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.
BPDOKOMM_1	43663	44502	cbpD	0.0	Autolysin	Exoenzyme	100.00	100.00	WP_011226733
BPDOKOMM_1	1311916	1312767	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
BPDOKOMM_1	1097877	1098470	STR_RS05880	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
BPDOKOMM_1	1299438	1301183	STR_RS06885	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227426
BPDOKOMM_1	1301185	1302885	STR_RS06890	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827077
BPDOKOMM_1	1304105	1304911	STR_RS06900	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227429
BPDOKOMM_1	1304911	1305852	STR_RS06905	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227430
BPDOKOMM_1	1305849	1306997	STR_RS06910	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227431
BPDOKOMM_1	969055	970173	STU_RS14550	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226029
BPDOKOMM_1	970284	970907	STU_RS14555	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226030
BPDOKOMM_1	972230	973630	STU_RS14565	0.0	Capsule	Immune modulation	100.00	100.00	WP_179970486
BPDOKOMM_1	974126	975118	STU_RS14570	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226034
BPDOKOMM_1	975143	975868	STU_RS14575	0.0	Capsule	Immune modulation	100.00	100.00	WP_041828375
BPDOKOMM_1	979616	980095	STU_RS14610	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226040
BPDOKOMM_1	980198	980683	STU_RS14615	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226041
BPDOKOMM_1	980683	981132	STU_RS14620	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226042
BPDOKOMM_1	981141	982137	STU_RS14625*	0.0	Capsule	Immune modulation	100.00	100.00	-
BPDOKOMM_1	984540	985232	STU_RS14640	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226047
BPDOKOMM_1	985973	987427	STU_RS14650	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226049
BPDOKOMM_1	982366	983731	STU_RS14630	0.0	Capsule	Immune modulation	100.00	99.85	WP_011226045
BPDOKOMM_1	862383	864041	fbp54	0.0	FBPs	Adherence	99.94	100.00	WP_011227179
BPDOKOMM_1	1302903	1304105	STR_RS06895	0.0	Capsule	Immune modulation	99.92	100.00	WP_011227428
BPDOKOMM_1	971048	972223	STU_RS14560	0.0	Capsule	Immune modulation	99.92	100.00	WP_011226032
BPDOKOMM_1	1133234	1133995	srtA	0.0	Sortase A	Exoenzyme	99.87	100.00	-
BPDOKOMM_1	983790	984530	STU_RS14635	0.0	Capsule	Immune modulation	99.86	100.00	WP_011226046
BPDOKOMM_1	976965	977605	STU_RS14590	0.0	Capsule	Immune modulation	99.84	99.84	WP_041828240
BPDOKOMM_1	1097877	1098470	STER_RS06030	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
BPDOKOMM_1	1097877	1098470	STU_RS15260	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
BPDOKOMM_1	985241	985972	STU_RS14645	0.0	Capsule	Immune modulation	99.73	100.00	WP_011226048
BPDOKOMM_1	1301185	1302885	STER_RS07050	0.0	Capsule	Immune modulation	99.71	100.00	WP_041827753
BPDOKOMM_1	1302903	1304105	STER_RS07055	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681436
BPDOKOMM_1	1304105	1304911	STER_RS07060	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681437
BPDOKOMM_1	1304911	1305852	STER_RS07065	0.0	Capsule	Immune modulation	99.47	100.00	WP_011681438
BPDOKOMM_1	984540	985232	STR_RS05255	0.0	Capsule	Immune modulation	99.42	100.00	WP_011227247
BPDOKOMM_1	1051823	1052613	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	99.37	100.00	-
BPDOKOMM_1	968305	969068	STU_RS14545	0.0	Capsule	Immune modulation	99.35	100.53	WP_011226028
BPDOKOMM_1	1305849	1306997	STER_RS07070	0.0	Capsule	Immune modulation	99.22	100.00	WP_011681439
BPDOKOMM_1	1098470	1099339	rfbA	0.0	Capsule	Immune modulation	99.19	100.00	WP_011681286
BPDOKOMM_1	985241	985972	STR_RS05260	0.0	Capsule	Immune modulation	98.50	100.00	WP_011227248
BPDOKOMM_1	983790	984530	STER_RS05305	0.0	Capsule	Immune modulation	98.38	100.00	WP_011681174
BPDOKOMM_1	1299438	1301183	STER_RS07045	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681434
BPDOKOMM_1	983795	984530	STR_RS05250	0.0	Capsule	Immune modulation	98.10	98.13	WP_011227246
BPDOKOMM_1	985973	987427	STR_RS05265	0.0	Capsule	Immune modulation	97.94	100.00	WP_041827043
