safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

Probiotic potential risk score

ARGs	VFs	PGs	PPRS
0	37	33	49.58

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.
LAIBJINO_50	20724	21563	cbpD	0.0	Autolysin	Exoenzyme	100.00	100.00	WP_011226733
LAIBJINO_51	5143	5994	rfbD	0.0	Capsule	Immune modulation	100.00	100.00	WP_014621820
LAIBJINO_49	13739	14470	STR_RS05260	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227248
LAIBJINO_54	61547	62140	STR_RS05880	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226149
LAIBJINO_51	16727	18472	STR_RS06885	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227426
LAIBJINO_51	15025	16725	STR_RS06890	0.0	Capsule	Immune modulation	100.00	100.00	WP_041827077
LAIBJINO_51	12999	13805	STR_RS06900	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227429
LAIBJINO_51	12058	12999	STR_RS06905	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227430
LAIBJINO_51	10913	12061	STR_RS06910	0.0	Capsule	Immune modulation	100.00	100.00	WP_011227431
LAIBJINO_49	30643	31401	STU_RS14545	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226028
LAIBJINO_49	29538	30656	STU_RS14550	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226029
LAIBJINO_49	28804	29427	STU_RS14555	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226030
LAIBJINO_49	26081	27481	STU_RS14565	0.0	Capsule	Immune modulation	100.00	100.00	WP_179970486
LAIBJINO_49	24593	25585	STU_RS14570	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226034
LAIBJINO_49	23843	24568	STU_RS14575	0.0	Capsule	Immune modulation	100.00	100.00	WP_041828375
LAIBJINO_49	19028	19513	STU_RS14615	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226041
LAIBJINO_49	18579	19028	STU_RS14620	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226042
LAIBJINO_49	17574	18570	STU_RS14625*	0.0	Capsule	Immune modulation	100.00	100.00	-
LAIBJINO_49	15978	17345	STU_RS14630	0.0	Capsule	Immune modulation	100.00	100.00	WP_011226045
LAIBJINO_49	15181	15916	STR_RS05250	0.0	Capsule	Immune modulation	100.00	98.13	WP_011227246
LAIBJINO_45	13047	14705	fbp54	0.0	FBPs	Adherence	99.94	100.00	WP_011227179
LAIBJINO_49	12284	13738	STR_RS05265	0.0	Capsule	Immune modulation	99.93	100.00	WP_041827043
LAIBJINO_51	13805	15007	STR_RS06895	0.0	Capsule	Immune modulation	99.92	100.00	WP_011227428
LAIBJINO_49	27488	28663	STU_RS14560	0.0	Capsule	Immune modulation	99.92	100.00	WP_011226032
LAIBJINO_54	26022	26783	srtA	0.0	Sortase A	Exoenzyme	99.87	100.00	-
LAIBJINO_49	14479	15171	STR_RS05255	0.0	Capsule	Immune modulation	99.86	100.00	WP_011227247
LAIBJINO_49	22106	22746	STU_RS14590	0.0	Capsule	Immune modulation	99.84	99.84	WP_041828240
LAIBJINO_54	61547	62140	STER_RS06030	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
LAIBJINO_54	61547	62140	STU_RS15260	0.0	Capsule	Immune modulation	99.83	100.00	WP_011226149
LAIBJINO_49	19616	20095	STU_RS14610	0.0	Capsule	Immune modulation	99.79	100.00	WP_011226040
LAIBJINO_51	15025	16725	STER_RS07050	0.0	Capsule	Immune modulation	99.71	100.00	WP_041827753
LAIBJINO_49	14479	15171	STU_RS14640	0.0	Capsule	Immune modulation	99.57	100.00	WP_011226047
LAIBJINO_51	13805	15007	STER_RS07055	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681436
LAIBJINO_51	12999	13805	STER_RS07060	0.0	Capsule	Immune modulation	99.50	100.00	WP_011681437
