safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
13	10	4	16.88

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.
DPKMGDNG_1	3510722	3511576	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
DPKMGDNG_1	3492017	3493219	blt	ARO:3003006	blt	100.00	100.00	L32599.1
DPKMGDNG_1	3269707	3270876	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
DPKMGDNG_1	2286261	2286578	ykkD	ARO:3003064	ykkD	99.05	100.00	AL009126.1
DPKMGDNG_1	2285923	2286261	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
DPKMGDNG_1	1827236	1829806	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
DPKMGDNG_1	1537266	1538909	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
DPKMGDNG_1	1291780	1292373	tmrB	ARO:3003059	tmrB	98.48	100.00	AL009126.3
DPKMGDNG_1	1241253	1242686	lmrB	ARO:3002813	lmrB	99.37	100.00	JYFL01000006.1
DPKMGDNG_1	1228438	1229358	mphK	ARO:3004541	mphK	97.71	100.00	CP010314.1

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.
DPKMGDNG_1	3510722	3511576	aadK	Streptomycin	100.00	100.00	M26879
DPKMGDNG_1	926449	927825	tet(L)	Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline	100.00	100.00	X08034
DPKMGDNG_1	1228438	1229358	mph(K)	Spiramycin, Telithromycin	97.72	100.00	NC_000964

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
DPKMGDNG_1	3510725	3511576	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
DPKMGDNG_1	926452	927825	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
DPKMGDNG_1	1537269	1538909	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
DPKMGDNG_1	1228438	1229355	mphK	macrolide 2'-phosphotransferase MphK	BLASTX	97.71	100.00	WP_003246254.1
DPKMGDNG_1	923990	924508	satA	streptothricin N-acetyltransferase SatA	BLASTX	90.75	100.00	WP_003242546.1
DPKMGDNG_1	2960783	2963377	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.
DPKMGDNG_1	437449	438591	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
DPKMGDNG_1	439074	440255	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
DPKMGDNG_1	438610	439059	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
DPKMGDNG_1	2914126	2915889	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
DPKMGDNG_1	31111	31896	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
DPKMGDNG_1	3070332	3070973	hlyIII	Hemolysin III	Exotoxin	100.00	100.00	NP_390062
DPKMGDNG_1	27275	28213	dhbB	Bacillibactin	Nutritional/Metabolic factor	99.89	100.00	NP_391077
DPKMGDNG_1	29889	31085	dhbC	Bacillibactin	Nutritional/Metabolic factor	99.67	100.00	NP_391079
DPKMGDNG_1	20119	27255	dhbF	Bacillibactin	Nutritional/Metabolic factor	99.58	100.00	NP_391076
DPKMGDNG_1	28241	29860	dhbE	Bacillibactin	Nutritional/Metabolic factor	99.57	100.00	NP_391078

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
DPKMGDNG_1	1085469	1086605	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
DPKMGDNG_1	971657	972526	pdxS	3.04e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
DPKMGDNG_1	2599554	2600330	CodY	3.32e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
DPKMGDNG_1	285836	286405	ClpP	2.46e-98	part of proteolytic complex	81.05	97.44	BAB94595

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
DPKMGDNG_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
DPKMGDNG_1	2230014	2256122	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
DPKMGDNG_1	3442089	3472333	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
DPKMGDNG_1	3568887	3593343	False	Siphoviridae	VOG1561, VOG4574, VOG0641, VOG4705, VOG3390, VOG4612, VOG4660, VOG4772, VOG0801, VOG5910, VOG0541, VOG4586, VOG0704, VOG9583, VOG1266, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG3607, VOG1886, VOG4581, VOG0713, VOG4841, VOG0531

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