Genome analysis of Betanodavirus from cultured marine fish species in Malaysia

Veterinary Microbiology

Volumn 156, Issue 1-2, 2012, Pages 16-44

  Ransangan, Julian ^a   Manin, Benny Obrain ^a  

^a UNIVERSITI MALAYSIA SABAH   (Malaysia)

Author keywords

Betanodavirus; Genome analysis; Malaysia; Viral nervous necrosis

Indexed keywords

COAT PROTEIN; UNCLASSIFIED DRUG; VIRUS RNA; VIRUS RNA1; VIRUS RNA2;

AQUACULTURE; ARTICLE; BETANODAVIRUS; CHROMILEPTIS ALTIVELIS; EPINEPHELUS FUSCOGUTTATUS; FISH; GENOME ANALYSIS; GENOTYPE; HATCHERY; LATES CALCARIFER; MALAYSIA; NONHUMAN; NUCLEOTIDE SEQUENCE; RNA EXTRACTION; TRACHINOTUS BLOCHII; UNINDEXED SEQUENCE; VIRUS; VIRUS GENOME;

ANIMALS; AQUACULTURE; BASE SEQUENCE; FISH DISEASES; FISHES; GENOME, VIRAL; MALAYSIA; MOLECULAR SEQUENCE DATA; NODAVIRIDAE; PHYLOGENY; POLYMERASE CHAIN REACTION;

BETANODAVIRUS; BLACK BEETLE VIRUS; REDSPOTTED GROUPER NERVOUS NECROSIS VIRUS; STRIPED JACK NERVOUS NECROSIS VIRUS;

EID: 84857646992     PISSN: 03781135     EISSN: 18732542     Source Type: Journal    
DOI: 10.1016/j.vetmic.2011.10.002     Document Type: Article

References (75)