LAIBJINO_51	12058	12999	STER_RS07065	0.0	Capsule	Immune modulation	99.47	100.00	WP_011681438
LAIBJINO_55	52177	52967	cshA	0.0	Cell surface hydrophobicity proteins	Adherence	99.24	100.00	-
LAIBJINO_51	10913	12061	STER_RS07070	0.0	Capsule	Immune modulation	99.22	100.00	WP_011681439
LAIBJINO_54	60678	61547	rfbA	0.0	Capsule	Immune modulation	99.19	100.00	WP_011681286
LAIBJINO_49	13739	14470	STU_RS14645	0.0	Capsule	Immune modulation	98.77	100.00	WP_011226048
LAIBJINO_49	15181	15921	STER_RS05305	0.0	Capsule	Immune modulation	98.52	100.00	WP_011681174
LAIBJINO_49	13739	14470	STER_RS05315	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681176
LAIBJINO_51	16727	18472	STER_RS07045	0.0	Capsule	Immune modulation	98.22	100.00	WP_011681434
LAIBJINO_49	12284	13738	STU_RS14650	0.0	Capsule	Immune modulation	98.01	100.00	WP_011226049
LAIBJINO_49	15181	15921	STU_RS14635	0.0	Capsule	Immune modulation	97.98	100.00	WP_011226046
LAIBJINO_51	6115	7374	STER_RS07100	0.0	Capsule	Immune modulation	97.70	100.00	WP_011681445
LAIBJINO_49	12284	13738	STER_RS05320	0.0	Capsule	Immune modulation	96.99	99.79	WP_011681177
LAIBJINO_49	15978	17341	STER_RS05300	0.0	Capsule	Immune modulation	94.94	99.71	WP_011681173
LAIBJINO_49	14479	15171	STER_RS05310	0.0	Capsule	Immune modulation	89.75	100.00	WP_011681175
LAIBJINO_83	28329	29632	eno	0.0	Streptococcal enolase	Exoenzyme	88.10	99.46	WP_000022832
LAIBJINO_8	375	1385	plr/gapA	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	86.92	99.51	WP_002986042
LAIBJINO_51	12999	13805	SGO_RS05020	0.0	Capsule	Immune modulation	82.90	100.00	WP_012000440
LAIBJINO_34	2359	3642	tig/ropA	0.0	Trigger factor	Stress survival	80.65	99.77	WP_000107753
LAIBJINO_54	62569	63615	rfbB	0.0	Capsule	Immune modulation	80.61	100.00	WP_009659423
LAIBJINO_49	23437	23775	STU_RS19955	2.42e-177	Capsule	Immune modulation	100.00	100.00	WP_148148905
LAIBJINO_51	7371	8069	STER_RS07095	9.13e-154	Capsule	Immune modulation	81.15	70.35	WP_011681444
LAIBJINO_51	8423	8889	STER_RS07085	0.0	Capsule	Immune modulation	94.02	65.13	WP_011681442
LAIBJINO_51	13805	14542	SGO_RS05025	0.0	Capsule	Immune modulation	85.23	60.29	WP_012000441

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
LAIBJINO_54	23335	22352	ldh(Sp_1220)	0.0	L-lactate dehydrogenase	94.82	100.00	AAK75326
LAIBJINO_13	14019	12946	MntE	0.0	manganese homeostasis	94.41	99.72	ABF32167
LAIBJINO_83	111872	110904	spr0084	0.0	pathogenitcity related	93.19	98.48	AAK98888
LAIBJINO_23	155230	157533	pfl2(Sp_0459)	0.0	formate acetyltransferase	93.10	99.22	AAK74619
LAIBJINO_12	11341	9095	metE	0.0	methionine biosynthesis enzymes	91.99	100.00	AAK74738
LAIBJINO_3	25400	26881	SPD_0310	0.0	UPF0371 protein SPD_0310	91.90	100.00	ABJ54480
LAIBJINO_50	1932	940	recA	0.0	DNA recombination and repair	91.24	85.31	AAL00560
LAIBJINO_16	15312	14341	prsA2	0.0	ribose-phosphate pyrophosphokinase	90.12	100.00	ABF36968
LAIBJINO_23	41340	40189	potA	0.0	ABC transporter ATP-binding protein-spermidine/putrescine transport	89.06	99.74	AAL00050
LAIBJINO_23	6867	4885	uvrB	0.0	excinuclease ABC, B subunit	88.96	99.70	AE014259_2
LAIBJINO_54	39529	41259	ptsI	0.0	phosphoenolpyruvate-protein phosphotransferase	87.87	100.00	AAK34199
LAIBJINO_68	63101	61623	IMPDH	0.0	inosine-5'-monophosphate dehydrogenase	87.63	100.00	ADE32434
