Genomic comparison of 93 Bacillus phages reveals 12 clusters, 14 singletons and remarkable diversity

Grose, Julianne H; Jensen, Garrett L; Burnett, Sandra H; Breakwell, Donald P

doi:10.1186/1471-2164-15-855

BMC Genomics

Table 1 Characteristics of reported Bacillus phages with complete genome sequences

From: Genomic comparison of 93 Bacillus phages reveals 12 clusters, 14 singletons and remarkable diversity

Cluster	Phage name	Host	Size (bp)	GC%	ORFS	tRNA	Accession Number	Family	Ref.
A1	Wip1	A	14319	36.84	27	0	NC_022094	T	[17]
A1	AP50	A	14398	38.65	31	0	NC_011523	T	[18]
A2	GIL16c	T	14844	39.72	32	0	NC_006945	T	[19]
A2	Bam35c	T	14935	40.08	31	0	AY257527	T	[19]
A2	pGIL01	T	14931	39.73	30	0	AJ536073	T	[20]
B1	Phi29	S	19282	39.99	27	0	EU771092.1	P	[21]
B1	PZA	S	19366	39.66	27	0	M11813	P	[22]
B2	B103	S	18630	37.66	17	0	NC_004165	P	[23]
B2	Nf	S	18753	37.32	27	0	EU622808	P
B3	Gir1	B	21129	34.65	34	0*		P	***
B3	GA-1	B	21129	34.66	35	1	X96987	P	[24]
C1	MG-B1	W	27190	30.75	42	0	NC_021336	S	[25]
C2	Stitch	B	24320	30.36	37	0*		P	***
D1	Page	M	39874	40.71	50	0*	NC_022764		[26]
D1	Poppyseed	M	39874	40.71	50	0	KF669657		***
D1	Pony	M	39844	40.70	48	0	NC_022770	P	[27]
E1	TP21-L	C	37456	37.80	56	0	NC_011645	S	[28]
E1	BMBtp2	T	36932	37.79	53	0	NC_019912	S	***
E1	ProCM3	T	43278	37.36	66	0*	KF296717	S	***
F1	γ isolate d'Herelle	A	37373	35.13	53	0	DQ289556	S	[29]
F1	γ isolate 51	A	37253	35.22	53	0	DQ222853	S	***
F1	WBeta	A	40867	35.26	53	0	DQ289555	S	[29]
F1	Gamma	A	37253	35.22	53	0	NC_007458	S	[30]
F1	Cherry	A	36615	35.27	51	0	DQ222851	S	27)
F1	γ isolate 53	A	38067	35.10	50	0	DQ222855	S
F1	Fah	B	37974	34.95	50	0	NC_007814	S	[31]
F2	phiCM3	T	38772	35.48	56	0*	NC_023599		***
F2	phIS3501	T	44401	34.86	51	1	JQ062992	S	***
F2	BtCS33	T	41992	35.22	57	0	NC_018085	S	[32]
F3	BceA1	C	42932	35.66	63	0	HE614282		[33]
G1	IEBH	T	53104	36.42	86	0	EU874396	S
G1	250	C	56505	36.44	54	0	GU229986		[34]
H1	Andromeda	P	49259	41.91	79	0	NC_020478	S
H1	Gemini	P	49362	41.9	79	0	KC330681	S
H1	Glittering	P	49246	42.05	78	0	NC_022766	S	[35]
H1	Curly	P	49425	41.82	77	0	NC_020479	S
H1	Eoghan	P	49458	42.21	75	0	NC_020477	S
H1	Taylor	P	49492	42.29	75	0	KC330682	S
H1	Riggi	P	49836	41.46	79	0	NC_022765	S	[36]
H1	Blastoid	P	50354	42.23	79	0	NC_022773	S	[37]
H1	Finn	M	50161	41.69	77	0	NC_020480	S
H1	Polaris	B	33403	42.61	45	0*			***
I1	Pleiades	B	64698	47.66	112	0*			***
I1	Pappano	B	65662	47.57	113	0*			***
J1	Staley	M	81656	35.35	113	0	NC_022767	S	[38]
J1	Slash	M	80382	35.23	111	0	KF669661	S	[39]
J2	Basilisk	C	81790	33.9	141	2	KC595511	S	[40]
K1	SPO1	S	132562	39.97	204	5	NC_011421	M	[41]
K1	Pegasus	B	146685	40.3	236	3*			[42]
K1	CampHawk	S	146193	40.2	231	2	NC_022761	M	[43]
K2	Shanette	C	138877	40.8	223	3	KC595513	M	[40]
K2	JL	C	137918	40.8	222	4	KC595512	M	[40]
L1	phiNIT1	P	155631	42.12	219	4	NC_021856
