Probiotic potential risk score

ARGs (CARD)	VFs (VFDB)	PGs (PHI-base)	PPRS
0	7	18	19.31

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.
VFG005556	tig/ropA	94.94	100.00	0.0	Trigger factor	Stress survival	WP_011680653
VFG006000	STER_RS05315	94.26	100.00	0.0	Capsule	Immune modulation	WP_011681176
VFG006011	STER_RS05320	93.98	100.00	0.0	Capsule	Immune modulation	WP_011681177
VFG005191	fbp54	91.33	99.94	0.0	FBPs	Adherence	WP_011681101
VFG005323	cbpD	90.83	100.00	0.0	Autolysin	Exoenzyme	WP_011225268
VFG006041	rfbA	90.69	100.00	0.0	Capsule	Immune modulation	WP_011681286
VFG005579	eno	90.50	100.00	0.0	Streptococcal enolase	Exoenzyme	WP_000022815
VFG019077	plr/gapA	92.77	67.06	0.0	Streptococcal plasmin receptor/GAPDH	Adherence	WP_000260685

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
P67331	spr0084	92.26	98.18	0.0	pathogenitcity related	AAK98888
Q1J943	prsA2	92.19	98.46	0.0	Ribose-phosphate pyrophosphokinase	ABF36968
Q99Z66	ptsI	89.95	99.83	0.0	Phosphoenolpyruvate-protein phosphotransferase	AAK34199
D5AF41	IMPDH	87.83	99.80	0.0	Inosine-5'-monophosphate dehydrogenase	ADE32434
Q97S30	metF	87.76	98.96	0.0	Methionine biosynthesis enzymes	AAK74739
A4VWH9	Eno	86.44	99.54	0.0	Enolase	ABP90468
A4VYE0	gidA	85.58	98.75	0.0	tRNA uridine 5-carboxymethylaminomethyl modification enzyme	ABP91129
B5TQV9	PGM	84.76	99.48	0.0	phosphoglucomutase	ACH87041
Q97RW0	SP_0676	83.44	93.50	0.0	Transcription facot	AAK74821
A4VY17	pdh	83.09	99.41	0.0	Pyruvate dehydrogenase	ABP91006
Q9S1K2	rr01	83.93	99.12	8.02e-145	Response regulator	CAB54566
B3VA60	CovR	81.66	99.56	7.32e-138	serves to repress GAS virulence factor-encoding genes	ACE75886
U2W9V3	SpxA2	91.67	99.25	9.80e-89	Transcriptional regulator	ERL21461
U2UML5	SpxA1	82.84	99.26	9.03e-83	Transcriptional regulator	ERL19273
Q8DQV4	spr0479	85.42	97.96	3.69e-58	essential gene	AAK99283
Q8CZ89	spr0175	85.23	98.88	2.25e-52	pathogenitcity related	AAK98979
Q8DRE1	spr0177	83.15	87.25	8.64e-51	essential gene	AAK98981
Q04M32	ilvC (SPD_0406)	97.35	99.71	0.0	Ketol-acid reductoisomerase (NADP(+))	ABJ55451
Q8DYL6	uvrB	87.64	67.02	0.0	Excinuclease ABC, B subunit	AE014259_2
Q1JLQ2	MntE	95.67	64.17	7.20e-167	Manganese Homeostasis	ABF32167

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

Plasmid

PlasmidFinder

Plasmid	Identity	Query / Template	Accession no.
repUS43	100.00	1206 / 1206	CP003584

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)