Complete sequence determination of a novel reptile iridovirus isolated from soft-shelled turtle and evolutionary analysis of Iridoviridae

Huang, Youhua; Huang, Xiaohong; Liu, Hong; Gong, Jie; Ouyang, Zhengliang; Cui, Huachun; Cao, Jianhao; Zhao, Yingtao; Wang, Xiujie; Jiang, Yulin; Qin, Qiwei

doi:10.1186/1471-2164-10-224

Table 1 Properties of ORFs within the STIV genome

From: Complete sequence determination of a novel reptile iridovirus isolated from soft-shelled turtle and evolutionary analysis of Iridoviridae

					Best Match homolog
ORF	Nucleotide position	No. of amino acids	Molecular mass (kDa)	Conserved domain or signature (CD/Prosite accession no.)	E-value	Identity (%)	Accession no.	Species	Predicted structure or function
001R	16–786	256	29.67	Poxvirus Late Transcription Factor (pfam04947)	1e-148	99	YP_031579	FV3	putative replicating factor
002L	2385-1414	323	35.01	DUF230, Poxvirus proteins of unknown function (pfam03003)	2e-157	97	YP_031580\|	FV3	Virion-associated membrane protein
003L^a	2668-2423	81	8.82
004L	3261-2563	232	25.74		1e-90	99	YP_003773	ATV
005R	3191–4507	438	48.29		0.0	98	YP_031581	FV3
006R	4547–4729	60	6.51		1e-18	100	YP_031582	FV3
007R	5162–5818	218	24.82	US22, herpes virus early nuclear protein (pfam02393)	3e-100	92	YP_031583	FV3	orf250-like protein
008R	6008-5757	83	9.69		2e-37	100	YP_031584	FV3
009L	7177-6769	142	15.18		8e-55	91	ABB92275	TFV
010R	7277–11161	1294	140.99	DNA-directed RNA polymerase subunit alpha (PRK08566,)	0.0	99	YP_031586	FV3	DNA-dependent RNA polymerase II large subunit
011L	14356-11510	948	106.45	Helicase conserved C-terminal domain (pfam00271)	0.0	99	YP_031586	FV3	D6/D11 like helicase
012R	14372–14785	137	14.88		2e-70	100	YP_031588	FV3
013R	15135–15347	70	7.88		5e-24	98	YP_031589	FV3
014L	16306-15413	297	32.66		7e-146	99	YP_031590	FV3
015R	17072–17428	118	13.31		6e-44	99	YP_031592	FV3
016R	17524–18471	315	35.37	ABC_ATPase, Poxvirus A32 protein (pfam04665, cd00267)	0.0	98	AAL77796	TFV	A32 virion packaging ATPase
017L	19770-18835	311	34.00		5e-157	95	YP_003857	ATV
018L	21315-19807	502	53.47		0.0	99	YP_031595	FV3
019R^a	20090–20869	259	28.11
020L	21591-21352	79	8.35		3e-28	98	YP_031596	FV3
021R	21643–24240	865	94.42	2-cysteine adaptor domain(pfam08793)	0.0	92	ABB92284	TFV
022L^a	22859-22326	177	18.78
023R	24251–24697	148	16.03		5e-60	92	ABB92285	TFV
024L	25593-24934	219	25.37		8e-112	98	YP_031599	FV3
025R	25723-28650	975	108.95	D5 N terminal like (pfam08706)	0.0	99	YP_031600	FV3	putative D5 family NTPase/ATPase
026L^a	28049-27423	208	21.58		9e-40	75	YP_164148	SGIV
027R	29058–30206	382	42.61		0.0	97	YP_031601	FV3
028R	30604–31701	365	41.04		0.0	98	YP_031602	FV3
029R	31895–32680	261	39.50		2e-128	100	YP_031603	FV3	P31k protein
030R	32858–33034	58	6.07		2e-23	90	AAD38359	FV3	truncated putative eIF-2alpha-like protein
