safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	37	29	47.01

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.
DJIFLHGC_1	43663	44502	cbpD	0.0	Autolysin	Exoenzyme	100.00	100.00	WP_011226733
DJIFLHGC_1	1321630	1322481	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
DJIFLHGC_1	999340	1000071	STR_RS05260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227248
DJIFLHGC_1	1111975	1112568	STR_RS05880	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
DJIFLHGC_1	1309152	1310897	STR_RS06885	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227426
DJIFLHGC_1	1310899	1312599	STR_RS06890	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827077
DJIFLHGC_1	1313819	1314625	STR_RS06900	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227429
DJIFLHGC_1	1314625	1315566	STR_RS06905	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227430
DJIFLHGC_1	1315563	1316711	STR_RS06910	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227431
DJIFLHGC_1	982409	983167	STU_RS14545	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226028
DJIFLHGC_1	983154	984272	STU_RS14550	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226029
DJIFLHGC_1	984383	985006	STU_RS14555	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226030
DJIFLHGC_1	986329	987729	STU_RS14565	0.0	Capsule	Immune modulation	100.00	100.00	WP_179970486
DJIFLHGC_1	988225	989217	STU_RS14570	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226034
DJIFLHGC_1	989242	989967	STU_RS14575	0.0	Capsule	Immune modulation	100.00	100.00	WP_041828375
DJIFLHGC_1	994297	994782	STU_RS14615	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226041
DJIFLHGC_1	994782	995231	STU_RS14620	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226042
DJIFLHGC_1	995240	996236	STU_RS14625*	0.0	Capsule	Immune modulation	100.00	100.00	-
DJIFLHGC_1	996465	997832	STU_RS14630	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226045
DJIFLHGC_1	997894	998629	STR_RS05250	0.0	Capsule	Immune modulation	100.00	98.13	WP_011227246
DJIFLHGC_1	873267	874925	fbp54	0.0	FBPs	Adherence	99.94	100.00	WP_011227179
DJIFLHGC_1	1000072	1001526	STR_RS05265	0.0	Capsule	Immune modulation	99.93	100.00	WP_041827043
DJIFLHGC_1	1312617	1313819	STR_RS06895	0.0	Capsule	Immune modulation	99.92	100.00	WP_011227428
DJIFLHGC_1	985147	986322	STU_RS14560	0.0	Capsule	Immune modulation	99.92	100.00	WP_011226032
DJIFLHGC_1	1147332	1148093	srtA	0.0	Sortase A	Exoenzyme	99.87	100.00	-
DJIFLHGC_1	998639	999331	STR_RS05255	0.0	Capsule	Immune modulation	99.86	100.00	WP_011227247
DJIFLHGC_1	991064	991704	STU_RS14590	0.0	Capsule	Immune modulation	99.84	99.84	WP_041828240
DJIFLHGC_1	1111975	1112568	STER_RS06030	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
DJIFLHGC_1	1111975	1112568	STU_RS15260	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
DJIFLHGC_1	993715	994194	STU_RS14610	0.0	Capsule	Immune modulation	99.79	100.00	WP_011226040
DJIFLHGC_1	1310899	1312599	STER_RS07050	0.0	Capsule	Immune modulation	99.71	100.00	WP_041827753
DJIFLHGC_1	998639	999331	STU_RS14640	0.0	Capsule	Immune modulation	99.57	100.00	WP_011226047
DJIFLHGC_1	1312617	1313819	STER_RS07055	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681436
DJIFLHGC_1	1313819	1314625	STER_RS07060	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681437
DJIFLHGC_1	1314625	1315566	STER_RS07065	0.0	Capsule	Immune modulation	99.47	100.00	WP_011681438
DJIFLHGC_1	1065919	1066709	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	99.24	100.00	-
DJIFLHGC_1	1315563	1316711	STER_RS07070	0.0	Capsule	Immune modulation	99.22	100.00	WP_011681439
DJIFLHGC_1	1112568	1113437	rfbA	0.0	Capsule	Immune modulation	99.19	100.00	WP_011681286
DJIFLHGC_1	999340	1000071	STU_RS14645	0.0	Capsule	Immune modulation	98.77	100.00	WP_011226048
DJIFLHGC_1	997889	998629	STER_RS05305	0.0	Capsule	Immune modulation	98.52	100.00	WP_011681174
DJIFLHGC_1	999340	1000071	STER_RS05315	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681176
DJIFLHGC_1	1309152	1310897	STER_RS07045	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681434
DJIFLHGC_1	1000072	1001526	STU_RS14650	0.0	Capsule	Immune modulation	98.01	100.00	WP_011226049
