safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
2	22	31	38.07

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.
DKKPIAJD_1	629535	630998	msr(D)	Erythromycin, Azithromycin, Telithromycin, Quinupristin, Pristinamycin IA, Virginiamycin S	100.00	100.00	AF274302
DKKPIAJD_1	628198	629415	mef(A)	Erythromycin, Azithromycin	99.92	100.00	U83667

ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
DKKPIAJD_1	628198	629412	mef(A)	macrolide efflux MFS transporter Mef(A)	EXACTX	100.00	100.00	WP_000417519.1
DKKPIAJD_1	629535	630995	msr(D)	ABC-F type ribosomal protection protein Msr(D)	EXACTX	100.00	100.00	WP_000420313.1

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.
DKKPIAJD_1	951618	953078	STER_RS05320	Capsule	Immune modulation	97.06	100.00	WP_011681177
DKKPIAJD_1	951618	953078	STU_RS14650	Capsule	Immune modulation	96.72	100.21	WP_011226049
DKKPIAJD_1	951618	953078	STR_RS05265	Capsule	Immune modulation	96.17	100.21	WP_041827043
DKKPIAJD_1	1578580	1579389	STU_RS16245	Capsule	Immune modulation	95.56	100.00	WP_002948020
DKKPIAJD_1	955318	956683	STER_RS05300	Capsule	Immune modulation	95.24	99.85	WP_011681173
DKKPIAJD_1	1586514	1587365	rfbD	Capsule	Immune modulation	95.07	100.00	WP_014621820
DKKPIAJD_1	955318	956685	STU_RS14630	Capsule	Immune modulation	94.30	100.00	WP_011226045
DKKPIAJD_1	954521	955261	STER_RS05305	Capsule	Immune modulation	93.94	99.87	WP_011681174
DKKPIAJD_1	1584142	1585413	STU_RS16265	Capsule	Immune modulation	93.63	99.76	WP_011226331
DKKPIAJD_1	1579373	1580329	STU_RS16250	Capsule	Immune modulation	93.52	100.00	WP_011226328
DKKPIAJD_1	954521	955261	STU_RS14635	Capsule	Immune modulation	93.26	99.87	WP_011226046
DKKPIAJD_1	954521	955256	STR_RS05250	Capsule	Immune modulation	92.67	98.00	WP_011227246
DKKPIAJD_1	1574540	1576324	STU_RS16230	Capsule	Immune modulation	92.66	100.00	WP_011226325
DKKPIAJD_1	1577375	1578580	STU_RS16240	Capsule	Immune modulation	92.37	100.00	WP_011226326
DKKPIAJD_1	953079	953810	STU_RS14645	Capsule	Immune modulation	92.08	100.00	WP_011226048
DKKPIAJD_1	1580326	1581474	STU_RS16255	Capsule	Immune modulation	91.99	100.00	WP_041828290
DKKPIAJD_1	779706	780575	rfbA	Capsule	Immune modulation	91.84	100.00	WP_011681286
DKKPIAJD_1	1576321	1577355	STU_RS16235	Capsule	Immune modulation	91.77	99.05	WP_002948022
DKKPIAJD_1	953079	953810	STER_RS05315	Capsule	Immune modulation	91.67	100.00	WP_011681176
DKKPIAJD_1	953079	953810	STR_RS05260	Capsule	Immune modulation	91.12	100.00	WP_011227248
DKKPIAJD_1	1069960	1071617	fbp54	FBPs	Adherence	90.96	99.88	WP_011227179
DKKPIAJD_1	780575	781168	STR_RS05880	Capsule	Immune modulation	90.91	100.00	WP_011226149
DKKPIAJD_1	780575	781168	STER_RS06030	Capsule	Immune modulation	90.74	100.00	WP_011226149
DKKPIAJD_1	780575	781168	STU_RS15260	Capsule	Immune modulation	90.74	100.00	WP_011226149
DKKPIAJD_1	1227068	1227829	srtA	Sortase A	Exoenzyme	90.17	99.87	-
DKKPIAJD_1	40816	41655	cbpD	Autolysin	Exoenzyme	90.12	100.00	WP_011226733
DKKPIAJD_1	953819	954511	STR_RS05255	Capsule	Immune modulation	88.92	99.71	WP_011227247
DKKPIAJD_1	953819	954511	STU_RS14640	Capsule	Immune modulation	88.92	99.71	WP_011226047
DKKPIAJD_1	607348	608651	eno	Streptococcal enolase	Exoenzyme	88.17	99.54	WP_000022832
DKKPIAJD_1	1887498	1888508	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	87.66	99.80	WP_002986042
DKKPIAJD_1	953819	954511	STER_RS05310	Capsule	Immune modulation	87.05	99.71	WP_011681175
DKKPIAJD_1	781369	782415	rfbB	Capsule	Immune modulation	80.99	100.00	WP_009659423
DKKPIAJD_1	128852	130135	tig/ropA	Trigger factor	Stress survival	80.76	99.61	WP_000107753

