safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
14	10	4	17.66

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.
HBOBGIPD_1	2739917	2740771	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
HBOBGIPD_1	2721208	2722410	blt	ARO:3003006	blt	100.00	100.00	L32599.1
HBOBGIPD_1	2498891	2500060	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
HBOBGIPD_1	1381094	1381411	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
HBOBGIPD_1	1380756	1381094	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
HBOBGIPD_1	921018	923588	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
HBOBGIPD_1	608979	610622	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
HBOBGIPD_1	343400	343993	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
HBOBGIPD_1	328971	329621	Streptococcus suis chloramphenicol acetyltransferase	ARO:3004455	Ssui_ACT_CHL	94.91	100.00	AB080798.1
HBOBGIPD_1	288252	289685	lmrB	ARO:3002813	lmrB	100.00	100.00	JYFL01000006.1
HBOBGIPD_1	275437	276357	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.
HBOBGIPD_1	2739917	2740771	aadK	Streptomycin	100.00	100.00	M26879
HBOBGIPD_1	328971	329621	cat(pC194)	Chloramphenicol	100.00	100.00	NC_002013
HBOBGIPD_1	275437	276357	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
HBOBGIPD_1	4191917	4193293	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.
HBOBGIPD_1	2739920	2740771	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
HBOBGIPD_1	328971	329618	catA	type A-9 chloramphenicol O-acetyltransferase	EXACTX	100.00	100.00	WP_001010387.1
HBOBGIPD_1	275437	276354	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
HBOBGIPD_1	4189399	4189917	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
HBOBGIPD_1	4191920	4193293	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
HBOBGIPD_1	608982	610622	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
HBOBGIPD_1	2055574	2058168	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.
HBOBGIPD_1	3702056	3703198	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
HBOBGIPD_1	3703681	3704862	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
HBOBGIPD_1	3703217	3703666	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
HBOBGIPD_1	2008916	2010679	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
HBOBGIPD_1	3295746	3296531	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
HBOBGIPD_1	3291910	3292848	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
HBOBGIPD_1	3294524	3295720	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
HBOBGIPD_1	3292876	3294495	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
HBOBGIPD_1	3284754	3291890	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
HBOBGIPD_1	2299539	2300180	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
HBOBGIPD_1	132473	133609	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
HBOBGIPD_1	18665	19534	pdxS	3.13e-149	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
HBOBGIPD_1	1694358	1695134	CodY	3.42e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
HBOBGIPD_1	3550469	3551038	ClpP	2.54e-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
HBOBGIPD_1	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
HBOBGIPD_1	1324809	1350917	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
HBOBGIPD_1	2671280	2701524	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)