safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	25	29	38.29

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.
HKCAJAIO_1	1126221	1126814	STER_RS06030	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
HKCAJAIO_1	999904	1001364	STER_RS05320	0.0	Capsule	Immune modulation	99.93	100.00	WP_011681177
HKCAJAIO_1	1126221	1126814	STR_RS05880	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
HKCAJAIO_1	1338868	1339677	STU_RS16245	0.0	Capsule	Immune modulation	99.75	100.00	WP_002948020
HKCAJAIO_1	1126814	1127683	rfbA	0.0	Capsule	Immune modulation	99.66	100.00	WP_011681286
HKCAJAIO_1	1126221	1126814	STU_RS15260	0.0	Capsule	Immune modulation	99.66	100.00	WP_011226149
HKCAJAIO_1	881262	882920	fbp54	0.0	FBPs	Adherence	99.64	100.00	WP_011227179
HKCAJAIO_1	1339661	1340617	STU_RS16250	0.0	Capsule	Immune modulation	99.58	100.00	WP_011226328
HKCAJAIO_1	43524	44363	cbpD	0.0	Autolysin	Exoenzyme	99.52	100.00	WP_011226733
HKCAJAIO_1	1334795	1336579	STU_RS16230	0.0	Capsule	Immune modulation	99.44	100.00	WP_011226325
HKCAJAIO_1	1337663	1338868	STU_RS16240	0.0	Capsule	Immune modulation	99.17	100.00	WP_011226326
HKCAJAIO_1	1346804	1347655	rfbD	0.0	Capsule	Immune modulation	99.06	100.00	WP_014621820
HKCAJAIO_1	999172	999903	STER_RS05315	0.0	Capsule	Immune modulation	98.91	100.00	WP_011681176
HKCAJAIO_1	1163007	1163768	srtA	0.0	Sortase A	Exoenzyme	98.82	100.00	-
HKCAJAIO_1	1340614	1341762	STU_RS16255	0.0	Capsule	Immune modulation	98.78	100.00	WP_041828290
HKCAJAIO_1	999172	999903	STR_RS05260	0.0	Capsule	Immune modulation	98.50	100.00	WP_011227248
HKCAJAIO_1	999172	999903	STU_RS14645	0.0	Capsule	Immune modulation	98.36	100.00	WP_011226048
HKCAJAIO_1	1067246	1068039	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	98.24	100.25	-
HKCAJAIO_1	987740	989155	STER_RS05250	0.0	Capsule	Immune modulation	98.23	100.00	WP_011681165
HKCAJAIO_1	997721	998461	STU_RS14635	0.0	Capsule	Immune modulation	98.11	100.00	WP_011226046
HKCAJAIO_1	997721	998461	STER_RS05305	0.0	Capsule	Immune modulation	97.71	100.00	WP_011681174
HKCAJAIO_1	999904	1001364	STU_RS14650	0.0	Capsule	Immune modulation	97.40	100.21	WP_011226049
HKCAJAIO_1	997726	998461	STR_RS05250	0.0	Capsule	Immune modulation	97.15	98.13	WP_011227246
HKCAJAIO_1	996297	997664	STU_RS14630	0.0	Capsule	Immune modulation	97.00	100.00	WP_011226045
HKCAJAIO_1	999904	1001364	STR_RS05265	0.0	Capsule	Immune modulation	96.85	100.21	WP_041827043
HKCAJAIO_1	998471	999163	STR_RS05255	0.0	Capsule	Immune modulation	95.38	100.00	WP_011227247
HKCAJAIO_1	998471	999163	STU_RS14640	0.0	Capsule	Immune modulation	95.38	100.00	WP_011226047
HKCAJAIO_1	1336576	1337643	STU_RS16235	0.0	Capsule	Immune modulation	95.27	101.14	WP_002948022
HKCAJAIO_1	996299	997664	STER_RS05300	0.0	Capsule	Immune modulation	94.58	99.85	WP_011681173
HKCAJAIO_1	998471	999163	STER_RS05310	0.0	Capsule	Immune modulation	90.48	100.00	WP_011681175
HKCAJAIO_1	1344427	1345701	STU_RS16265	0.0	Capsule	Immune modulation	89.42	99.92	WP_011226331
HKCAJAIO_1	600558	601861	eno	0.0	Streptococcal enolase	Exoenzyme	88.02	99.46	WP_000022832
HKCAJAIO_1	1633194	1634204	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.54	99.41	WP_002986042