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
DKKPIAJD_1	1083921	1082155	spxB	0.0	pyruvate oxidase gene	97.28	99.66	AAB40976
DKKPIAJD_1	1230518	1231501	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	96.95	100.00	AAK75326
DKKPIAJD_1	1218933	1217860	MntE	0.0	manganese homeostasis	95.53	99.72	ABF32167
DKKPIAJD_1	1766636	1768942	pfl2(Sp_0459)	0.0	formate acetyltransferase	94.15	99.22	AAK74619
DKKPIAJD_1	1197330	1195084	metE	0.0	methionine biosynthesis enzymes	93.19	100.00	AAK74738
DKKPIAJD_1	1361954	1363435	SPD_0310	0.0	UPF0371 protein SPD_0310	92.92	100.00	ABJ54480
DKKPIAJD_1	516044	517012	spr0084	0.0	pathogenitcity related	92.57	98.48	AAK98888
DKKPIAJD_1	24541	25512	prsA2	0.0	ribose-phosphate pyrophosphokinase	91.36	100.00	ABF36968
DKKPIAJD_1	1281489	1275016	PrtA	0.0	serine protease	91.25	100.61	ABJ55268
DKKPIAJD_1	754327	756057	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	89.95	100.00	AAK34199
DKKPIAJD_1	1601232	1599244	uvrB	0.0	excinuclease ABC, B subunit	89.59	100.00	AE014259_2
DKKPIAJD_1	1629592	1628441	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.58	99.74	AAL00050
DKKPIAJD_1	2088598	2087120	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
DKKPIAJD_1	607348	608649	Eno	0.0	enolase	86.44	99.77	ABP90468
DKKPIAJD_1	2073250	2071358	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.42	98.90	ABP91129
DKKPIAJD_1	1192162	1193871	PGM	0.0	phosphoglucomutase	84.76	99.65	ACH87041
DKKPIAJD_1	61880	62971	recA	0.0	DNA recombination and repair	84.64	95.36	AAL00560
DKKPIAJD_1	1942340	1943350	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
DKKPIAJD_1	1045074	1046435	mnmE	0.0	central tRNA-modifying GTPase	82.67	99.56	ABP90420
DKKPIAJD_1	592942	593832	bglB	9.54e-176	putative phospho--glucosidase	87.20	99.66	AAK33487
DKKPIAJD_1	1151497	1152435	SP_0676	1.80e-168	transcription facot	81.79	97.20	AAK74821
DKKPIAJD_1	1194894	1194037	metF	9.11e-168	methionine biosynthesis enzymes	87.06	99.31	AAK74739
DKKPIAJD_1	1299842	1299171	rr01	5.17e-126	response regulator	84.82	99.56	CAB54566
DKKPIAJD_1	906906	907610	covR	9.37e-126	responder protein	85.53	100.00	AAK71319
DKKPIAJD_1	1188196	1187528	CiaR	2.01e-124	two-component response regulator	87.44	99.55	AAK74935
DKKPIAJD_1	1188196	1187525	ciaR	1.30e-123	two component system response regulator	85.71	99.12	AIK75708
DKKPIAJD_1	906906	907610	walR	2.13e-119	DNA-binding response regulator	82.13	100.00	ANC99504
DKKPIAJD_1	276414	277100	CovR	4.60e-119	serves to repress GAS virulence factor-encoding genes	81.66	100.00	ACE75886
DKKPIAJD_1	63144	63539	SpxA2	2.07e-74	transcriptional regulator	91.67	100.00	ERL21461
DKKPIAJD_1	1033609	1033208	SpxA1	4.31e-69	transcriptional regulator	82.84	100.00	ERL19273
DKKPIAJD_1	115608	116021	GrpE	1.64e-66	protein grpE	81.88	80.59	ABP89267
DKKPIAJD_1	130302	130793	RopE (M5005_Spy_1611)	1.02e-71	probable DNA-directed RNA polymerase subunit delta	82.93	85.86	AAK34603
DKKPIAJD_1	1766636	1768936	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.97	98.08	MYN69560
DKKPIAJD_1	1979023	1978004	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	97.35	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
DKKPIAJD_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