safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	26	33	42.01

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	VF name	VF category	Identity	Coverage	Accession no.
DCPMIAPF_3	71447	72286	cbpD	Autolysin	Exoenzyme	100.00	100.00	WP_011226733
DCPMIAPF_3	883285	884154	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
DCPMIAPF_3	882692	883285	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
DCPMIAPF_10	70068	70877	STU_RS16245	Capsule	Immune modulation	99.88	100.00	WP_002948020
DCPMIAPF_3	882692	883285	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
DCPMIAPF_3	14930	15622	STU_RS14640	Capsule	Immune modulation	99.71	100.00	WP_011226047
DCPMIAPF_3	882692	883285	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
DCPMIAPF_3	1104650	1106308	fbp54	FBPs	Adherence	99.52	100.00	WP_011227179
DCPMIAPF_10	66007	67791	STU_RS16230	Capsule	Immune modulation	99.50	100.00	WP_011226325
DCPMIAPF_10	68863	70068	STU_RS16240	Capsule	Immune modulation	99.25	100.00	WP_011226326
DCPMIAPF_10	70861	71817	STU_RS16250	Capsule	Immune modulation	99.16	100.00	WP_011226328
DCPMIAPF_10	67788	68843	STU_RS16235	Capsule	Immune modulation	99.15	100.00	WP_002948022
DCPMIAPF_3	14930	15622	STR_RS05255	Capsule	Immune modulation	99.13	100.00	WP_011227247
DCPMIAPF_3	1170918	1171679	srtA	Sortase A	Exoenzyme	99.08	100.00	-
DCPMIAPF_3	1138594	1139384	cshA	Cell surface hydrophobicity proteins	Adherence	98.74	100.00	-
DCPMIAPF_10	77997	78848	rfbD	Capsule	Immune modulation	98.71	100.00	WP_014621820
DCPMIAPF_3	284875	286290	STER_RS05250	Capsule	Immune modulation	98.66	100.00	WP_011681165
DCPMIAPF_10	74658	75620	STU_RS16260	Capsule	Immune modulation	98.65	95.25	WP_011226330
DCPMIAPF_3	15631	16362	STER_RS05315	Capsule	Immune modulation	98.63	100.00	WP_011681176
DCPMIAPF_10	71814	72962	STU_RS16255	Capsule	Immune modulation	98.52	100.00	WP_041828290
DCPMIAPF_3	15631	16362	STU_RS14645	Capsule	Immune modulation	98.36	100.00	WP_011226048
DCPMIAPF_3	15631	16362	STR_RS05260	Capsule	Immune modulation	98.22	100.00	WP_011227248
DCPMIAPF_3	16363	17823	STER_RS05320	Capsule	Immune modulation	97.95	100.00	WP_011681177
DCPMIAPF_10	75623	76894	STU_RS16265	Capsule	Immune modulation	97.41	99.76	WP_011226331
DCPMIAPF_3	16363	17823	STU_RS14650	Capsule	Immune modulation	97.19	100.21	WP_011226049
DCPMIAPF_3	16363	17823	STR_RS05265	Capsule	Immune modulation	96.37	100.21	WP_041827043
DCPMIAPF_3	12738	14105	STU_RS14630	Capsule	Immune modulation	96.13	100.00	WP_011226045
DCPMIAPF_3	12740	14105	STER_RS05300	Capsule	Immune modulation	94.88	99.85	WP_011681173
DCPMIAPF_3	14162	14920	STER_RS05305	Capsule	Immune modulation	93.54	100.94	WP_011681174
DCPMIAPF_3	14162	14920	STU_RS14635	Capsule	Immune modulation	93.15	100.94	WP_011226046
DCPMIAPF_3	14167	14920	STR_RS05250	Capsule	Immune modulation	92.84	99.07	WP_011227246
DCPMIAPF_3	11004	11995	STU_RS14625*	Capsule	Immune modulation	90.79	99.70	-
DCPMIAPF_3	14930	15622	STER_RS05310	Capsule	Immune modulation	89.61	100.00	WP_011681175
DCPMIAPF_10	40803	42106	eno	Streptococcal enolase	Exoenzyme	88.02	99.54	WP_000022832
DCPMIAPF_3	645733	646743	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	87.46	99.80	WP_002986042
DCPMIAPF_3	83961	85244	tig/ropA	Trigger factor	Stress survival	80.73	99.77	WP_000107753
DCPMIAPF_3	881217	882263	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423