031R	33565–36477	970	107.18	Putative lipopolysaccharide modifying enzyme (smart00672)	0.0	98	YP_031605	FV3	tyrosine kinase
032R	36526–37014	162	18.21		2e-89	99	YP_031606	FV3
033R	37151–37411	86	9.44
034R	37905-38324	139	15.15		2e-72	98	ABB92294	TFV
035R	38374–40308	644	71.50	Rho termination factor (pfam07498)	0.0	86	ABB92295	TFV	neurofilament triplet H1 like protein
036L^a	39047-38472	191	20.01
037R	40391–40582	63	6.64		1e-14	98	YP_031611	FV3
038R	40726–41046	106	11.39		6e-50	99	YP_031612	FV3	L-protein-like protein
039R	41140–41460	106	10.20
040R	41515–41790	91	9.14
041R	42588–43229	213	23.62	catalytic domain of ctd-like phosphatases (smart00577)	3e-109	99	YP_031615	FV3	putative NIF/NLI interacting factor
042R	43370–45067	565	62.28	ribonucleotide-diphosphate reductase subunit alpha (PRK09102)	0.0	99	YP_031616	FV3	ribonucleoside diphosphate reductase alpha subunit
043R	45173–45523	116	12.72		3e-41	98	YP_031617	FV3	putative hydrolase
044R	45592–46095	167	18.05		4e-64	88	YP_031618	FV3
045R	46477–49974	1165	129.13		0.0	99	YP_031619	FV3	orf2-like protein
046L	50766-50509	85	9.36		3e-30	100	YP_031620	FV3
047L	51634-51308	108	12.02		1e-44	96	YP_003844	ATV
048L	52171-51761	136	15.55		2e-72	100	YP_031623	FV3
049L	52803-52225	192	21.62	translation initiation factor IF-2 (PRK05306)	2e-35	77	YP_003846	ATV	neurofilament triplet H1 protein
050L	53344-52928	138	15.54		3e-66	100	YP_031625	FV3
051L	53598-53347	83	9.56		8e-35	100	YP_031626	FV3
052L	55205-53706	499	55.48	SAP domain (pfam02037)	2e-149	78	YP_003850	ATV
053R	55285–56970	561	61.62		0.0	99	YP_031629	FV3
054L	58294-57227	355	39.35	3-beta hydroxysteroid dehydrogenase(pfam01073)	0.0	100	ABI36881	RGV	3beta-hydroxysteroid dehydrogenase
055R	58633–60201	522	54.73	L1R_F9L, Lipid membrane protein of large eukaryotic DNA viruses (pfam02442)	0.0	100	YP_031631	FV3	myristylated membrane protein
056L	60755-60435	106	11.50
057L	61963-60668	431	47.29	DEXH-box helicases (cd00269)	0.0	99	YP_031633	FV3	A18 like helicase
058L	62120-61971	49	5.19		2e-09	93	YP_003822	ATV
059R	62157–62561	134	15.23		6e-66	97	ABB92316	TFV
060R	62602–64098	498	53.60		0.0	98	YP_031636	FV3	putative phosphotransferase
061R	64549–65103	184	20.49		3e-92	97	ABB92319	TFV
062L	66787-65729	352	40.04		0.0	98	YP_031638	FV3
063R	66947–69988	1013	114.52	DNA polymerase family B (pfam00136)	0.0	99	YP_031639	FV3	DNA polymerase
064L	74278-70613	1221	133.21	RNA polymerase beta subunit (cd00653)	0.0	99	YP_031641	FV3	DNA-dependent RNA polymerase II, subunit II
065R	74004–74540	178	19.64		2e-19	38	YP_164170	SGIV
066R	74657–75151	164	17.38	dUTPase (COG0756)	2e-84	100	AAZ22692	RGV	dUTPase
067R	75261–75548	95	10.38	CARD, Caspase recruitment domain (pfam00619)	3e-35	94	YP_031643	FV3	CARD-like protein
068L	76015-75851	54	4.95		1e-08	98	YP_031644	FV3
069L	76210-76061	49	5.12
070L	76693-76400	97	10.81		5e-23	96	YP_031645	FV3
