safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
15	10	4	18.47

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.
KKODADBI_1	3779447	3779785	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
KKODADBI_1	3779130	3779447	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
KKODADBI_1	2660478	2661647	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
KKODADBI_1	2438132	2439334	blt	ARO:3003006	blt	100.00	100.00	L32599.1
KKODADBI_1	2419771	2420625	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
KKODADBI_1	674788	675708	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
KKODADBI_1	661460	662893	lmrB	ARO:3002813	lmrB	100.00	100.00	JYFL01000006.1
KKODADBI_1	611796	612389	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
KKODADBI_1	345164	346807	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
KKODADBI_1	32185	34755	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.
KKODADBI_1	2419771	2420625	aadK	Streptomycin	100.00	100.00	M26879
KKODADBI_1	674788	675708	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
KKODADBI_1	967240	968616	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.
KKODADBI_1	2419771	2420622	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
KKODADBI_1	674791	675708	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
KKODADBI_1	970616	971134	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
KKODADBI_1	967240	968613	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
KKODADBI_2	2193	3566	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_001574277.1
KKODADBI_2	6823	8196	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_001574277.1
KKODADBI_1	345164	346804	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
KKODADBI_1	3102369	3104963	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.
KKODADBI_1	1457345	1458487	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
KKODADBI_1	1455681	1456862	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
KKODADBI_1	1456877	1457326	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
KKODADBI_1	3149858	3151621	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
KKODADBI_1	1864006	1864791	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
KKODADBI_1	1867689	1868627	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
KKODADBI_1	1864817	1866013	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
KKODADBI_1	1866042	1867661	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
KKODADBI_1	1868647	1875783	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
KKODADBI_1	2860359	2861000	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
KKODADBI_1	813670	812534	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
KKODADBI_1	921623	920754	pdxS	3.12e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
KKODADBI_1	3466180	3465404	CodY	3.41e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
KKODADBI_1	1610061	1609492	ClpP	2.53e-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.
KKODADBI_2	5619	6623	rep22	1005 / 1005	100.00	AF503772

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

PlasmidHunter

Query ID	Prediction	Chromosome	Plasmid
KKODADBI_1	0.0	1.0	0.0
KKODADBI_2	1.0	0.0	1.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
KKODADBI_1	2458885	2489262	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
KKODADBI_1	3809624	3835732	False	Myoviridae	VOG4705, VOG7718, VOG4862, VOG4691, VOG4550, VOG3894, VOG4885, VOG4865, VOG6163, VOG3892, VOG3891, VOG3890, VOG0749, VOG4685, VOG4773, VOG10227, VOG0796, VOG5447, VOG4861, VOG0189, VOG3490, VOG9667

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