1. Arimoto M., Mori K., Nakai T., Muroga K., Furusawa I. Pathogenicity of the causative agents of viral nervous necrosis disease in Striped jack, Pseudocaranx dentex (Bloch and Schneider). J. Fish Dis. 1993, 16:461-469.
2. Arimoto M., Mushiake K., Mizuta Y., Nakai T., Muroga K., Furusawa I. Detection of striped jack nervous necrosis virus (SJNNV) by enzyme linked immunosorbent assay (ELISA). Fish Pathol. 1992, 27:191-195.
3. Azad I.S., Jithendran K.P., Shekhar M.S., Thirunavukkarasu A.R., de la Pena L.D. Immunolocalisation of nervous necrosis virus indicates vertical transmission in hatchery produced Asian sea bass (Lates calcarifer Bloch) - a case study. Aquaculture 2006, 255:39-47.
4. Ball L.A. Nodavirus RNA recombination. Semin. Virol. 1997, 8:95-100.
5. Ball L.A., Johnson K.L. Reverse genetics of nodaviruses. Adv. Virus Res. 1999, 53:229-244.
6. Breuil G., Mouchel O., Fauvel C., Pepin J.F. Sea bass Dicentrarchus labrax nervous necrosis virus isolate with distinct pathogenicity to sea bass larvae. Dis. Aquat. Organ. 2001, 45:25-31.
7. Breuil G., Pepin J.F.P., Boscher S., Thiéry R. Experimental vertical transmission of nodavirus from broodfish to eggs and larvae of the sea bass, Dicentrarchus labrax (L.). J. Fish Dis. 2002, 25:697-702.
8. Chérif N., Gagné N., Groman D., Kibenge F., Iwamoto T., Yason C., Hammami S. Complete sequencing of Tunisian redspotted grouper nervous necrosis virus Betanodavirus capsid gene and RNA-dependent RNA polymerase gene. J. Fish Dis. 2010, 33:231-240.
9. Chi S.C., Lo C.F., Kou G.H., Chang P.S., Peng S.E., Chen S.N. Mass mortalities associated with viral nervous necrosis (VNN) disease in two species of hatchery-reared grouper, Epinephelus fuscogutatus and Epinephelus akaara (Temminck & Schlegel). J. Fish Dis. 1997, 20:185-193.
10. Chi S.C., Lin S.C., Su H.M., Hu W.W. Temperature effect on nervous necrosis virus infection in grouper cell line and in grouper larvae. Virus Res. 1999, 63:107-114.
11. Chi S.C., Shieh J.R., Lin S.J. Genetic and antigenic analysis of betanodaviruses isolated from aquatic organisms in Taiwan. Dis. Aquat. Organ. 2003, 55:221-228.
12. Ciulli S., Gallardi D., Scagliarini A., Battilani M., Hedrick R.P., Prosperi S. Temperature-dependency of Betanodavirus infection in SSN-1 cell line. Dis. Aquat. Organ. 2006, 68:261-265.
13. Curtis P.A., Drawbridge M., Iwamoto T., Nakai T., Hedrick R.P., Gendron A.P. Nodavirus infection of juvenile white seabass, Atractoscion nobilis, cultured in southern California: first record of viral nervous necrosis (VNN) in North America. J. Fish Dis. 2001, 24:263-271.
14. Dasmahapatra B., Dasgupta R., Ghosh A., Kaesberg P. Structure of the black beetle virus genome and its functional implications. J. Mol. Biol. 1985, 182(2):183-189.
15. Dasgupta R., Ghosh A., Dasmahapatra B., Guarino L.A., Kaesberg P. Primary and secondary structure of black beetle virus RNA2, the genomic messenger for BBV coat protein precursor. Nucleic Acids Res. 1984, 12(18):7215-7223.
16. Domingo E. Viruses at the edge of adaption. Virology 2000, 270:251-253.
17. Fenner B.J., Thiagarajan R., Chua H.K., Kwang J. Betanodavirus B2 is an RNA interference antagonist that facilitates intracellular viral RNA accumulation. J. Virol. 2006, 80(1):85-94.
18. Frerichs G.N., Rodger H.D., Peric Z. Cell culture isolation of piscine neuropathy nodavirus from juvenile sea bass, Dicentrarchus labrax. J. Gen. Virol. 1996, 77:2067-2071.
19. Gagné N., Johnson S.C., Cook-Versloot M., MacKinnon A.M., Olivier G. Molecular detection and characterization of nodavirus in several marine fish species from the northeastern Atlantic. Dis. Aquat. Organ. 2004, 62:181-189.
20. Gomez D.K., Baeck G.W., Kim J.H., Choresca C.H., Park S.C. Molecular detection of betanodavirus in wild marine fish populations in Korea. J. Vet. Diagn. Invest. 2008, 20:38-44.
