Genomic characterization of JG068, a novel virulent podovirus active against Burkholderia cenocepacia

Lynch, Karlene H; Abdu, Ashraf H; Schobert, Max; Dennis, Jonathan J

doi:10.1186/1471-2164-14-574

BMC Genomics

Table 2 JG068 genome annotation

From: Genomic characterization of JG068, a novel virulent podovirus active against Burkholderia cenocepacia

Gene	Start	End	Putative function	Strand	Putative ribosome binding site and start codon	Length (amino acids)	Closest relative	BLASTP alignment region (amino acids)	Percent identity	E-value	Organism	GenBank accession number
1	1211	1405	hypothetical	+	ACGGAGctagacgaATG	64	none
2	1402	1566	hypothetical	+	GGAACGAtgctcgATG	54	none
3	1590	1889	hypothetical	+	GGAGTAAcgatcATG	99	hypothetical protein ϕAB1_gp1	3-72/169	50	1e^-13	Acinetobacter phage ϕAB1	ADQ12705.1
4	1895	2227	hypothetical	+	GGGGTGAGttcgATG	110	none
5	2224	2613	hypothetical	+	GGAGAAtcacGTG	129	hypothetical protein phAPEC8_0044	1-98/106	32	6e^-8	Escherichia phage phAPEC8	AFU62620.1
6	2603	2974	hypothetical	+	GAGGTGttgaATG	123	none
7	2971	3231	hypothetical	+	AACGAGGccgcATG	86	none
8	3242	3460	hypothetical	+	AAGGAGcaacacATG	72	hypothetical protein	27-54/109	64	4e^-6	Ralstonia phage RSB2	BAJ51800.1
9	3584	4672	hypothetical	+	AGGACAtcaATG	362	none
10	4762	5223	hypothetical	+	AAGGAtttaacATG	153	none
11	5252	5698	hypothetical	+	AAGGAActgacATG	148	none
12	5702	6610	DNA primase	+	GGAGGctaaggcATG	302	putative DnaG-like primase	1-277/284	43	1e^-63	Caulobacter phage Cd1	ADD21651.1
13	6624	7802	DNA helicase	+	GAAGGTAAcacgcaaGTG	392	hypothetical protein BURPS1710b_1647	35-427/431	61	2e^-176	Burkholderia pseudomallei 1710b	YP_333051.1
14	7802	8032	hypothetical	+	GGGGGtgtgATG	76	none
15	8032	8493	hypothetical	+	AAGGAGGGtgcgtgATG	153	none
16	8493	8603	hypothetical	+	GTGGGGcgctgATG	36	none
17	8600	9553	DNA ligase	+	GGAGGAAggtATG	317	PBCV-1 DNA ligase	4-309/309	37	1e^-41	Burkholderia pseudomallei 91	ZP_02453445.1
18	9688	12060	DNA polymerase	+	AAGGAAccATG	790	38L	1-806/808	60	0	Burkholderia pseudomallei 91	ZP_02453448.1
19	12122	12424	HNH endonuclease	+	AGGCAcggtcgcagcATG	100	endonuclease	30-112/249	47	7e^-18	Bacteroides finegoldii DSM 17565	ZP_05414969.1
20	12421	13314	hypothetical	+	AAGGAAcaagtATG	297	37L	8-260/276	50	7e^-71	Burkholderia pseudomallei 91	ZP_02453449.1
21	13327	14301	DNA exonuclease	+	AAGGAGGcaaggccATG	324	phosphodiesterase I	1-247/258	48	5e^-75	Burkholderia pseudomallei 1710a	ZP_04951398.1
22	14282	14677	DNA endonuclease	+	ATGAGAttgaccacaagcATG	131	DNA endonuclease VII	1-115/118	47	2e^-28	blood disease bacterium R229	CCA83273.1
23	14727	14909	hypothetical	+	GGCAGGttgattgcATG	60	none
24	14910	15704	DNA exonuclease	+	GGAGAttaaATG	264	34L	1-263/263	60	1e^-115	Burkholderia pseudomallei 91	ZP_02453452.1
25	15704	16138	hypothetical	+	GGTGAGctaATG	144	hypothetical protein	16-128/138	33	5e^-6	Pantoea phage LIMElight	YP_007002888.1
26	16142	16297	hypothetical	+	GACGGAGtaacagATG	51	none