DJIFLHGC_1	997889	998629	STU_RS14635	0.0	Capsule	Immune modulation	97.98	100.00	WP_011226046
DJIFLHGC_1	1320250	1321509	STER_RS07100	0.0	Capsule	Immune modulation	97.70	100.00	WP_011681445
DJIFLHGC_1	1000072	1001526	STER_RS05320	0.0	Capsule	Immune modulation	96.99	99.79	WP_011681177
DJIFLHGC_1	996469	997832	STER_RS05300	0.0	Capsule	Immune modulation	94.94	99.71	WP_011681173
DJIFLHGC_1	998639	999331	STER_RS05310	0.0	Capsule	Immune modulation	89.75	100.00	WP_011681175
DJIFLHGC_1	611053	612356	eno	0.0	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
DJIFLHGC_1	1603391	1604401	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
DJIFLHGC_1	1313819	1314625	SGO_RS05020	0.0	Capsule	Immune modulation	82.90	100.00	WP_012000440
DJIFLHGC_1	156798	158081	tig/ropA	0.0	Trigger factor	Stress survival	80.65	99.77	WP_000107753
DJIFLHGC_1	1110500	1111546	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
DJIFLHGC_1	990035	990373	STU_RS19955	1.32e-175	Capsule	Immune modulation	100.00	100.00	WP_148148905
DJIFLHGC_1	1319555	1320253	STER_RS07095	2.94e-152	Capsule	Immune modulation	81.15	70.35	WP_011681444
DJIFLHGC_1	1318735	1319201	STER_RS07085	0.0	Capsule	Immune modulation	94.02	65.13	WP_011681442
DJIFLHGC_1	1313082	1313819	SGO_RS05025	0.0	Capsule	Immune modulation	85.23	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
DJIFLHGC_1	1150780	1151763	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
DJIFLHGC_1	719382	720455	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
DJIFLHGC_1	528813	529781	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
DJIFLHGC_1	1483874	1486177	pfl2(Sp_0459)	0.0	formate acetyltransferase	93.10	99.22	AAK74619
DJIFLHGC_1	747661	749907	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
DJIFLHGC_1	1233260	1234741	SPD_0310	0.0	UPF0371 protein SPD_0310	91.90	100.00	ABJ54480
DJIFLHGC_1	63294	64286	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
DJIFLHGC_1	27181	28152	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
DJIFLHGC_1	1369984	1368833	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
DJIFLHGC_1	1335511	1333529	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
DJIFLHGC_1	1134586	1132856	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
DJIFLHGC_1	1792960	1791482	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
DJIFLHGC_1	611053	612354	Eno	0.0	enolase	86.21	99.77	ABP90468
DJIFLHGC_1	1778224	1776332	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
DJIFLHGC_1	752832	751123	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
DJIFLHGC_1	1645085	1646095	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
DJIFLHGC_1	900275	898914	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
DJIFLHGC_1	1695418	1693526	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
DJIFLHGC_1	596623	597513	bglB	1.30e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
DJIFLHGC_1	812249	811314	SP_0676	7.19e-168	transcription facot	81.73	96.89	AAK74821
DJIFLHGC_1	750099	750956	metF	8.42e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
DJIFLHGC_1	1038222	1037518	covR	3.41e-130	responder protein	84.68	100.00	AAK71319
DJIFLHGC_1	1203959	1203288	rr01	8.24e-126	response regulator	84.38	99.56	CAB54566
DJIFLHGC_1	1038222	1037518	walR	2.45e-120	DNA-binding response regulator	80.85	100.00	ANC99504
DJIFLHGC_1	315737	316423	CovR	9.79e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
DJIFLHGC_1	756785	757435	CiaR	1.35e-116	two-component response regulator	86.17	96.88	AAK74935
DJIFLHGC_1	756785	757435	ciaR	6.94e-114	two component system response regulator	83.87	96.02	AIK75708
DJIFLHGC_1	64583	64978	SpxA2	3.60e-74	transcriptional regulator	90.91	100.00	ERL21461
DJIFLHGC_1	911633	912034	SpxA1	3.66e-66	transcriptional regulator	80.60	100.00	ERL19273
DJIFLHGC_1	158239	158739	RopE (M5005_Spy_1611)	9.62e-75	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
DJIFLHGC_1	1483874	1486171	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	83.07	98.08	MYN69560
DJIFLHGC_1	1680955	1679936	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.
No hit found

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

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
DJIFLHGC_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