safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	26	29	38.95

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.
KPLPNPMH_1	695623	696413	cshA	Cell surface hydrophobicity proteins	Adherence	100.00	100.00	-
KPLPNPMH_1	437359	438210	rfbD	Capsule	Immune modulation	100.00	100.00	WP_014621820
KPLPNPMH_1	651001	651594	STU_RS15260	Capsule	Immune modulation	100.00	100.00	WP_011226149
KPLPNPMH_1	442851	443807	STU_RS16250	Capsule	Immune modulation	100.00	100.00	WP_011226328
KPLPNPMH_1	446877	448661	STU_RS16230	Capsule	Immune modulation	99.89	100.00	WP_011226325
KPLPNPMH_1	443791	444600	STU_RS16245	Capsule	Immune modulation	99.88	100.00	WP_002948020
KPLPNPMH_1	615474	616235	srtA	Sortase A	Exoenzyme	99.87	100.00	-
KPLPNPMH_1	651001	651594	STR_RS05880	Capsule	Immune modulation	99.83	100.00	WP_011226149
KPLPNPMH_1	440587	441597	STU_RS16260	Capsule	Immune modulation	99.80	100.00	WP_011226330
KPLPNPMH_1	441706	442854	STU_RS16255	Capsule	Immune modulation	99.74	100.00	WP_041828290
KPLPNPMH_1	445825	446880	STU_RS16235	Capsule	Immune modulation	99.72	100.00	WP_002948022
KPLPNPMH_1	880696	882354	fbp54	FBPs	Adherence	99.70	100.00	WP_011227179
KPLPNPMH_1	651001	651594	STER_RS06030	Capsule	Immune modulation	99.66	100.00	WP_011226149
KPLPNPMH_1	44880	45719	cbpD	Autolysin	Exoenzyme	99.64	100.00	WP_011226733
KPLPNPMH_1	650132	651001	rfbA	Capsule	Immune modulation	99.54	100.00	WP_011681286
KPLPNPMH_1	762252	762983	STER_RS05315	Capsule	Immune modulation	99.45	100.00	WP_011681176
KPLPNPMH_1	762992	763684	STU_RS14640	Capsule	Immune modulation	99.42	100.00	WP_011226047
KPLPNPMH_1	444600	445805	STU_RS16240	Capsule	Immune modulation	99.42	100.00	WP_011226326
KPLPNPMH_1	762992	763684	STR_RS05255	Capsule	Immune modulation	98.85	100.00	WP_011227247
KPLPNPMH_1	779859	781274	STER_RS05250	Capsule	Immune modulation	98.73	100.00	WP_011681165
KPLPNPMH_1	760797	762251	STU_RS14650	Capsule	Immune modulation	98.62	100.00	WP_011226049
KPLPNPMH_1	760797	762251	STR_RS05265	Capsule	Immune modulation	98.49	100.00	WP_041827043
KPLPNPMH_1	763694	764434	STER_RS05305	Capsule	Immune modulation	98.38	100.00	WP_011681174
KPLPNPMH_1	762252	762983	STR_RS05260	Capsule	Immune modulation	98.22	100.00	WP_011227248
KPLPNPMH_1	762252	762983	STU_RS14645	Capsule	Immune modulation	98.09	100.00	WP_011226048
KPLPNPMH_1	763694	764429	STR_RS05250	Capsule	Immune modulation	97.96	98.13	WP_011227246
KPLPNPMH_1	763694	764434	STU_RS14635	Capsule	Immune modulation	97.71	100.00	WP_011226046
KPLPNPMH_1	760797	762251	STER_RS05320	Capsule	Immune modulation	97.60	99.79	WP_011681177
KPLPNPMH_1	439313	440587	STU_RS16265	Capsule	Immune modulation	97.57	100.00	WP_011226331
KPLPNPMH_1	764491	765858	STU_RS14630	Capsule	Immune modulation	95.69	100.00	WP_011226045
KPLPNPMH_1	764491	765854	STER_RS05300	Capsule	Immune modulation	94.94	99.71	WP_011681173
KPLPNPMH_1	766087	767078	STU_RS14625*	Capsule	Immune modulation	92.69	99.60	-
KPLPNPMH_1	762992	763684	STER_RS05310	Capsule	Immune modulation	89.32	100.00	WP_011681175
KPLPNPMH_1	1143524	1144827	eno	Streptococcal enolase	Exoenzyme	88.09	99.54	WP_000022832
KPLPNPMH_1	150585	151595	plr/gapA	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
KPLPNPMH_1	652024	653070	rfbB	Capsule	Immune modulation	80.71	100.00	WP_009659423
KPLPNPMH_1	1595860	1597143	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
KPLPNPMH_1	612787	611804	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
KPLPNPMH_1	1035595	1034522	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
KPLPNPMH_1	1228751	1227783	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
KPLPNPMH_1	274163	271860	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
KPLPNPMH_1	533337	531856	SPD_0310	0.0	UPF0371 protein SPD_0310	92.11	100.00	ABJ54480
KPLPNPMH_1	1006913	1004667	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
KPLPNPMH_1	65755	66747	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
KPLPNPMH_1	28396	29367	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
KPLPNPMH_1	387899	389050	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
KPLPNPMH_1	422377	424359	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
KPLPNPMH_1	628981	630711	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
KPLPNPMH_1	1783761	1782283	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.42	100.00	ADE32434
KPLPNPMH_1	1144827	1143526	Eno	0.0	enolase	86.21	99.77	ABP90468
KPLPNPMH_1	1769025	1767133	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
KPLPNPMH_1	1001742	1003451	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
KPLPNPMH_1	1632957	1633967	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
KPLPNPMH_1	855067	856428	mnmE	0.0	central tRNA-modifying GTPase	82.02	99.56	ABP90420
KPLPNPMH_1	1684974	1683082	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
KPLPNPMH_1	1159257	1158367	bglB	1.29e-178	putative phospho--glucosidase	88.89	99.66	AAK33487
KPLPNPMH_1	942327	943265	SP_0676	1.19e-167	transcription facot	81.47	97.20	AAK74821
KPLPNPMH_1	1004475	1003618	metF	8.38e-165	methionine biosynthesis enzymes	86.36	99.31	AAK74739
KPLPNPMH_1	724087	724791	covR	6.56e-131	responder protein	85.53	100.00	AAK71319
KPLPNPMH_1	559603	560274	rr01	1.16e-125	response regulator	84.38	99.56	CAB54566
KPLPNPMH_1	724087	724791	walR	3.10e-121	DNA-binding response regulator	81.70	100.00	ANC99504
KPLPNPMH_1	1439464	1438778	CovR	9.75e-118	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
KPLPNPMH_1	997788	997120	CiaR	6.89e-117	two-component response regulator	83.86	99.55	AAK74935
KPLPNPMH_1	997788	997117	ciaR	6.84e-115	two component system response regulator	81.70	99.12	AIK75708
KPLPNPMH_1	67044	67439	SpxA2	3.59e-74	transcriptional regulator	90.91	100.00	ERL21461
KPLPNPMH_1	843709	843308	SpxA1	3.65e-66	transcriptional regulator	80.60	100.00	ERL19273
KPLPNPMH_1	1595702	1595202	RopE (M5005_Spy_1611)	9.57e-75	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
KPLPNPMH_1	274163	271866	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
KPLPNPMH_1	1670513	1669494	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
KPLPNPMH_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