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
DCPMIAPF_3	1174366	1175349	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
DCPMIAPF_3	1010618	1009545	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
DCPMIAPF_10	254249	256552	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
DCPMIAPF_10	356087	355119	spr0084	0.0	pathogenitcity related	92.57	98.48	AAK98888
DCPMIAPF_3	313386	311140	metE	0.0	methionine biosynthesis enzymes	91.72	100.00	AAK74738
DCPMIAPF_10	425696	427177	SPD_0310	0.0	UPF0371 protein SPD_0310	91.50	100.00	ABJ54480
DCPMIAPF_10	494032	493040	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
DCPMIAPF_3	814415	815386	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
DCPMIAPF_10	140374	139223	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
DCPMIAPF_10	92021	90033	uvrB	0.0	excinuclease ABC, B subunit	88.99	100.00	AE014259_2
DCPMIAPF_3	1158168	1156438	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
DCPMIAPF_10	538083	539561	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.42	100.00	ADE32434
DCPMIAPF_10	40803	42104	Eno	0.0	enolase	86.21	99.77	ABP90468
DCPMIAPF_10	553272	555164	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
DCPMIAPF_3	308215	309924	PGM	0.0	phosphoglucomutase	84.06	99.65	ACH87041
DCPMIAPF_3	399508	398498	pdh	0.0	pyruvate dehydrogenase	82.79	99.70	ABP91006
DCPMIAPF_3	1078122	1079483	mnmE	0.0	central tRNA-modifying GTPase	81.80	99.56	ABP90420
DCPMIAPF_3	349191	351083	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
DCPMIAPF_10	26364	27254	bglB	4.35e-179	putative phospho--glucosidase	88.89	99.66	AAK33487
DCPMIAPF_10	274553	273615	SP_0676	7.70e-168	transcription facot	81.15	97.20	AAK74821
DCPMIAPF_3	310948	310091	metF	5.69e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
DCPMIAPF_3	54673	53969	covR	2.88e-131	responder protein	85.53	100.00	AAK71319
DCPMIAPF_10	397600	396929	rr01	9.82e-125	response regulator	83.93	99.56	CAB54566
DCPMIAPF_3	304260	303592	CiaR	5.75e-123	two-component response regulator	86.10	99.55	AAK74935
DCPMIAPF_3	54673	53969	walR	1.21e-121	DNA-binding response regulator	82.13	100.00	ANC99504
DCPMIAPF_3	304260	303589	ciaR	7.79e-121	two component system response regulator	83.93	99.12	AIK75708
DCPMIAPF_3	265527	264841	CovR	6.76e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
DCPMIAPF_10	492743	492348	SpxA2	1.21e-74	transcriptional regulator	90.91	100.00	ERL21461
DCPMIAPF_3	1066762	1066361	SpxA1	2.48e-66	transcriptional regulator	80.60	100.00	ERL19273
DCPMIAPF_10	452373	452660	spr0479	4.63e-48	essential gene	86.46	98.97	AAK99283
DCPMIAPF_3	658020	657766	spr1327	1.82e-44	essential gene	95.29	100.00	AAL00131
DCPMIAPF_10	586895	586632	spr0175	2.34e-41	pathogenitcity related	84.09	100.00	AAK98979
DCPMIAPF_10	586068	585802	spr0177	6.89e-32	essential gene	83.15	88.12	AAK98981
DCPMIAPF_3	85402	85902	RopE (M5005_Spy_1611)	2.33e-75	probable DNA-directed RNA polymerase subunit delta	82.04	87.43	AAK34603
DCPMIAPF_10	254249	256546	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
DCPMIAPF_3	363648	364667	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
DCPMIAPF_3	0.0	1.0	0.0
DCPMIAPF_10	0.0	1.0	0.0
DCPMIAPF_11	0.0	1.0	0.0
DCPMIAPF_12	0.0	1.0	0.0
DCPMIAPF_14	1.0	0.0	1.0
DCPMIAPF_17	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