safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
14	10	7	18.57

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.
DLHIPEBN_1	1400675	1402318	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
DLHIPEBN_1	1323368	1325938	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
DLHIPEBN_3	488197	489051	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
DLHIPEBN_3	469488	470690	blt	ARO:3003006	blt	100.00	100.00	L32599.1
DLHIPEBN_2	425549	425866	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
DLHIPEBN_2	425211	425549	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
DLHIPEBN_3	247161	248330	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
DLHIPEBN_5	162848	163441	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
DLHIPEBN_5	112345	113784	lmrB	ARO:3002813	lmrB	99.79	100.42	JYFL01000006.1
DLHIPEBN_5	99530	100450	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
DLHIPEBN_8	1417	2277	TEM-116	ARO:3000979	TEM-116	100.00	100.00	U36911.1

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.
DLHIPEBN_3	488197	489051	aadK	Streptomycin	100.00	100.00	M26879
DLHIPEBN_8	1417	2277	blaTEM-116	Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin	100.00	100.00	AY425988
DLHIPEBN_5	99530	100450	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
DLHIPEBN_1	954967	956343	tet(L)	Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline	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.
DLHIPEBN_3	488200	489051	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
DLHIPEBN_8	1417	2274	blaTEM-116	broad-spectrum class A beta-lactamase TEM-116	ALLELEX	100.00	100.00	WP_000027050.1
DLHIPEBN_5	99530	100447	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
DLHIPEBN_1	958343	958861	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
DLHIPEBN_1	954967	956340	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
DLHIPEBN_1	1400678	1402318	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
DLHIPEBN_4	195372	197966	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.
DLHIPEBN_1	519305	520447	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
DLHIPEBN_1	520930	522111	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
DLHIPEBN_1	520466	520915	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
DLHIPEBN_4	242861	244624	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
DLHIPEBN_1	112969	113754	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
DLHIPEBN_1	109133	110071	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
DLHIPEBN_1	111747	112943	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
DLHIPEBN_1	110099	111718	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
DLHIPEBN_3	47814	48455	hlyIII	Hemolysin III	Exotoxin	100.00	100.00	NP_390062
DLHIPEBN_1	101977	109113	dhbF	Bacillibactin	Nutritional/Metabolic factor	99.99	100.00	NP_391076

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
DLHIPEBN_7	27995	26859	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
DLHIPEBN_8	302	1102	URA3	8.45e-179	orotidine 5'-phosphate decarboxylase	99.62	100.00	AAA34824
DLHIPEBN_9	4253	5122	pdxS	1.11e-151	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
DLHIPEBN_2	738813	739589	CodY	8.25e-125	nutrient-responsive regulator	81.08	100.00	ACJ80679
DLHIPEBN_1	367693	368262	ClpP	8.97e-99	part of proteolytic complex	81.05	97.44	BAB94595
DLHIPEBN_2	276388	276780	spxA1	2.44e-69	redox-responsive transcription factor	83.21	100.00	AAF21893
DLHIPEBN_3	60417	60611	CspD	5.70e-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.
DLHIPEBN_8	2692	2822	ColRNAI	131 / 130	87.02	DQ298019

PlasmidFinder v 2.1.6 (Database: plasmidfinder_db v 2.2.0 , Nov. 2024 release)

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
DLHIPEBN_1	0.0	1.0	0.0
DLHIPEBN_2	0.0	1.0	0.0
DLHIPEBN_3	0.0	1.0	0.0
DLHIPEBN_4	0.0	1.0	0.0
DLHIPEBN_5	0.0	1.0	0.0
DLHIPEBN_6	0.0	1.0	0.0
DLHIPEBN_7	0.0	1.0	0.0
DLHIPEBN_8	0.0	1.0	0.0
DLHIPEBN_9	0.0	1.0	0.0
DLHIPEBN_10	0.0	1.0	0.0
DLHIPEBN_11	0.0	1.0	0.0
DLHIPEBN_12	0.0	1.0	0.0
DLHIPEBN_13	1.0	0.0	1.0
DLHIPEBN_14	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
DLHIPEBN_2	369264	395372	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
DLHIPEBN_3	419551	449803	False	Myoviridae	VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG10055, VOG4870, VOG4589, VOG0749, VOG4685, VOG4688, VOG4773, VOG10227, VOG0796, VOG4673, VOG9587, VOG4693, VOG0189, VOG11060, VOG1309, VOG4600

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