safety

PPRS ARGs VFs PGs Plasmid Prophage IS elements

ARGs	VFs	PGs	PPRS
17	10	9	21.68

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.
JENKHDJB_14	384066	385235	bmr	ARO:3003007	bmr	99.74	100.00	M33768.1
JENKHDJB_3	357128	357445	ykkD	ARO:3003064	ykkD	100.00	100.00	AL009126.1
JENKHDJB_3	356790	357128	ykkC	ARO:3003063	ykkC	100.00	100.00	AL009126.1
JENKHDJB_5	259818	260738	mphK	ARO:3004541	mphK	100.00	100.00	CP010314.1
JENKHDJB_5	246484	247923	lmrB	ARO:3002813	lmrB	99.79	100.42	JYFL01000006.1
JENKHDJB_5	196825	197418	tmrB	ARO:3003059	tmrB	100.00	100.00	AL009126.3
JENKHDJB_14	161715	162917	blt	ARO:3003006	blt	100.00	100.00	L32599.1
JENKHDJB_14	143354	144208	aadK	ARO:3002627	aadK	100.00	100.00	AL009126.1
JENKHDJB_8	47375	49018	vmlR	ARO:3004476	vmlR	100.00	100.00	NC_000964.3
JENKHDJB_6	27266	29836	Bacillus subtilis mprF	ARO:3003324	Bsub_mprF	100.00	100.00	AL009126.3
JENKHDJB_13	3234	3897	Bacillus pumilus cat86	ARO:3002672	Bpum_cat86	100.00	91.82	K00544.1
JENKHDJB_13	540	1310	ANT(4')-Ia	ARO:3002623	ANT(4')-Ia	99.21	101.19	K02551.1

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.
JENKHDJB_13	540	1301	aadD	Amikacin, Tobramycin	100.00	100.00	M19465
JENKHDJB_14	143354	144208	aadK	Streptomycin	100.00	100.00	M26879
JENKHDJB_13	3234	3896	cat86	Chloramphenicol	100.00	100.00	K00544
JENKHDJB_5	259818	260738	mph(K)	Spiramycin, Telithromycin	100.00	100.00	NC_000964
JENKHDJB_1	36280	37656	tet(L)	Doxycycline, Tetracycline, Doxycycline, Tetracycline, Minocycline, Tigecycline	100.00	100.00	X08034
JENKHDJB_13	5135	5444	bleO	Bleomycin	100.0	77.69	AF051917