LAIBJINO_83	29632	28331	Eno	0.0	enolase	86.21	99.77	ABP90468
LAIBJINO_68	48365	46473	gidA	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	85.89	98.90	ABP91129
LAIBJINO_12	6170	7879	PGM	0.0	phosphoglucomutase	83.89	99.65	ACH87041
LAIBJINO_52	55048	54038	pdh	0.0	pyruvate dehydrogenase	83.09	99.70	ABP91006
LAIBJINO_75	7441	6080	mnmE	0.0	central tRNA-modifying GTPase	82.24	99.56	ABP90420
LAIBJINO_52	4715	6607	PepO	0.0	endopeptidase	80.03	100.00	ABF32980
LAIBJINO_83	44062	43172	bglB	9.78e-180	putative phospho--glucosidase	88.89	99.66	AAK33487
LAIBJINO_10	47030	47965	SP_0676	1.90e-169	transcription facot	81.73	96.89	AAK74821
LAIBJINO_12	8903	8046	metF	1.13e-166	methionine biosynthesis enzymes	86.36	99.31	AAK74739
LAIBJINO_55	24480	23776	covR	1.26e-131	responder protein	84.68	100.00	AAK71319
LAIBJINO_58	29872	29201	rr01	5.07e-127	response regulator	84.38	99.56	CAB54566
LAIBJINO_55	24480	23776	walR	9.06e-122	DNA-binding response regulator	80.85	100.00	ANC99504
LAIBJINO_7	16151	16837	CovR	1.40e-119	serves to repress GAS virulence factor-encoding genes	80.79	100.00	ACE75886
LAIBJINO_12	2217	1567	CiaR	1.81e-118	two-component response regulator	86.17	96.88	AAK74935
LAIBJINO_12	2217	1567	ciaR	9.34e-116	two component system response regulator	83.87	96.02	AIK75708
LAIBJINO_50	643	248	SpxA2	4.31e-76	transcriptional regulator	90.91	100.00	ERL21461
LAIBJINO_75	18799	19200	SpxA1	1.07e-67	transcriptional regulator	80.60	100.00	ERL19273
LAIBJINO_59	25408	25121	spr0479	3.36e-49	essential gene	86.46	98.97	AAK99283
LAIBJINO_56	61636	61890	spr1327	1.07e-45	essential gene	95.29	100.00	AAL00131
LAIBJINO_68	14721	14984	spr0175	4.30e-42	pathogenitcity related	84.09	100.00	AAK98979
LAIBJINO_68	15548	15814	spr0177	1.11e-33	essential gene	84.27	88.12	AAK98981
LAIBJINO_34	3800	4300	RopE (M5005_Spy_1611)	3.53e-76	probable DNA-directed RNA polymerase subunit delta	80.84	87.43	AAK34603
LAIBJINO_23	155230	157527	PFL (B9H01_RS01125)	0.0	formate C-acetyltransferase	83.07	98.08	MYN69560
LAIBJINO_52	19178	20197	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
LAIBJINO_3	0.0	1.0	0.0
LAIBJINO_4	0.0	1.0	0.0
LAIBJINO_5	0.0	1.0	0.0
LAIBJINO_6	0.0	1.0	0.0
LAIBJINO_7	0.0	1.0	0.0
LAIBJINO_8	0.0	1.0	0.0
LAIBJINO_9	0.0	1.0	0.0
LAIBJINO_10	0.0	1.0	0.0
LAIBJINO_11	0.0	1.0	0.0
LAIBJINO_12	0.0	1.0	0.0
LAIBJINO_13	0.0	1.0	0.0
LAIBJINO_14	0.0	1.0	0.0
LAIBJINO_15	0.0	1.0	0.0
LAIBJINO_16	0.0	1.0	0.0
LAIBJINO_17	0.0	1.0	0.0
LAIBJINO_18	0.0	1.0	0.0
LAIBJINO_23	0.0	1.0	0.0
LAIBJINO_24	0.0	1.0	0.0
LAIBJINO_26	0.0	1.0	0.0
LAIBJINO_27	0.0	1.0	0.0
LAIBJINO_31	0.0	1.0	0.0
LAIBJINO_34	0.0	1.0	0.0
LAIBJINO_44	0.0	1.0	0.0
LAIBJINO_45	0.0	1.0	0.0
LAIBJINO_47	1.0	0.0	1.0
LAIBJINO_49	0.0	1.0	0.0
LAIBJINO_50	0.0	1.0	0.0
LAIBJINO_51	0.0	1.0	0.0
LAIBJINO_52	0.0	1.0	0.0
LAIBJINO_53	0.0	1.0	0.0
LAIBJINO_54	0.0	1.0	0.0
LAIBJINO_55	0.0	1.0	0.0
LAIBJINO_56	0.0	1.0	0.0
LAIBJINO_57	0.0	1.0	0.0
LAIBJINO_58	0.0	1.0	0.0
LAIBJINO_59	0.0	1.0	0.0
LAIBJINO_60	0.0	1.0	0.0
LAIBJINO_61	0.0	1.0	0.0
LAIBJINO_62	0.0	1.0	0.0
LAIBJINO_63	0.0	1.0	0.0
LAIBJINO_65	0.0	1.0	0.0
LAIBJINO_66	0.0	1.0	0.0
LAIBJINO_67	0.0	1.0	0.0
LAIBJINO_68	0.0	1.0	0.0
LAIBJINO_71	1.0	0.0	1.0
LAIBJINO_75	0.0	1.0	0.0
LAIBJINO_83	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