Comparative genomic analysis of the family Iridoviridae: Re-annotating and defining the core set of iridovirus genes

Virology Journal

Volumn 4, Issue , 2007, Pages

  Eaton, Heather E ^a   Metcalf, Julie ^a   Penny, Emily ^a   Tcherepanov, Vasily ^b   Upton, Chris ^b   Brunetti, Craig R ^a  

^a TRENT UNIVERSITY   (Canada)

^b UNIVERSITY OF VICTORIA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPARATIVE GENOMIC HYBRIDIZATION; DNA VIRUS; GENE IDENTIFICATION; GENE SEQUENCE; GENOME ANALYSIS; IRIDOVIRUS; MEGALOCYTIVIRUS; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PREDICTION; SEQUENCE HOMOLOGY; SPECIES COMPARISON; SPECIES IDENTIFICATION; VIRUS GENE; VIRUS GENOME; VIRUS MORPHOLOGY; VIRUS STRAIN;

GENES, VIRAL; GENOME, VIRAL; IRIDOVIRIDAE;

DNA VIRUSES; IRIDOVIRIDAE; IRIDOVIRUS; MEGALOCYTIVIRUS; ORANGE-SPOTTED GROUPER IRIDOVIRUS; RANAVIRUS; ROCK BREAM IRIDOVIRUS;

EID: 33846848887     PISSN: None     EISSN: 1743422X     Source Type: Journal    
DOI: 10.1186/1743-422X-4-11     Document Type: Article

References (34)

