668894	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
FLINNDBO_1	455809	456402	STR_RS05880	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
FLINNDBO_1	661653	662462	STU_RS16245	0.0	Capsule	Immune modulation	100.00	100.00	WP_002948020
FLINNDBO_1	657592	659376	STU_RS16230	0.0	Capsule	Immune modulation	99.89	100.00	WP_011226325
FLINNDBO_1	1192819	1193658	cbpD	0.0	Autolysin	Exoenzyme	99.88	100.00	WP_011226733
FLINNDBO_1	455809	456402	STER_RS06030	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
FLINNDBO_1	455809	456402	STU_RS15260	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
FLINNDBO_1	662446	663402	STU_RS16250	0.0	Capsule	Immune modulation	99.79	100.00	WP_011226328
FLINNDBO_1	659373	660428	STU_RS16235	0.0	Capsule	Immune modulation	99.62	100.00	WP_002948022
FLINNDBO_1	664656	665666	STU_RS16260	0.0	Capsule	Immune modulation	99.60	100.00	WP_011226330
FLINNDBO_1	190057	191715	fbp54	0.0	FBPs	Adherence	99.58	100.00	WP_011227179
FLINNDBO_1	660448	661653	STU_RS16240	0.0	Capsule	Immune modulation	99.58	100.00	WP_011226326
FLINNDBO_1	663399	664547	STU_RS16255	0.0	Capsule	Immune modulation	99.48	100.00	WP_041828290
FLINNDBO_1	491167	491928	srtA	0.0	Sortase A	Exoenzyme	99.34	100.00	-
FLINNDBO_1	456402	457271	rfbA	0.0	Capsule	Immune modulation	99.31	100.00	WP_011681286
FLINNDBO_1	344277	345008	STU_RS14645	0.0	Capsule	Immune modulation	98.77	100.00	WP_011226048
FLINNDBO_1	344277	345008	STER_RS05315	0.0	Capsule	Immune modulation	98.63	100.00	WP_011681176
FLINNDBO_1	344277	345008	STR_RS05260	0.0	Capsule	Immune modulation	98.50	100.00	WP_011227248
FLINNDBO_1	410977	411766	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	98.48	99.87	-
FLINNDBO_1	342826	343566	STER_RS05305	0.0	Capsule	Immune modulation	97.98	100.00	WP_011681174
FLINNDBO_1	345009	346469	STER_RS05320	0.0	Capsule	Immune modulation	97.60	100.00	WP_011681177
FLINNDBO_1	665669	666940	STU_RS16265	0.0	Capsule	Immune modulation	97.48	99.76	WP_011226331
FLINNDBO_1	342826	343566	STU_RS14635	0.0	Capsule	Immune modulation	97.30	100.00	WP_011226046
FLINNDBO_1	342831	343566	STR_RS05250	0.0	Capsule	Immune modulation	97.01	98.13	WP_011227246
FLINNDBO_1	345009	346469	STU_RS14650	0.0	Capsule	Immune modulation	96.58	100.21	WP_011226049
FLINNDBO_1	1777222	1782117	SAG_RS09105	0.0	Agglutinin receptor	Adherence	96.06	99.98	WP_000167699
FLINNDBO_1	345009	346469	STR_RS05265	0.0	Capsule	Immune modulation	95.96	100.21	WP_041827043
FLINNDBO_1	1777174	1782117	SSU98_0978	0.0	Agglutinin receptor	Adherence	95.80	99.78	YP_001200536
FLINNDBO_1	1777174	1782117	SSU05_0965	0.0	Agglutinin receptor	Adherence	95.77	99.78	YP_001198331
FLINNDBO_1	341403	342768	STER_RS05300	0.0	Capsule	Immune modulation	95.24	99.85	WP_011681173
FLINNDBO_1	341401	342768	STU_RS14630	0.0	Capsule	Immune modulation	95.17	100.00	WP_011226045
FLINNDBO_1	343576	344268	STER_RS05310	0.0	Capsule	Immune modulation	90.19	100.00	WP_011681175
FLINNDBO_1	343576	344268	STR_RS05255	0.0	Capsule	Immune modulation	89.61	100.00	WP_011227247
FLINNDBO_1	343576	344268	STU_RS14640	0.0	Capsule	Immune modulation	89.61	100.00	WP_011226047
FLINNDBO_1	1742471	1743774	eno	0.0	Streptococcal enolase	Exoenzyme	88.24	99.54	WP_000022832
FLINNDBO_1	948756	949766	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.82	99.51	WP_002986042
FLINNDBO_1	454334	455380	rfbB	0.0	Capsule	Immune modulation	83.21	99.90	WP_002263087
FLINNDBO_1	1295610	1296893	tig/ropA	0.0	Trigger factor	Stress survival	80.58	99.77	WP_000107753
FLINNDBO_1	331730	332313	SPD_RS01775	5.00e-145	Capsule	Immune modulation	82.91	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
FLINNDBO_1	1777201	1782114	B9H01_RS04765	0.0	glucan-binding protein	97.07	99.70	AUS90958
FLINNDBO_1	494615	495598	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
FLINNDBO_1	58707	59780	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
FLINNDBO_1	1660185	1661153	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
FLINNDBO_1	827127	829430	pfl2(Sp_0459)	0.0	formate acetyltransferase	93.10	99.22	AAK74619
FLINNDBO_1	572846	574327	SPD_0310	0.0	UPF0371 protein SPD_0310	92.11	100.00	ABJ54480
FLINNDBO_1	79230	81476	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
FLINNDBO_1	1213680	1214678	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
FLINNDBO_1	1176337	1177308	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
FLINNDBO_1	711895	710744	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
FLINNDBO_1	683897	681909	uvrB	0.0	excinuclease ABC, B subunit	88.99	100.00	AE014259_2
FLINNDBO_1	478420	476690	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.69	100.00	AAK34199
FLINNDBO_1	1138112	1136634	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.42	100.00	ADE32434
FLINNDBO_1	1742471	1743772	Eno	0.0	enolase	86.21	99.77	ABP90468
FLINNDBO_1	1122916	1121024	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
FLINNDBO_1	84401	82692	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
FLINNDBO_1	990709	991719	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
FLINNDBO_1	217755	216394	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
FLINNDBO_1	1042708	1040816	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
FLINNDBO_1	1728040	1728930	bglB	1.31e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
FLINNDBO_1	81668	82525	metF	8.50e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
FLINNDBO_1	132523	131834	SP_0676	2.17e-141	transcription facot	82.17	71.43	AAK74821
FLINNDBO_1	383297	382593	covR	6.65e-131	responder protein	85.53	100.00	AAK71319
FLINNDBO_1	540738	540067	rr01	1.18e-125	response regulator	84.38	99.56	CAB54566
FLINNDBO_1	383297	382593	walR	3.15e-121	DNA-binding response regulator	81.70	100.00	ANC99504
FLINNDBO_1	88355	89023	CiaR	2.34e-119	two-component response regulator	85.20	99.55	AAK74935
FLINNDBO_1	1444504	1445190	CovR	9.89e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
FLINNDBO_1	88355	89026	ciaR	2.69e-117	two component system response regulator	83.04	99.12	AIK75708
FLINNDBO_1	1214954	1215328	SpxA2	1.13e-69	transcriptional regulator	91.20	94.70	ERL21461
FLINNDBO_1	1297051	1297551	RopE (M5005_Spy_1611)	4.84e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
FLINNDBO_1	827127	829424	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	83.07	98.08	MYN69560
FLINNDBO_1	1028252	1027233	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
FLINNDBO_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