27	16313	18799	RNA polymerase	+	GAGGAcactgATG	828	DNA-directed RNA polymerase	6-817/818	51	0	Burkholderia thailandensis MSMB43	ZP_02468154.1
28	18861	19025	hypothetical	+	AAGGAAccgGTG	54	none
29	19003	19443	hypothetical	+	AAGGAActgcgcgATG	146	hypothetical protein BDB_mp60445	1-143/145	35	5e^-18	blood disease bacterium R229	CCA83279.1
30	19444	20058	hypothetical	+	AAGGAGAtttgaATG	204	none
31	20068	20478	hypothetical	+	AAGGAGGGagcATG	136	none
32	20488	22065	head-tail connector protein	+	AAGGAGAAgacATG	525	head portal-like protein from phage	9-494/512	50	1e^-165	blood disease bacterium R229	CCA83282.1
33	22066	22908	scaffolding protein	+	AAGGAGcgtaaATG	280	scaffolding-like protein from phage	59-249/255	36	2e^-18	blood disease bacterium R229	CCA83283.1
34	22991	24031	capsid protein	+	AGGAGGAAcctcaATG	346	major capsid-like protein	8-336/336	57	6e^-133	Ralstonia phage RSB1	YP_002213721.1
35	24099	24716	tail tubular protein A	+	AAGGAGActgctATG	205	tail tuber protein A from phage	1-200/203	40	9e^-42	blood disease bacterium R229	CCA83285.1
36	24726	27326	tail tubular protein B	+	AAGGAGGcattATG	866	tail tuber protein B from phage	2-858/858	48	0	blood disease bacterium R229	CCA83286.1
37	27339	28196	internal virion protein	+	AAGGGGGGtcagtcATG	285	hypothetical protein Bpse38_32600	5-199/301	37	8e^-22	Burkholderia thailandensis MSMB43	ZP_02468144.1
38	28206	30446	internal virion protein	+	AAGGAGGtagcATG	746	hypothetical protein RSB1_gp36	1-361/785	30	2e^-42	Ralstonia phage RSB1	YP_002213725.1
39	30458	34495	internal virion protein	+	AAAGGAGAAGtaaATG	1345	internal virion protein	9-1318/1333	30	2e^-131	Caulobacter phage Cd1	ADD21673.1
40	34572	37097	tail fiber protein	+	AGGAGGcaacATG	841	BcepGomrgp19	307-539, 321-459/669	44, 31	3e^-44, 2e^-5	Burkholderia phage BcepGomr	YP_001210239.1
41	37107	37520	tail fiber assembly protein	+	AAGGAGGttttATG	137	hypothetical protein Bcep1808_1285	7-141/146	41	2e^-28	Burkholderia vietnamiensis G4	YP_001119130.1
42	37524	37706	holin	+	AGGAGtaagtaATG	60	none
43	37703	37987	DNA maturase A	+	AGGAGcaagctATG	94	conserved hypothetical protein from phage	6-79/96	44	2e^-11	blood disease bacterium R229	CCA83292.1
44	37989	39788	DNA maturase B	+	GAGGCAttgatATG	599	TerL large terminase subunit-like protein	4-604/605	59	0	Ralstonia phage RSB1	YP_002213730.1
45	39788	39994	hypothetical	+	GGAGGAAgtaATG	68	none
46	39998	40222	hypothetical	+	AAAGGAGtaattcATG	74	none
47	40232	40753	SAR endolysin	+	AAGGAGGcagcATG	173	phage-type lysozyme	68-211/223	36	8e^-27	Xanthomonas phage Xp10	NP_858975.1
48	40763	41119	Rz	+	AGGAGAtaaccATG	118	hypothetical protein Bpse9_41836	5-105/106	29	6e^-4	Burkholderia pseudomallei 91	ZP_02453410.1
49	41016	41267	Rz1	+	AAGGGGAAGctgaATG	83	exported hypothetical protein	18-79/83	52	4e^-11	blood disease bacterium R229	CCA83297.1

BLASTP hits with an E-value <0.01 were included in the table.

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ISSN: 1471-2164

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