L1	Grass	S	156648	42.25	252	3	NC_022771		[44]
L2	SI0phi**	S	146698	39.02	206	0*	KC699836	M
L3	phiAGATE	P	149844	49.97	210	4	NC_020081		[45]
L4	Bastille	C	153962	38.14	280	7	JF966203	M	[45]
L4	Evoli	T	159656	38.06	293	8	KJ489398
L4	HoodyT	T	159837	38.01	299	8	KJ489400	M
L4	CAM003	T	160541	38.03	296	8	KJ489397
L4	JPB9	B	159478	38.00	322	5*			***
L5	B4	C	162596	37.71	277	0	JN790865
L5	Troll	T	163019	37.83	289	0	NC_022088	M
L5	Spock	T	164297	37.62	283	0	NC_022763	M
L5	Adelynn	B	165049	37.77	293	0*			[46]
L5	BigBertha	T	165238	37.77	291	0	NC_022769	M	[47]
L5	Riley	B	162816	37.78	290	0	NC_024788.		***
L5	B5S	C	162598	37.71	272	0	JN797796	M	[48]
L6	BCP78	C	156176	39.86	227	18	JN797797	M	[49]
L6	BCU4	C	154371	39.86	223	19	JN797798	M	[50]
L7	BCP1	C	152778	39.76	227	17*	KJ451625	M
L7	Bc431v3	C	158621	39.98	238	21	JX094431	M	[51]
L8	Hakuna	T	158100	38.70	294	0	KJ489399H
L8	Doofenshmirtz	B	161793	38.74	294	0*			***
L8	Nagalana	B	163041	38.75	302	0*		M	***
L8	Megatron	T	158750	38.80	291	0	KJ4894011H
L8	BPS10C	C	159590	38.74	271	0	NC_023501	M	[52]
L8	BPS13	C	158305	38.75	268	0	JN654439	M	[52]
L8	W. Ph.	C	156897	36.45	274	0	HM144387	M	[26]
Single	BV1	B	35055	44.85	54	0	DQ840344
Single	phBC6A52	C	38472	34.72	49	0	NC_004821
Single	phi105	M	39325	42.69	51	0	NC_004167	S	[53]
Single	BCJA1C	B	41092	41.74	58	0	NC_006557	S
Single	PBC1	C	41164	41.68	50	0	JQ619704	S	[54]
Single	SPP1	M	44010	43.72	99	0	NC_004166	S	[55]
Single	PM1	S	50861	41.29	86	0	NC_020883	S	[56]
Single	phBC6A51	T	61395	37.69	75	0	NC_004820		[57]
Single	BCD7	C	93839	38.04	140	0	JN712910
Single	SPBc2	S	134416	34.64	185	0	NC_001884	S	[58]
Single	SP10	S	143986	40.49	236	0	NC_019487	M	[40]
Single	BanS-Tsamsa	A	168876	34.32	272	19	NC_023007	S	[59]
Single	0305phi8-36	T	218948	41.8	246	0	NC_009760	M	[59]
Single	G	M	497513	29.93	675	18*	JN638751	M	[60]

Hosts are the bacterial hosts on which the phages were isolated (not the host range) and are abbreviated as Bacillus anthracis (A), Bacillus cereus (C), Bacillus sp. (B), Bacillus megaterium (M), Bacillus pumulis (P), Bacillus subtilis (S), Bacillus thuringiensis (T), and Bacillus weihenstephanensis (W). ORFs are the number of Open Reading Frames predicted to be encoded by the genome as provided in the reported annotation. Family is Myoviridae (M), Siphoviridae (S) or Podoviridae (P). A reference (Ref.) for the published genome is provided when available.
*tRNA predicted in this study using Aragorn and DNAMaster.
**Phage SI0phi is reported as an incomplete genome but is included in this analysis because it was complete enough to clearly assign it to a cluster.
***Indicates phage sequences obtained through phagesdb.org.

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ISSN: 1471-2164

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