BPDOKOMM_1	985241	985972	STER_RS05315	0.0	Capsule	Immune modulation	97.81	100.00	WP_011681176
BPDOKOMM_1	1310536	1311795	STER_RS07100	0.0	Capsule	Immune modulation	97.70	100.00	WP_011681445
BPDOKOMM_1	985973	987427	STER_RS05320	0.0	Capsule	Immune modulation	97.47	99.79	WP_011681177
BPDOKOMM_1	982370	983731	STER_RS05300	0.0	Capsule	Immune modulation	94.93	99.56	WP_011681173
BPDOKOMM_1	984540	985232	STER_RS05310	0.0	Capsule	Immune modulation	89.90	100.00	WP_011681175
BPDOKOMM_1	603288	604591	eno	0.0	Streptococcal enolase	Exoenzyme	88.09	99.54	WP_000022832
BPDOKOMM_1	1593624	1594634	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
BPDOKOMM_1	1304105	1304911	SGO_RS05020	0.0	Capsule	Immune modulation	82.90	100.00	WP_012000440
BPDOKOMM_1	149039	150322	tig/ropA	0.0	Trigger factor	Stress survival	80.65	99.77	WP_000107753
BPDOKOMM_1	1096402	1097448	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
BPDOKOMM_1	975936	976274	STU_RS19955	1.31e-175	Capsule	Immune modulation	100.00	100.00	WP_148148905
BPDOKOMM_1	1309841	1310539	STER_RS07095	2.92e-152	Capsule	Immune modulation	81.15	70.35	WP_011681444
BPDOKOMM_1	1309021	1309487	STER_RS07085	0.0	Capsule	Immune modulation	94.02	65.13	WP_011681442
BPDOKOMM_1	1303368	1304105	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
BPDOKOMM_1	1136682	1137665	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
BPDOKOMM_1	716304	717377	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
BPDOKOMM_1	521051	522019	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
BPDOKOMM_1	1474101	1476404	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
BPDOKOMM_1	1223546	1225027	SPD_0310	0.0	UPF0371 protein SPD_0310	92.11	100.00	ABJ54480
BPDOKOMM_1	736828	739074	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
BPDOKOMM_1	63294	64286	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
BPDOKOMM_1	27181	28152	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
BPDOKOMM_1	1360270	1359119	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
BPDOKOMM_1	1325797	1323815	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
BPDOKOMM_1	1783191	1781722	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.96	99.39	ADE32434
BPDOKOMM_1	1120488	1118758	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
BPDOKOMM_1	603288	604589	Eno	0.0	enolase	86.21	99.77	ABP90468
BPDOKOMM_1	1768455	1766563	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
BPDOKOMM_1	741999	740290	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
BPDOKOMM_1	1635318	1636328	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
BPDOKOMM_1	889463	888102	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
BPDOKOMM_1	1685649	1683757	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
BPDOKOMM_1	588858	589748	bglB	2.82e-178	putative phospho--glucosidase	88.55	99.66	AAK33487
BPDOKOMM_1	801353	800418	SP_0676	7.15e-168	transcription facot	81.73	96.89	AAK74821
BPDOKOMM_1	739266	740123	metF	8.37e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
BPDOKOMM_1	1024124	1023420	covR	3.39e-130	responder protein	84.68	100.00	AAK71319
BPDOKOMM_1	1189864	1189193	rr01	1.16e-125	response regulator	84.38	99.56	CAB54566
BPDOKOMM_1	1024124	1023420	walR	2.43e-120	DNA-binding response regulator	80.85	100.00	ANC99504
BPDOKOMM_1	307977	308663	CovR	9.74e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
BPDOKOMM_1	745952	746602	CiaR	1.34e-116	two-component response regulator	86.17	96.88	AAK74935
BPDOKOMM_1	745952	746602	ciaR	6.90e-114	two component system response regulator	83.87	96.02	AIK75708
BPDOKOMM_1	64583	64978	SpxA2	3.59e-74	transcriptional regulator	90.91	100.00	ERL21461
BPDOKOMM_1	900821	901222	SpxA1	3.64e-66	transcriptional regulator	80.60	100.00	ERL19273
BPDOKOMM_1	150480	150980	RopE (M5005_Spy_1611)	9.56e-75	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
BPDOKOMM_1	1474101	1476398	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
BPDOKOMM_1	1671188	1670169	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
BPDOKOMM_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