safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
13	10	8	18.25

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

Comprehensive Antibiotic Resistance Database (CARD)

Query ID	Begin	End	ARO name	ARO accession	CARD name	Identity	Coverage	Accession no.
FAJPCNOF_12	659159	660328	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
FAJPCNOF_12	436731	437933	blt	ARO:3003006	blt	100.00	100.00	L32599.1
FAJPCNOF_11	426148	426465	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
FAJPCNOF_11	425810	426148	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
FAJPCNOF_12	418370	419224	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
FAJPCNOF_2	47452	49095	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
FAJPCNOF_3	44871	45464	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
FAJPCNOF_19	42306	43226	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
FAJPCNOF_19	28972	30411	lmrB	ARO:3002813	lmrB	99.79	100.42	JYFL01000006.1
FAJPCNOF_15	27448	30018	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3

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.
FAJPCNOF_12	418370	419224	aadK	Streptomycin	100.00	100.00	M26879
FAJPCNOF_19	42306	43226	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
FAJPCNOF_14	36358	37734	tet(L)	Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline	100.00	100.00	X08034

ResFinder v4.6.0 (Database: resfinder_db, Aug. 2024 release)

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
FAJPCNOF_12	418370	419221	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
FAJPCNOF_19	42309	43226	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
FAJPCNOF_14	39734	40252	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
FAJPCNOF_14	36358	37731	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
FAJPCNOF_2	47455	49095	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
FAJPCNOF_18	107751	110345	rphC	rifamycin-inactivating phosphotransferase RphC	BLASTX	81.15	99.88	WP_087347987.1

AMRFinderPlus v4.0.3 (Database: Oct. 2024 release)

Virulence Factor Database (VFDB)

Query ID	qstart	qend	Gene name	VF name	VF category	Identity	Coverage	Accession no.
FAJPCNOF_17	157360	158502	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
FAJPCNOF_17	155696	156877	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
FAJPCNOF_17	156892	157341	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
FAJPCNOF_18	155240	157003	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
FAJPCNOF_13	112990	113775	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
FAJPCNOF_13	109154	110092	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
FAJPCNOF_13	111768	112964	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
FAJPCNOF_13	110120	111739	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
FAJPCNOF_13	101998	109134	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
FAJPCNOF_12	859033	859674	hlyIII	Hemolysin III	Exotoxin	100.00	100.00	NP_390062

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)

PHI-base

Query ID	qstart	qend	Gene name	e-value	Function	Identity	Coverage	Gene ID
FAJPCNOF_4	28074	26938	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
FAJPCNOF_6	4330	5199	pdxS	1.12e-151	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
FAJPCNOF_11	739412	740188	CodY	8.26e-125	nutrient-responsive regulator	81.08	100.00	ACJ80679
FAJPCNOF_13	367714	368283	ClpP	2.93e-99	part of proteolytic complex	81.05	97.44	BAB94595
FAJPCNOF_11	276987	277379	spxA1	2.45e-69	redox-responsive transcription factor	83.21	100.00	AAF21893
FAJPCNOF_5	20597	20839	SpoVG	7.53e-39	RNA-binding protein	81.48	79.41	AAT02994
FAJPCNOF_2	1980	2177	CspA	3.38e-32	cold shock protein	90.91	100.00	CAA62903
FAJPCNOF_12	847071	846877	CspD	5.58e-28	cold shock protein	81.54	98.48	CAC99957

BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)

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
FAJPCNOF_1	1.0	0.0	1.0
FAJPCNOF_2	0.0	1.0	0.0
FAJPCNOF_3	0.0	1.0	0.0
FAJPCNOF_4	0.0	1.0	0.0
FAJPCNOF_5	0.0	1.0	0.0
FAJPCNOF_6	0.0	1.0	0.0
FAJPCNOF_11	0.0	1.0	0.0
FAJPCNOF_12	0.0	1.0	0.0
FAJPCNOF_13	0.0	1.0	0.0
FAJPCNOF_14	0.0	1.0	0.0
FAJPCNOF_15	0.0	1.0	0.0
FAJPCNOF_16	0.0	1.0	0.0
FAJPCNOF_17	0.0	1.0	0.0
FAJPCNOF_18	0.0	1.0	0.0
FAJPCNOF_19	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
FAJPCNOF_1	30934	44032	False	Unknown	VOG0052, VOG11080, VOG2352, VOG0397, VOG1198, VOG4561, VOG4714, VOG2352, VOG3851, VOG2725
FAJPCNOF_1	72087	82924	False	Siphoviridae	VOG0221, VOG4581, VOG4544, VOG4556, VOG4568, VOG4553, VOG0204, VOG4589, VOG0539, VOG0704
FAJPCNOF_11	369863	395971	False	Myoviridae	VOG4602, VOG9667, VOG3490, VOG0189, VOG4861, VOG5447, VOG0796, VOG10227, VOG4773, VOG4685, VOG0749, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718, VOG4705
FAJPCNOF_12	457485	487862	False	Myoviridae	VOG4600, VOG1309, VOG11060, VOG0189, VOG4693, VOG9587, VOG4673, VOG0796, VOG10227, VOG4773, VOG4688, VOG4685, VOG0749, VOG4589, VOG4870, VOG10055, VOG3890, VOG3891, VOG3892, VOG6163, VOG4865, VOG4885, VOG3894, VOG4550, VOG4691, VOG4862, VOG7718

Phigaro v2.4.0 (Database: Jan. 2024 release)