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

AMRFinderPlus

Query ID	Begin	End	Gene symbol	Sequence name	Method	Identity	Coverage	Accession no.
JENKHDJB_13	543	1310	aadD1	aminoglycoside O-nucleotidyltransferase ANT(4')-Ia	EXACTX	100.00	100.00	WP_001795128.1
JENKHDJB_14	143354	144205	aadK	aminoglycoside 6-adenylyltransferase AadK	EXACTX	100.00	100.00	WP_003229862.1
JENKHDJB_13	3234	3893	cat86	type A-6 chloramphenicol O-acetyltransferase Cat86	EXACTX	100.00	100.00	WP_050945244.1
JENKHDJB_5	259821	260738	mphK	macrolide 2'-phosphotransferase MphK	EXACTX	100.00	100.00	WP_003246254.1
JENKHDJB_1	39656	40174	satA	streptothricin N-acetyltransferase SatA	EXACTX	100.00	100.00	WP_003242546.1
JENKHDJB_1	36280	37653	tet(L)	tetracycline efflux MFS transporter Tet(L)	EXACTX	100.00	100.00	WP_003242953.1
JENKHDJB_8	47378	49018	vmlR	ABC-F type ribosomal protection protein VmlR	EXACTX	100.00	100.00	WP_003234144.1
JENKHDJB_13	3	323	bleO	bleomycin binding protein	PARTIAL_CONTIG_ENDX	100.00	79.85	WP_001242578.1
JENKHDJB_13	5138	5443	bleO	bleomycin binding protein	PARTIAL_CONTIG_ENDX	100.00	76.12	WP_001242578.1
JENKHDJB_2	192812	195406	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.
JENKHDJB_1	526313	527455	capA	Capsule	Immune modulation	100.00	100.00	NP_391469
JENKHDJB_1	524649	525830	capB	Capsule	Immune modulation	100.00	100.00	NP_391471
JENKHDJB_1	525845	526294	capC	Capsule	Immune modulation	100.00	100.00	NP_391470
JENKHDJB_2	240301	242064	dep/capD	Capsule	Immune modulation	100.00	100.00	NP_389723
JENKHDJB_1	932980	933765	dhbA	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391080
JENKHDJB_1	936663	937601	dhbB	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391077
JENKHDJB_1	933791	934987	dhbC	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391079
JENKHDJB_1	935016	936635	dhbE	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391078
JENKHDJB_1	937621	944757	dhbF	Bacillibactin	Nutritional/Metabolic factor	100.00	100.00	NP_391076
JENKHDJB_14	583948	584589	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
JENKHDJB_16	31692	32828	tufA	0.0	elongation factor Tu	84.96	95.69	AHM69299
JENKHDJB_18	4269	5138	pdxS	1.11e-151	encodes the putative pyridoxal 5'-phosphate synthase subunit PdxS	83.79	98.31	ACE61268
JENKHDJB_3	670400	671176	CodY	7.70e-125	nutrient-responsive regulator	81.08	100.00	ACJ80679
JENKHDJB_1	679042	678473	ClpP	6.29e-99	part of proteolytic complex	81.05	97.44	BAB94595
JENKHDJB_3	207967	208359	spxA1	2.28e-69	redox-responsive transcription factor	83.21	100.00	AAF21893
JENKHDJB_11	34595	34353	SpoVG	2.73e-38	RNA-binding protein	80.25	79.41	AAT02994
JENKHDJB_8	1903	2100	CspA	3.37e-32	cold shock protein	90.91	100.00	CAA62903
JENKHDJB_14	571986	571792	CspD	3.89e-28	cold shock protein	81.54	98.48	CAC99957
JENKHDJB_17	33098	32904	CspB	5.57e-28	cold shock protein	83.08	98.48	CAD00094

BLASTX v2.16.0 (Database: PHI base v4.16, May. 2024 release)

PlasmidFinder

Query ID	Begin	End	Plasmid	Query / Template	Identity	Accession no.
JENKHDJB_13	1470	2474	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
JENKHDJB_1	0.0	1.0	0.0
JENKHDJB_2	0.0	1.0	0.0
JENKHDJB_3	0.0	1.0	0.0
JENKHDJB_4	0.0	1.0	0.0
JENKHDJB_5	0.0	1.0	0.0
JENKHDJB_6	0.0	1.0	0.0
JENKHDJB_8	0.0	1.0	0.0
JENKHDJB_10	0.0	1.0	0.0
JENKHDJB_11	0.0	1.0	0.0
JENKHDJB_13	1.0	0.0	1.0
JENKHDJB_14	0.0	1.0	0.0
JENKHDJB_15	0.0	1.0	0.0
JENKHDJB_16	0.0	1.0	0.0
JENKHDJB_17	0.0	1.0	0.0
JENKHDJB_18	0.0	1.0	0.0
JENKHDJB_19	0.0	1.0	0.0
JENKHDJB_20	0.0	1.0	0.0
JENKHDJB_21	0.0	1.0	0.0
JENKHDJB_22	1.0	0.0	1.0

PlasmidHunter v 1.4.5 (Database: May. 2024 release)

Phigaro

Query ID	Begin	End	Transposable	Taxonomy	pVOGs
JENKHDJB_3	300843	326951	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
JENKHDJB_14	182468	212845	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

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