HKCAJAIO_1	139751	141034	tig/ropA	0.0	Trigger factor	Stress survival	80.81	99.77	WP_000107753
HKCAJAIO_1	1124746	1125792	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
HKCAJAIO_1	985337	985920	SPD_RS01775	1.08e-151	Capsule	Immune modulation	83.59	96.20	WP_001819836

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
HKCAJAIO_1	1166455	1167438	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
HKCAJAIO_1	719830	720903	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
HKCAJAIO_1	1510212	1512515	pfl2(Sp_0459)	0.0	formate acetyltransferase	92.97	99.22	AAK74619
HKCAJAIO_1	516920	517888	spr0084	0.0	pathogenitcity related	92.57	98.48	AAK98888
HKCAJAIO_1	748150	750396	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
HKCAJAIO_1	1236767	1238248	SPD_0310	0.0	UPF0371 protein SPD_0310	91.70	100.00	ABJ54480
HKCAJAIO_1	63155	64153	recA	0.0	DNA recombination and repair	91.29	85.82	AAL00560
HKCAJAIO_1	27041	28012	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
HKCAJAIO_1	1396195	1395044	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
HKCAJAIO_1	1360832	1358844	uvrB	0.0	excinuclease ABC, B subunit	88.84	100.00	AE014259_2
HKCAJAIO_1	1150256	1148526	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	88.04	100.00	AAK34199
HKCAJAIO_1	1840194	1838716	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
HKCAJAIO_1	600558	601859	Eno	0.0	enolase	86.21	99.77	ABP90468
HKCAJAIO_1	1825005	1823113	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	86.05	98.90	ABP91129
HKCAJAIO_1	753321	751612	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
HKCAJAIO_1	1676556	1677566	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
HKCAJAIO_1	904774	903413	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
HKCAJAIO_1	1726900	1725008	PepO	0.0	endopeptidase	80.19	100.00	ABF32980
HKCAJAIO_1	586122	587012	bglB	5.25e-178	putative phospho--glucosidase	88.55	99.66	AAK33487
HKCAJAIO_1	826165	825227	SP_0676	2.35e-167	transcription facot	81.15	97.20	AAK74821
HKCAJAIO_1	750588	751445	metF	1.53e-164	methionine biosynthesis enzymes	86.36	99.31	AAK74739
HKCAJAIO_1	1039566	1038862	covR	4.37e-131	responder protein	85.53	100.00	AAK71319
HKCAJAIO_1	1217792	1217121	rr01	3.00e-124	response regulator	83.93	99.56	CAB54566
HKCAJAIO_1	1039566	1038862	walR	1.84e-121	DNA-binding response regulator	82.13	100.00	ANC99504
HKCAJAIO_1	292779	293465	CovR	1.01e-117	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
HKCAJAIO_1	757275	757943	CiaR	2.02e-117	two-component response regulator	84.31	99.55	AAK74935
HKCAJAIO_1	757275	757946	ciaR	1.99e-115	two component system response regulator	82.14	99.12	AIK75708
HKCAJAIO_1	64429	64803	SpxA2	1.15e-69	transcriptional regulator	91.20	94.70	ERL21461
HKCAJAIO_1	916136	916537	SpxA1	3.76e-66	transcriptional regulator	80.60	100.00	ERL19273
HKCAJAIO_1	141192	141692	RopE (M5005_Spy_1611)	4.92e-75	probable DNA-directed RNA polymerase subunit delta	81.44	87.43	AAK34603
HKCAJAIO_1	1510212	1512509	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	82.94	98.08	MYN69560
HKCAJAIO_1	1712440	1711421	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
HKCAJAIO_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