21. Grotmol S., Nerland A.H., Biering E., Totland G.K., Nishizawa T. Characterisation of the capsid protein gene from a nodavirus strain affecting the Atlantic halibut Hippoglossus hippoglossus and design of an optimal reverse-trancriptase polymerase chain reaction (RT-PCR) detection assay. Dis. Aquat. Organ. 2000, 39:79-88.
22. Hegde A., Chen C.L., Qin Q.W., Lam T.J., Sin Y.M. Characterization, pathogenicity and neutralization studies of a nervous necrosis virus isolated from grouper, Epinephelus tauvina, in Singapore. Aquaculture 2002, 213:55-72.
23. Hedge A., Teh H.C., Lam T.J., Sin Y.M. Nodavirus infection in freshwater ornamental fish, guppy, Poicelia reticulata - comparative characterization and pathogenicity studies. Arch. Virol. 2003, 148:575-586.
24. Hicka P., Richard J.W. Optimisation and validation of a real-time reverse transcriptase-polymerase chain reaction assay for detection of betanodavirus. J. Virol. Methods 2010, 163:368-377.
25. Iwamoto T., Mise K., Mori K., Arimoto M., Nakai T., Okuno T. Establishment of an infectious RNA transcription system for Striped jack nervous necrosis virus, the type species of the betanodaviruses. J. Gen. Virol. 2001, 82:2653-2662.
26. Iwamoto T., Mise K., Takeda A., Okinaka Y., Mori Y., Arimotor M., Okuno T., Nakai T. Characterization of Striped jack nervous necrosis virus subgenomic RNA3 and biological activities of it encoded protein B2. J. Gen. Virol. 2005, 86:2807-2816.
27. Iwamoto T., Mori K., Arimoto M., Nakai T. High permissivity of the fish cell line SSN-1 for piscine nodaviruses. Dis. Aquat. Organ. 1999, 39:37-47.
28. Iwamoto T., Okinaka Y., Mise K., Mori K., Arimoto M., Okuno T., Nakai T. Identification of host-specificity determinants in betanodaviruses by using reassortants between Striped jack nervous necrosis virus and Sevenband grouper nervous necrosis virus. J. Virol. 2004, 78(3):1256-1262.
29. Johansen R., Ranheim T., Hansen M.K., Taksdal T., Totland G.K. Pathological changes in juvenile Atlantic halibut Hippoglossus hippoglossus persistently infected with nodavirus. Dis. Aquat. Organ. 2002, 50:161-169.
30. Johansen R., Sommerset I., Torud B., Korsnes K., Hjortaas M.J., Nilsen F., Nerland A.H., Dannevig B.H. Characterization of nodavirus and viral encephalopathy and retinopathy in farmed turbot, Scophthalmus maximus (L.). J. Fish Dis. 2004, 27:591-601.
31. Johnson S.C., Sperker S.A., Leggiadro C.T., Groman D.B., Griffiths S.G., Ritchie R.J., Cook M.D., Cusack R.R. Identification and characterization of a piscine neuropathy and nodavirus from juvenile Atlantic cod from the Atlantic Coast of North America. J. Aquat. Anim. Health 2002, 14(2):124-133.
32. Lai Y.S., Chiu H.C., Murali S., Guo I.C., Chen S.C., Fang K., Chang Y.C. In vitro neutralization by monoclonal antibodies against yellow grouper nervous necrosis virus (YGNNV) and immunolocalization of virus infection in yellow grouper, Epinephelus awoara (Temminck & Schlegel). J. Fish Dis. 2001, 24:237-244.
33. Lee K.W., Chi S.C., Cheng T.M. Interference of the life cycle of fish nodavirus with fish retrovirus. J. Gen. Virol. 2002, 83:2469-2474.
34. Li T.C., Scotti P.D., Miyamura T., Takeda N. Latent infection of a new Alphanodavirus in an insect cell line. J. Virol. 2007, 81(20):10890-10896.
35. Maeno Y., de la Pena L.D., Cruz-Lacierda E.R. Susceptibility of fish species cultured in mangrove brackish area to piscine nodavirus. Jpn. Agric. Res. Q. 2007, 41:95-99.
36. Manin B.O., Ransangan J. Experimental evidence of horizontal transmission of Betanodavirus in hatchery-produced Asian seabass, Lates calcarifer and brown-marbled grouper, Epinephelus fuscoguttatus fingerling. Aquaculture 2011, 321:157-165.
