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.
JJBBKLLN_12	676684	677853	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
JJBBKLLN_1	590811	591149	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
JJBBKLLN_1	590494	590811	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
JJBBKLLN_12	454334	455536	blt	ARO:3003006	blt	100.00	100.00	L32599.1
JJBBKLLN_12	435973	436827	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
JJBBKLLN_22	279934	280854	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
JJBBKLLN_22	266600	268039	lmrB	ARO:3002813	lmrB	99.79	100.42	JYFL01000006.1
JJBBKLLN_22	216943	217536	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
JJBBKLLN_26	47355	48998	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
JJBBKLLN_23	27249	29819	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.
JJBBKLLN_12	435973	436827	aadK	Streptomycin	100.00	100.00	M26879
JJBBKLLN_22	279934	280854	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
JJBBKLLN_25	90371	91747	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.
JJBBKLLN_12	435973	436824	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
JJBBKLLN_22	279937	280854	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
JJBBKLLN_25	87853	88371	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
JJBBKLLN_25	90374	91747	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
JJBBKLLN_26	47358	48998	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
JJBBKLLN_24	54786	57380	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.
JJBBKLLN_21	519092	520234	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
JJBBKLLN_21	520717	521898	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
JJBBKLLN_21	520253	520702	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
JJBBKLLN_24	8128	9891	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
JJBBKLLN_21	112782	113567	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
JJBBKLLN_21	108946	109884	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
JJBBKLLN_21	111560	112756	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
JJBBKLLN_21	109912	111531	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
JJBBKLLN_21	101790	108926	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
JJBBKLLN_12	876564	877205	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
JJBBKLLN_27	31638	32774	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
JJBBKLLN_3	4231	5100	pdxS	1.10e-151	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
JJBBKLLN_1	277547	276771	CodY	8.24e-125	nutrient-responsive regulator	81.08	100.00	ACJ80679
JJBBKLLN_21	367505	368074	ClpP	5.52e-99	part of proteolytic complex	81.05	97.44	BAB94595
JJBBKLLN_1	739972	739580	spxA1	2.44e-69	redox-responsive transcription factor	83.21	100.00	AAF21893
JJBBKLLN_2	34575	34333	SpoVG	2.72e-38	RNA-binding protein	80.25	79.41	AAT02994
JJBBKLLN_26	1883	2080	CspA	3.37e-32	cold shock protein	90.91	100.00	CAA62903
JJBBKLLN_12	864602	864408	CspD	5.69e-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
JJBBKLLN_1	0.0	1.0	0.0
JJBBKLLN_2	0.0	1.0	0.0
JJBBKLLN_3	0.0	1.0	0.0
JJBBKLLN_4	0.0	1.0	0.0
JJBBKLLN_5	0.0	1.0	0.0
JJBBKLLN_12	0.0	1.0	0.0
JJBBKLLN_21	0.0	1.0	0.0
JJBBKLLN_22	0.0	1.0	0.0
JJBBKLLN_23	0.0	1.0	0.0
JJBBKLLN_24	0.0	1.0	0.0
JJBBKLLN_25	0.0	1.0	0.0
JJBBKLLN_26	0.0	1.0	0.0
JJBBKLLN_27	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
JJBBKLLN_1	620988	647096	False	Myoviridae	VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667
JJBBKLLN_12	475087	505464	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)