safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	25	28	37.54

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.
CKIDLJEA_1	728532	729401	rfbA	Capsule	Immune modulation	100.00	100.00	WP_011681286
CKIDLJEA_1	729401	729994	STER_RS06030	Capsule	Immune modulation	100.00	100.00	WP_011226149
CKIDLJEA_1	729401	729994	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
CKIDLJEA_1	514060	515016	STU_RS16250	Capsule	Immune modulation	99.79	100.00	WP_011226328
CKIDLJEA_1	515000	515809	STU_RS16245	Capsule	Immune modulation	99.75	100.00	WP_002948020
CKIDLJEA_1	512915	514063	STU_RS16255	Capsule	Immune modulation	99.74	100.00	WP_041828290
CKIDLJEA_1	729401	729994	STU_RS15260	Capsule	Immune modulation	99.66	100.00	WP_011226149
CKIDLJEA_1	515809	517014	STU_RS16240	Capsule	Immune modulation	99.58	100.00	WP_011226326
CKIDLJEA_1	518086	519870	STU_RS16230	Capsule	Immune modulation	99.55	100.00	WP_011226325
CKIDLJEA_1	508568	509419	rfbD	Capsule	Immune modulation	99.53	100.00	WP_014621820
CKIDLJEA_1	1822424	1823263	cbpD	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
CKIDLJEA_1	511796	512806	STU_RS16260	Capsule	Immune modulation	99.50	100.00	WP_011226330
CKIDLJEA_1	517034	518089	STU_RS16235	Capsule	Immune modulation	99.43	100.00	WP_002948022
CKIDLJEA_1	963505	965163	fbp54	FBPs	Adherence	99.34	100.00	WP_011227179
CKIDLJEA_1	852217	852948	STER_RS05315	Capsule	Immune modulation	99.04	100.00	WP_011681176
CKIDLJEA_1	852217	852948	STU_RS14645	Capsule	Immune modulation	98.77	100.00	WP_011226048
CKIDLJEA_1	852217	852948	STR_RS05260	Capsule	Immune modulation	98.63	100.00	WP_011227248
CKIDLJEA_1	785423	786211	cshA	Cell surface hydrophobicity proteins	Adherence	98.36	99.75	-
CKIDLJEA_1	861474	862889	STER_RS05250	Capsule	Immune modulation	97.81	100.00	WP_011681165
CKIDLJEA_1	692448	693209	srtA	Sortase A	Exoenzyme	97.64	100.00	-
CKIDLJEA_1	510522	511793	STU_RS16265	Capsule	Immune modulation	97.48	99.76	WP_011226331
CKIDLJEA_1	850756	852216	STER_RS05320	Capsule	Immune modulation	97.47	100.00	WP_011681177
CKIDLJEA_1	850756	852216	STU_RS14650	Capsule	Immune modulation	96.85	100.21	WP_011226049
CKIDLJEA_1	850756	852216	STR_RS05265	Capsule	Immune modulation	95.89	100.21	WP_041827043
CKIDLJEA_1	852957	853649	STR_RS05255	Capsule	Immune modulation	95.40	99.86	WP_011227247
CKIDLJEA_1	852957	853649	STU_RS14640	Capsule	Immune modulation	95.40	99.86	WP_011226047
CKIDLJEA_1	854474	855839	STER_RS05300	Capsule	Immune modulation	95.17	99.85	WP_011681173
CKIDLJEA_1	853659	854417	STER_RS05305	Capsule	Immune modulation	93.94	100.94	WP_011681174
CKIDLJEA_1	854474	855841	STU_RS14630	Capsule	Immune modulation	93.93	100.00	WP_011226045
CKIDLJEA_1	853659	854417	STU_RS14635	Capsule	Immune modulation	93.81	100.94	WP_011226046
CKIDLJEA_1	853659	854412	STR_RS05250	Capsule	Immune modulation	93.24	99.07	WP_011227246
CKIDLJEA_1	852957	853649	STER_RS05310	Capsule	Immune modulation	89.47	100.00	WP_011681175
CKIDLJEA_1	1227230	1228533	eno	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
CKIDLJEA_1	219584	220594	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	87.45	99.90	WP_002986042
CKIDLJEA_1	730423	731469	rfbB	Capsule	Immune modulation	80.61	100.00	WP_009659423
CKIDLJEA_1	1704911	1706194	tig/ropA	Trigger factor	Stress survival	80.58	99.77	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
CKIDLJEA_1	689761	688778	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
CKIDLJEA_1	1124818	1123745	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
CKIDLJEA_1	1311931	1310963	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
CKIDLJEA_1	343604	341301	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
CKIDLJEA_1	614968	613487	SPD_0310	0.0	UPF0371 protein SPD_0310	92.31	100.00	ABJ54480
CKIDLJEA_1	1088375	1086129	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
CKIDLJEA_1	1801074	1800082	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
CKIDLJEA_1	1839746	1838775	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
CKIDLJEA_1	457389	458540	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.32	99.74	AAL00050
CKIDLJEA_1	493277	495265	uvrB	0.0	excinuclease ABC, B subunit	88.84	100.00	AE014259_2
CKIDLJEA_1	705957	707687	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
CKIDLJEA_1	12592	14070	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.42	100.00	ADE32434
CKIDLJEA_1	1228533	1227232	Eno	0.0	enolase	86.21	99.77	ABP90468
CKIDLJEA_1	27782	29674	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.74	98.90	ABP91129
CKIDLJEA_1	1083204	1084913	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
CKIDLJEA_1	176914	175904	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
CKIDLJEA_1	939203	940564	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
CKIDLJEA_1	125220	127112	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
CKIDLJEA_1	1242968	1242078	bglB	1.40e-177	putative phospho--glucosidase	88.22	99.66	AAK33487
CKIDLJEA_1	1023838	1024776	SP_0676	2.37e-167	transcription facot	81.15	97.20	AAK74821
CKIDLJEA_1	1085937	1085080	metF	8.70e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
CKIDLJEA_1	814048	814752	covR	4.41e-131	responder protein	85.53	100.00	AAK71319
CKIDLJEA_1	633944	634615	rr01	3.02e-124	response regulator	83.93	99.56	CAB54566
CKIDLJEA_1	814048	814752	walR	1.86e-121	DNA-binding response regulator	82.13	100.00	ANC99504
CKIDLJEA_1	1079250	1078582	CiaR	9.47e-118	two-component response regulator	84.75	99.55	AAK74935
CKIDLJEA_1	1551801	1551115	CovR	1.01e-117	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
CKIDLJEA_1	1079250	1078579	ciaR	1.03e-115	two component system response regulator	82.59	99.12	AIK75708
CKIDLJEA_1	1799770	1799375	SpxA2	3.20e-73	transcriptional regulator	90.15	100.00	ERL21461
CKIDLJEA_1	1704753	1704253	RopE (M5005_Spy_1611)	4.95e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
CKIDLJEA_1	343604	341307	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
CKIDLJEA_1	139629	140648	ilvC (SPD_0406)	0.0	ketol-acid reductoisomerase (NADP(+))	95.88	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
CKIDLJEA_1	0.0	1.0	0.0
CKIDLJEA_2	1.0	0.0	1.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Prophage

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
No hit found