37. Moody N.J.G., Horwood P.F., Reynolds A., Mahony T.J., Anderson I.G., Oakey H.J. Phylogenetic analysis of betanodavirus isolates from Australian finfish. Dis. Aquat. Organ. 2009, 87:151-160.
38. Mori K., Mangyoku T., Iwamoto T., Arimoto M., Tanaka S., Nakai T. Serological relationships among genotypic variants of betanodavirus. Dis. Aquat. Organ. 2003, 57:19-26.
39. Mori K., Nakai T., Muroga K., Arimoto M., Mushiake K., Furusawa I. Properties of a new virus belonging to Nodaviridae found in larval striped jack (Pseudocaranx dentex) with nervous necrosis. Virology 1992, 187:368-371.
40. Munday B.L., Kwang J., Moody N. Betanodavirus infections of teleost fish: a review. J. Fish Dis. 2002, 25:127-142.
41. Munday B.L., Nakai T. Special topic review: Nodaviruses as pathogens in larval and juvenile marine finfish. World J. Microbiol. Biotechnol. 1997, 13:375-381.
42. Mushiake K., Arimoto M., Furusawa T., Furusawa I., Nakai T., Muroga K. Detection of antibodies against striped jack nervous necrosis virus (SJNNV) from brood stocks of striped jack. Nippon Suisan Gakk 1992, 58(12):2351-2356.
43. Mushiake K., Nishizawa T., Nakai T., Furusawa I., Muroga K. Control of VNN in striped jack: selection of spawners based on the detection of SJNNV gene by polymerase chain reaction (PCR). Fish Pathol. 1994, 29(3):177-182.
44. Nagai T., Nishizawa T. Sequence of the non-structural protein gene encoded by RNA1 of striped jack nervous necrosis virus. J. Gen. Virol. 1999, 80:3019-3022.
45. Newman J.F.E., Brown F. Absence of poly(A) from the infective RNA of nodamura virus. J. Gen. Virol. 1976, 30:137-140.
46. Nguyen H.D., Nakai T., Muroga K. Progression of striped jack nervous necrosis virus (SJNNV) infection in naturally and experimentally infected striped jack Pseudocaranx dentex larvae. Dis. Aquat. Organ. 1996, 24:99-105.
47. Nishizawa T., Furuhashi M., Nagai T., Nakai T., Muroga K. Genomic classification of fish nodaviruses by molecular phylogenetic analysis of the coat protein gene. Appl. Environ. Microbiol. 1997, 63(4):1633-1636.
48. Nishizawa T., Mori K., Furuhashi M., Nakai T., Furusawa I., Muroga K. Comparison of the coat protein genes of five fish nodaviruses, the causative agents of viral nervous necrosis in marine fish. J. Gen. Virol. 1995, 76:1563-1569.
49. Nishizawa T., Takano R., Muroga K. Mapping a neutralizing on the coat protein of striped jack nervous necrosis virus. J. Gen. Virol. 1999, 80:3023-3027.
50. Nylund A., Karlsbakk E., Nylund S., Isaken T.E., Karlsen M., Korsnes K., Handeland S., Martinsen R., Pedersen T.M., Ottem K.F. New clade of betanodaviruses detected in wild and farmed cod (Gadus morhua) in Norway. Arch. Virol. 2008, 153:541-547.
51. Office International des Epizooties (OIE) Viral encephalopathy and retinopathy. Diagnostic Manual for Aquatic Animal Diseases 2000, OIE, Paris, pp. 69-73.
52. Oh M.J., Jung S.J., Kim S.R., Rajendran K.V., Kim Y.J., Choi T.J., Kim H.R., Kim J.D. A fish nodavirus associated with mass mortality in hatchery-reared red drum, Sciaenops ocellatus. Aquaculture 2002, 211:1-7.
53. Okinaka Y., Nakai T. Comparison of the complete genome of four betanodavirus genotypes. Dis. Aquat. Organ. 2008, 80:113-121.
54. Olveira J.G., Souto S., Dopazo C.P., Thiéry R., Barja J.L., Bandín I. Comparative analysis of both genomic segments of betanodaviruses isolated from epizootic outbreaks in farmed fish species provides evidence for genetic reassortment. J. Gen. Virol. 2009, 90:2940-2951.
55. Othman M.F. FAO/NACA Regional Workshop on the Future Mariculture: A Regional Approach for Responsible Development in the Asia_Pacific Region, Guangzhou, China, 7-11 March 2006. FAO Fisheries Proceedings No. 11 2008, 207-224. FAO, Rome. A. Lovatelli, M.J. Phillips, J.R. Arthur, K. Yamamoto (Eds.).
