Probiotic potential risk score

ARGs (CARD)	VFs (VFDB)	PGs (PHI-base)	PPRS
0	15	25	29.15

PPRS is classified as low-risk (≤4), medium-risk (4-6), and high-risk (≥6).

Antibiotic resistance genes

Comprehensive Antibiotic Resistance Database (CARD)

ARO accession	ARO name	Identity	Coverage	CARD name	Accession no.
No hit found

RGI v6.0.0 (Database: CARD Variants v4.0.0, Jul. 2022 release)

ResFinder

Resistance gene	Identity	Coverage	Phenotype	Accession no.
mef(A)	100.00	100.00	Macrolide resistance	U83667
msr(D)	100.00	100.00	Macrolide, Lincosamide and Streptogramin B resistance	AF274302

ResFinder v4.0 (Database: resfinder_db, May 2022 release)

AMRFinderPlus

Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
mef(A)	macrolide efflux MFS transporter Mef(A)	EXACTX	100.00	100.00	WP_000417519.1
msr(D)	ABC-F type ribosomal protection protein Msr(D)	EXACTX	100.00	100.00	WP_000420313.1

AMRFinderPlus v3.10.42 (Database: Oct. 2022 release)

Virulence factors

Virulence Factor Database (VFDB)

Gene ID	Gene name	Identity	Coverage	e-value	VF name	VF category	Accession no.
VFG006011	STER_RS05320	95.96	100.00	0.0	Capsule	Immune modulation	WP_011681177
VFG005964	STER_RS05300	94.66	99.85	0.0	Capsule	Immune modulation	WP_011681173
VFG005556	tig/ropA	94.39	100.00	0.0	Trigger factor	Stress survival	WP_011680653
VFG006000	STER_RS05315	94.26	100.00	0.0	Capsule	Immune modulation	WP_011681176
VFG006089	rfbD	94.25	100.00	0.0	Capsule	Immune modulation	WP_011681446
VFG006022	rfbB	93.89	100.00	0.0	Capsule	Immune modulation	WP_002947383
VFG005359	plr/gapA	93.87	100.10	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	WP_002899102
VFG005976	STER_RS05305	93.66	100.00	0.0	Capsule	Immune modulation	WP_011681174
VFG006046	STR_RS05880	91.92	100.00	0.0	Capsule	Immune modulation	WP_011226149
VFG005323	cbpD	91.19	100.00	0.0	Autolysin	Exoenzyme	WP_011225268
VFG006041	rfbA	91.03	100.00	0.0	Capsule	Immune modulation	WP_011681286
VFG005190	fbp54	90.42	99.94	0.0	FBPs	Adherence	WP_002952952
VFG005579	eno	90.19	100.00	0.0	Streptococcal enolase	Exoenzyme	WP_000022815
VFG006047	STU_RS14640	88.49	99.71	0.0	Capsule	Immune modulation	WP_011226047
VFG005382	srtA	84.29	99.74	0.0	Sortase A	Exoenzyme	WP_011681303

BLASTN v2.8.1+ (Database: VFDB, Jun. 2022 release)

VirulenceFinder

Database	Virulence factor	Identity	Coverage	Protein function	Accession no.
No hit found

VirulenceFinder v2.0.3 (Database: virulencefinder_db, Dec. 2022 release)

Pathogenic genes

PHI-base

Protein ID	Gene name	Identity	Coverage	e-value	Function	Gene ID
Q1JLQ2	MntE	95.53	99.44	0.0	Manganese Homeostasis	ABF32167
Q97S31	metE	92.39	99.87	0.0	Methionine biosynthesis enzymes	AAK74738
Q1J943	prsA2	92.19	98.46	0.0	Ribose-phosphate pyrophosphokinase	ABF36968
Q8DPC2	potA	89.84	99.48	0.0	ABC transporter ATP-binding protein - spermidine/putrescine transport	AAL00050
Q97S30	metF	88.11	98.96	0.0	Methionine biosynthesis enzymes	AAK74739
P0C0B9	bglB	87.88	99.33	0.0	Putative phospho--glucosidase	AAK33487
D5AF41	IMPDH	87.63	99.80	0.0	Inosine-5'-monophosphate dehydrogenase	ADE32434
A4VWH9	Eno	86.44	99.54	0.0	Enolase	ABP90468
A4VYE0	gidA	85.42	98.75	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	ABP91129
P0A452	recA	85.19	98.46	0.0	DNA recombination and repair	AAL00560
B5TQV9	PGM	84.94	99.48	0.0	phosphoglucomutase	ACH87041
Q97RW0	SP_0676	83.11	93.50	0.0	Transcription facot	AAK74821
A4VY17	pdh	82.79	99.41	0.0	Pyruvate dehydrogenase	ABP91006
A4VWD1	mnmE	82.46	99.34	0.0	Central tRNA-modifying GTPase	ABP90420
A4VUT4	NisR	93.39	99.56	5.13e-159	Two-component signal-transduction systems	ABP89873
A4VUT3	NisK	91.06	99.58	2.96e-158	Two-component signal-transduction systems	ABP89872
Q93MY4	covR	85.53	99.58	4.27e-151	Responder protein	AAK71319
Q9S1K2	rr01	84.82	99.12	2.05e-145	Response regulator	CAB54566
P0A4H7	CiaR	87.00	99.11	4.98e-143	Two-component response regulator	AAK74935
B3VA60	CovR	81.66	99.56	1.32e-137	serves to repress GAS virulence factor-encoding genes	ACE75886
U2W9V3	SpxA2	91.67	99.25	1.76e-88	Transcriptional regulator	ERL21461
Q8DQV4	spr0479	84.38	97.96	3.77e-57	essential gene	AAK99283
Q8DP67	spr1327	92.94	98.84	1.74e-54	essential gene	AAL00131
Q8CZ89	spr0175	85.23	98.88	4.05e-52	pathogenitcity related	AAK98979
Q8DRE1	spr0177	83.15	87.25	1.56e-50	essential gene	AAK98981
P67331	spr0084	92.16	62.01	1.79e-145	pathogenitcity related	AAK98888

BLASTP v2.8.1+ (Database: PHI-base v4.14, Nov. 2022 release)

Plasmid

PlasmidFinder

Plasmid	Identity	Query / Template	Accession no.
No hit found

PlasmidFinder 2.0.1 (Database: plasmidfinder_db, Jan. 2023 release)

Prophage

Phigaro

Scaffold	Begin	End	Transposable	Taxonomy	pVOGs
No hit found

Phigaro v2.3.0 (Database: Aug. 2017 release)