safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
18	10	4	20.98

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.
DHJILCDG_1	3004314	3005168	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
DHJILCDG_1	2985605	2986807	blt	ARO:3003006	blt	100.00	100.00	L32599.1
DHJILCDG_1	2763288	2764457	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
DHJILCDG_1	1645488	1645805	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
DHJILCDG_1	1645150	1645488	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
DHJILCDG_1	1525678	1526868	tet(C)	ARO:3000167	tet(C)	100.00	100.00	AY043299.1
DHJILCDG_1	1524145	1524882	ErmB	ARO:3000375	ErmB	98.78	98.79	AF242872.1
DHJILCDG_1	1522805	1523665	TEM-1	ARO:3000873	TEM-1	100.00	100.00	AL513383.1
DHJILCDG_1	1261616	1262353	ErmB	ARO:3000375	ErmB	98.78	98.79	AF242872.1
DHJILCDG_1	1260276	1261136	TEM-1	ARO:3000873	TEM-1	100.00	100.00	AL513383.1
DHJILCDG_1	916778	919348	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
DHJILCDG_1	604736	606379	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
DHJILCDG_1	339156	339749	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
DHJILCDG_1	288653	290086	lmrB	ARO:3002813	lmrB	100.00	100.00	JYFL01000006.1
DHJILCDG_1	275838	276758	mphK	ARO:3004541	mphK	100.00	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.
DHJILCDG_1	3004314	3005168	aadK	Streptomycin	100.00	100.00	M26879
DHJILCDG_1	1260276	1261136	blaTEM-1A	Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin	100.00	100.00	HM749966
DHJILCDG_1	1261616	1262353	erm(B)	Erythromycin, Lincomycin, Clindamycin, Quinupristin, Pristinamycin IA, Virginiamycin S	100.00	100.00	U18931
DHJILCDG_1	275838	276758	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
DHJILCDG_1	4456313	4457689	tet(L)	Doxycycline, Tetracycline, Minocycline, Tigecycline, Doxycycline, Tetracycline	100.00	100.00	X08034
DHJILCDG_1	1525678	1526868	tet(C)	Doxycycline, Tetracycline	99.92	100.00	AF055345

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
DHJILCDG_1	3004317	3005168	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
DHJILCDG_1	1260279	1261136	blaTEM-1	broad-spectrum class A beta-lactamase TEM-1	ALLELEX	100.00	100.00	WP_000027057.1
DHJILCDG_1	1522808	1523665	blaTEM-1	broad-spectrum class A beta-lactamase TEM-1	ALLELEX	100.00	100.00	WP_000027057.1
DHJILCDG_1	1261616	1262350	erm(B)	23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B)	EXACTX	100.00	100.00	WP_002292226.1
DHJILCDG_1	1524145	1524879	erm(B)	23S rRNA (adenine(2058)-N(6))-methyltransferase Erm(B)	EXACTX	100.00	100.00	WP_002292226.1
DHJILCDG_1	275838	276755	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
DHJILCDG_1	4453795	4454313	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
DHJILCDG_1	1525678	1526865	tet(C)	tetracycline efflux MFS transporter Tet(C)	EXACTX	100.00	100.00	WP_001297013.1
DHJILCDG_1	4456316	4457689	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
DHJILCDG_1	604739	606379	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
DHJILCDG_1	2319967	2322561	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.
DHJILCDG_1	3966453	3967595	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
DHJILCDG_1	3968078	3969259	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
DHJILCDG_1	3967614	3968063	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
DHJILCDG_1	2273309	2275072	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
DHJILCDG_1	3560143	3560928	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
DHJILCDG_1	3556307	3557245	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
DHJILCDG_1	3558921	3560117	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
DHJILCDG_1	3557273	3558892	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
DHJILCDG_1	3549151	3556287	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
DHJILCDG_1	2563934	2564575	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
DHJILCDG_1	132882	134018	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
DHJILCDG_1	19074	19943	pdxS	3.33e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
DHJILCDG_1	1958752	1959528	CodY	3.64e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
DHJILCDG_1	3814866	3815435	ClpP	2.70e-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.
DHJILCDG_1	1259731	1259861	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
DHJILCDG_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
DHJILCDG_1	1589203	1615311	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
DHJILCDG_1	2935677	2965921	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)