56. Parameswaran V., Kumar S.J., Ahmeed V.P.I., Hameed A.S.S. A fish associated with mass mortality in hatchery-reared Asian seabass, Lates calcarifer. Aquaculture 2008, 275:366-369.
57. Ransangan J., Manin B.O. Mass mortality of hatchery-produced larvae of Asian seabass, Lates calcarifer (Bloch), associated with viral nervous necrosis in Sabah, Malaysia. Vet. Microbiol. 2010, 145:153-157.
58. Ransangan J., Manin B.O., Abdullah A., Roli Z., Sharudin E.F. Betanodavirus infection in golden pompano, Trachinotus blochii, fingerlings cultured in deep sea cage culture facility in Langkawi, Malaysia. Aquaculture 2011, 315:327-334.
59. Roongkamnertwongsa S., Kanchanakhan S., Danayadol Y., Direkbusarakom S. Identification of a betanodavirus isolated from viral nervous necrosis disease in red-spotted grouper (Epinephelus coioides) cultured in Thailand using PCR and sequence analysis. Diseases in Asian Aquaculture V 2005, 207-216. Fish Health Section, Asian Fisheries Society, Manila. P. Walker, R. Lester, M.G. Bondad-Reantaso (Eds.).
60. Routhier E., Bruenn J.A. Functions of conserved motifs in the RNA-dependent RNA polymerase of a yeast double-stranded RNA virus. J. Virol. 1998, 72(5):4427-4429.
61. Saitou N., Nei M. The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4:406-425.
62. Skliris G.P., Krondiris J.V., Sideris D.C., Shinn A.P., Starkey W.G., Richards R.H. Phylogenetic and antigenic characterization of new fish nodavirus isolates from Europe and Asia. Virus Res. 2001, 75:59-67.
63. Sommerset I., Nerland A.H. Complete sequence of RNA1 and subgenomic RNA3 of Atlantic halibut nodavirus (AHNV). Dis. Aquat. Organ. 2004, 58:117-125.
64. Takizawa N., Adachi K., Kobayashi N. Establishment of reverse genetics system of betanodavirus for the efficient recovery of infectious particles. J. Virol. Methods 2008, 151:271-276.
65. Tamura K., Nei M. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 1993, 10:512-526.
66. Tan C., Huang B., Chang S.F., Ngoh G.H., Munday B., Chen S.C., Kwang J. Determination of the complete nucleotide sequences of RNA1 and RNA2 from greasy grouper (Epinephelus tauvina) nervous necrosis virus, Singapore strain. J. Gen. Virol. 2001, 82:647-653.
67. Thíery R., cozien J., de Boisséson C., Kerbart-Boscher S., Névarez L. Genomic classification of new betanodavru isolates by phylogenetic analysis of the coat protein gene suggests alow host-fish species specificity. J. Gen. Virol. 2004, 85:3079-3087.
68. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTALW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994, 22:4673-4680.
69. Toffolo V., Negrisolo E., Maltese C., Bovo G., Belvedere P., Colombo L., Valle L.D. Phylogeny of betanodaviruses and molecular evolution of their RNA polymerase and coat proteins. Mol. Phylogenet. Evol. 2007, 43:298-308.
70. Ucko M., Colorni A., Diamant A. Nodavirus infections in Israeli mariculture. J. Fish Dis. 2004, 27:459-469.
71. Venter P.A., Schneemann A. Recent insights into the biology and biomedical applications of Flock House virus. Cell. Mol. Life Sci. 2008, 65:2675-2687.
72. Watanabe K., Nishizawa T., Yoshimizu M. Selection of brood stock candidates of barfin flounder using an ELISA system with recombinant protein of barfin flounder nervous necrosis virus. Dis. Aquat. Organ. 2000, 41:219-223.
73. Wu Y.M., Hsu C.H., Wang C.H., Liu W., Chang W., Lin C.S. Role of the DxxDxD motif in the assembly and stability of betanodavirus particles. Arch. Virol. 2008, 153:1633-1642.
74. Wynsberghe P.M.V., Chen H.R., Ahlquist P. Nodavirus RNA replication protein A induces membrane association of genomic RNA. J. Virol. 2007, 81(9):4633-4644.
75. Yuasa K., Koesharyani I., Mahardika K. Effect of high water temperature on betanodavirus infection of fingerling humpback grouper, Cromileptes altivelis. Fish Pathol. 2007, 42(4):219-221.