safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
13	10	7	17.83

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.
NDCMNBBH_11	1783688	1784542	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
NDCMNBBH_11	1764979	1766181	blt	ARO:3003006	blt	100.00	100.00	L32599.1
NDCMNBBH_11	1542660	1543829	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
NDCMNBBH_11	424865	425182	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
NDCMNBBH_11	424527	424865	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
NDCMNBBH_32	358869	359789	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
NDCMNBBH_32	345535	346974	lmrB	ARO:3002813	lmrB	99.79	100.42	JYFL01000006.1
NDCMNBBH_32	295878	296471	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
NDCMNBBH_34	276656	279226	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
NDCMNBBH_32	29253	30896	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3

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.
NDCMNBBH_11	1783688	1784542	aadK	Streptomycin	100.00	100.00	M26879
NDCMNBBH_32	358869	359789	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
NDCMNBBH_21	1008995	1010371	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.
NDCMNBBH_11	1783691	1784542	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
NDCMNBBH_32	358872	359789	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
NDCMNBBH_21	1006477	1006995	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
NDCMNBBH_21	1008998	1010371	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
NDCMNBBH_32	29253	30893	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
NDCMNBBH_11	1099346	1101940	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.
NDCMNBBH_21	519252	520394	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
NDCMNBBH_21	520877	522058	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
NDCMNBBH_21	520413	520862	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
NDCMNBBH_11	1052688	1054451	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
NDCMNBBH_21	112909	113694	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
NDCMNBBH_21	109073	110011	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
NDCMNBBH_21	111687	112883	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
NDCMNBBH_21	110039	111658	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
NDCMNBBH_21	101917	109053	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
NDCMNBBH_11	1343314	1343955	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
NDCMNBBH_35	31783	32919	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
NDCMNBBH_37	11309	10440	pdxS	1.12e-151	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
NDCMNBBH_11	738129	738905	CodY	1.84e-124	nutrient-responsive regulator	81.08	100.00	ACJ80679
NDCMNBBH_21	367640	368209	ClpP	6.29e-99	part of proteolytic complex	81.05	97.44	BAB94595
NDCMNBBH_11	275705	276097	spxA1	5.45e-69	redox-responsive transcription factor	83.21	100.00	AAF21893
NDCMNBBH_36	20625	20867	SpoVG	7.52e-39	RNA-binding protein	81.48	79.41	AAT02994
NDCMNBBH_32	76365	76168	CspA	1.98e-31	cold shock protein	90.91	100.00	CAA62903

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
NDCMNBBH_11	0.0	1.0	0.0
NDCMNBBH_21	0.0	1.0	0.0
NDCMNBBH_32	0.0	1.0	0.0
NDCMNBBH_34	0.0	1.0	0.0
NDCMNBBH_35	0.0	1.0	0.0
NDCMNBBH_36	0.0	1.0	0.0
NDCMNBBH_37	0.0	1.0	0.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
NDCMNBBH_11	368580	394688	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
NDCMNBBH_11	1715050	1745294	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
NDCMNBBH_11	1914158	1943318	False	Siphoviridae	VOG3490, VOG4574, VOG0641, VOG5008, VOG4705, VOG3390, VOG4612, VOG4660, VOG4619, VOG0801, VOG6163, VOG5910, VOG0541, VOG4586, VOG0704, VOG0539, VOG4589, VOG0204, VOG5361, VOG4553, VOG4568, VOG4556, VOG1886, VOG4581, VOG4841, VOG0198, VOG6517

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