1. Sequence analysis of the complete genome of an iridovirus isolated from the tiger frog. JG He L Lu M Deng HH He SP Weng XH Wang SY Zhou QX Long XZ Wang SM Chan, Virology 2002 292 185 197 10.1006/viro.2001.1245 11878922
2. Analysis of the first complete DNA sequence of an invertebrate iridovirus: coding strategy of the genome of Chilo iridescent virus. NJ Jakob K Muller U Bahr G Darai, Virology 2001 286 182 196 10.1006/viro.2001.0963 11448171
3. Iridoviridae. T Williams VG Chinchar G Darai A Hyatt J Kalmakoff V Seligy, Virus Taxonomy: The Classification and Nomenclature of Viruses Seventh report of the International Committee on the Taxonomy of Viruses, van Regenmortel MHV, Bishop DHL, Carstens EB, Estes MK, Lemon SM, Maniloff J, Mayo MA, McGeoch DJ, Pringle CR, Wickner RB, 2000 167 182
4. The iridoviruses. T Williams, Adv Virus Res 1996 46 345 412 8824704
5. Fish viruses: isolation of an icosahedral cytoplasmic deoxyribovirus from sheatfish (Silurus glanis). W Ahne HJ Schlotfeldt I Thomsen, J Vet Med 1989 36 333 336
6. Properties of iridoviruses from ornamental fish. RP Hedrick TS McDowell, Vet Res 1995 26 423 427 8581016
7. Properties of three iridovirus-like agents associated with systemic infections of fish. RP Hedrick TS McDowell W Ahne C Torhy P De Kinkelin, Dis Aquat Org 1992 13 203 209
8. First virus isolation from Australian fish: an iridovirus-like pathogen from redfin perch Perca fluviatilis. JS Langdon JD Humphrey LM Williams AD Hyatt HA Westbury, J Fish Dis 1986 9 263 268 10.1111/j.1365-2761.1986.tb01011.x
9. Isolation and preliminary characterization of a pathogenic icosahedral deoxyribovirus from the catfish Ictalurus melas. F Pozet M Morand A Moussa C Torhy P De Kinkelin, Dis Aquat Org 1992 14 35 42
10. Pathology, isolation, and preliminary molecular characterization of a novel iridovirus from tiger salamanders in Saskatchewan. TK Bollinger J Mao D Schock RM Brigham VG Chinchar, J Wildlife Disease 1999 35 413-429
11. Transmission of the Ambystoma tigrinum virus to alternate hosts. JK Jancovich EW Davidson A Seiler BL Jacobs JP Collins, Dis Aquat Organ 2001 46 159 163 11710549
12. Ecology and evolution of infectious disease. JP Collins JL Brunner V Miera MJ Parris DM Schock A Storfer, Amphibian Conservation Washington, Smithsonian Institution Press, Semlitsch R, 2003 137 151
13. Infectious disease and amphibian population declines. P Daszak AA Cunningham AD Hyatt, Divers Distrib 2003 9 141 150 10.1046/j.1472-4642.2003. 00016.x
14. Evidence for emergence of an amphibian iridoviral disease because of human-enhanced spread. JK Jancovich EW Davidson N Parameswaran J Mao VG Chinchar JP Collins BL Jacobs A Storfer, Molecular Ecology 2005 14 213 224 10.1111/j.1365-294X.2004.02387.x 15643965
15. Poxirus orthologous clusters (POCs). A Ehlers J Osborne S Slack RL Roper C Upton, Bioinformatics 2002 18 1544 1545 10.1093/bioinformatics/18.11.1544 12424130
16. Viral genome organizer: a system for analyzing complete viral genomes. C Upton D Hogg D Perrin M Boone NL Harris, Virus Research 2000 70 55 64 10.1016/S0168-1702(00)00210-0 11074125
17. Complete genomic sequence and comparative analysis of the tumorigenic poxvirus Yaba monkey tumor virus. CR Brunetti H Amano Y Ueda J Qin T Miyamura T Suzuki X Li JW Barrett G McFadden, Journal of Virology 2003 77 13335 13347 14645589 10.1128/JVI.77.24.13335-13347.2003
18. Complete genome sequence analysis of an iridovirus isolated from the orange-spotted grouper, Epinephelus coicodes. L Lu SY Zhou C Chen SP Weng SM Chan JG He, Virology 2005 339 81 100 10.1016/j.virol.2005.05.021 15964605
19. Complete genomic DNA sequence of rock bream iridovirus. JW Do CH Moon HJ Kim MS Ko SB Kim JH Son JS Kim EJ An MK Kim SK Lee MS Han SJ Cha MS Park MA Park YC Kim JW Kim JW Park, Virology 2004 325 351 363 10.1016/j.virol.2004.05.008 15246274
20. Complete genome analysis of Mandarin fish infectious spleen and kidney necrosis iridovirus. JG He M Deng SP Weng Z Li SY Zhou QX Long XZ Wang SM Chan, Virology 2001 291 126 139 10.1006/viro.2001.1208 11878882
21. Complete genomic sequence of the grouper iridovirus and comparison of genomic organization with those of other iridoviruses. CT Tsai JW Ting MH Wu MF Wu IC Guo CY Chang, Journal of Virology 2005 79 2010 2023 15681403 10.1128/JVI.79.4.2010-2023.2005
22. Functional genomics analysis of Singapore grouper iridovirus: complete sequence determination and proteomic analysis. WJ Song QW Qin J Qiu CH Huang F Wang Hew C.L., Journal of Virology 2004 78 22 12576 12590 15507645 10.1128/JVI.78.22.12576-12590.2004
23. The genome of frog virus 3, an animal DNA virus, is circularly permuted and terminally redundant. R Goorha KG Murti, Proc Natl Acad Sci USA 1982 79 248 252 6952182 10.1073/pnas.79.2.248
24. Complete genome sequence of lymphocystis disease virus isolated from China. QY Zhang F Xiao J Xie ZQ Li JF Gui, Journal of Virology 2004 78 13 6982 6994 15194775 10.1128/JVI.78.13.6982-6994.2004
25. Comparative analysis of the genome and host range characteristics of two insect iridoviruses: Chilo iridescent virus and a cricket iridovirus isolate. NJ Jakob RG Kleespies CA Tidona K Muller HR Gelderblom G Darai, Journal of General Virology 2002 83 463 470 11807240
26. Genome of invertebrate iridescence virus type 3 (Mosquito iridescent virus). G Delhon ER Tulman CL Afonso Z Lu JJ Becnel BA Moser GF Kutish DL Rock, Journal of Virology 2006 80 8439 8449 16912294 10.1128/JVI.00464-06
27. Comparative genomic analyses of frog virus 3, type species of the genus Ranavirus (family Iridoviridae). WGH Tan TJ Barkman VG Chinchar K Essani, Virology 2004 323 70 84 10.1016/j.virol.2004.02.019 15165820
28. Archaeal genomics: Do Archaea have a mixed heritage? WF Doolittle JM Logsdon, Current Biology 1998 8 R209 R211 10.1016/S0960-9822(98)70127-7 9512414
29. Measuring genome evolution. MA Huynen P Bork, Proc Natl Acad Sci USA 1998 95 5849 5856 9600883 10.1073/pnas.95.11.5849
30. Genomic sequence of a ranavirus (family Iridoviridae) associated with salamander mortalities in North America. JK Jancovich J Mao VG Chinchar C Wyatt ST Case S Kumar G Valente S Subramanian EW Davidson JP Collins BL Jacobs, Virology 2003 316 90 103 10.1016/j.virol.2003.08.001 14599794
31. Temperature-sensitive mutants of frog virus 3: biochemical and genetic characterization. VG Chinchar A Granoff, Journal of Virology 1986 58 192 202 3951023
32. Viral Bioinformatics Resource Center [www.virology.ca].
33. JDotter: a Java interface to multiple dotplots generated by dotter. R Brodie RL Roper C Upton, Bioinformatics 2004 20 279 281 10.1093/bioinformatics/ btg406 14734323
34. The complete DNA sequence of lymphocystis disease virus. CA Tidona G Darai, Virology 1997 230 207 216 10.1006/viro.1997.8456 9143276