071L	77911-76748	387	43.88	Ribonucleotide Reductase beta subunit (cd01049)	0.0	99	YP_031646	FV3	ribonucleotide reductase small subunit
072L	78502-78236	88	9.28		8e-28	79	YP_003808	ATV
073R	78619–78894	91	9.72		6e-31	100	YP_031648	FV3
074R	78903–79277	124	13.37		2e-44	100	YP_031649	FV3
075R	79316–79549	77	8.34		1e-27	98	YP_031650	FV3
076R	79593–79727	44	4.89
077R	79834–80316	160	17.24		2e-78	95	YP_003804	ATV
078L	81742-80768	324	36.13	Zinc finger C2H2 type domain signature (PS00028)	2e-178	98	YP_031652	FV3	ring finger protein
079L	83005-81917	362	38.14		5e-167	100	YP_031653	FV3
080R^a	81987–82415	142	14.81
081R^a	82500–82943	147	15.30
082L	83316-83062	84	9.26	Possible membrane associated motif in LPS-induced tumor necrosis factor (smart00714)	7e-30	98	YP_031654	FV3	LPS-induced tumor necrosis factor alpha
083R	83379–83600	73	7.99		2e-31	95	YP_031655	FV3
084L	83944-83597	115	12.84		6e-56	100	YP_031656	FV3	VLTF2-like late transcription factor
085L	85203-84529	224	25.60		5e-119	93	ABB92336	TFV
086R	85303–87021	572	63.50		0.0	98	YP_031658	FV3	putative ATPase dependent protease
087L	88760-87645	371	40.36	Ribonuclease III C terminal domain (cd00593)	0.0	100	YP_031659	FV3	ribonuclease III
088R	88816–89094	92	10.51	C2C2 Zinc finger (smart00440)	1e-41	98	YP_031660	FV3	transcription elongation factor IIS
089R	89223–89696	157	17.65		5e-87	98	YP_031661	FV3	immediate early protein ICP-18
090R	90146–90790	214	24.73	Site-specific DNA methylase (COG0270)	2e-122	100	YP_031662	FV3	cytosine DNA methyltransferase
091R	91177–91914	245	26.05		5e-133	99	YP_031663	FV3	proliferating cell nuclear antigen
092R	91989–92576	195	22.12	Deoxyribonucleoside kinase (cd01673)	1e-106	99	YP_031664	FV3	thymidine kinase
093L	95345-93564	593	64.26		0.0	97	ABB92341	TFV
094R	95378–95830	150	16.53	Erv1/Alr family (pfam04777)	4e-83	99	YP_031667	FV3	thiol oxidoreductase
095R	95899–97044	381	43.28		3e-140	92	YP_031668	FV3
096R	97137–98528	463	49.92	Iridovirus major capsid protein (pfam04451)	0.0	99	YP_031669	FV3	major capsid protein
097R	98652–99839	395	45.57	T4 RNA ligase (pfam09511)	0.0	98	YP_031670	FV3	immediate early protein ICP-46
098L	100767-100552	71	7.63		3e-12	98	YP_031671	FV3
099L	101295-100828	155	17.85		2e-79	100	YP_031673	FV3
100R	101389–102480	363	40.63	Xeroderma pigmentosum G N- and I-regions (cd00128)	0.0	99	YP_031674	FV3	FLAP endonuclease
101L	102699-102571	42	4.31
102R	103281–103952	223	24.28		7e-123	98	YP_031675	FV3
103R	104035–104448	137	15.29		5e-73	99	YP_031676	FV3	Bcl-2-like protein
104R	104973–105677	234	26.9	herpes virus US 22 like protein (pfam02393)	4e-47	51	YP_031583	FV3
105R	105716–105856	46	5.73

Note. FV3, Frog virus 3; TFV, Tiger frog virus; ATV, Ambystoma tigrinum virus; SGIV, Singapore grouper iridovirus; RGV, Rana grylio virus.
^aputative overlapped ORFs in STIV genome.

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ISSN: 1471-2164

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