Identification of Multipath Genes Differentially Expressed in Pathway-Targeted Microarrays in Zebrafish Infected and Surviving Spring Viremia Carp Virus (SVCV) Suggest Preventive Drug Candidates

PLoS ONE

Volumn 8, Issue 9, 2013, Pages

  Encinas, Paloma ^a   Garcia Valtanen, Pablo ^b   Chinchilla, Blanca ^a   Gomez Casado, Eduardo ^a   Estepa, Amparo ^b   Coll, Julio ^a  

^a INIA   (Spain)

^b MIGUEL HERNÁNDEZ UNIVERSITY   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

B LYMPHOCYTE RECEPTOR; CASPASE 3; CD8ALPHA ANTIGEN; FAS LIGAND; GAMMA INTERFERON; INTERFERON; INTERLEUKIN 1BETA; MAJOR HISTOCOMPATIBILITY ANTIGEN CLASS 1; MITOGEN ACTIVATED PROTEIN KINASE 14; MITOGEN ACTIVATED PROTEIN KINASE KINASE 1; PHOSPHATIDYLINOSITOL 3 KINASE; RETINOIC ACID INDUCIBLE PROTEIN I; T LYMPHOCYTE RECEPTOR; TOLL LIKE RECEPTOR; TUMOR NECROSIS FACTOR ALPHA; TUMOR NECROSIS FACTOR RECEPTOR ASSOCIATED FACTOR 6;

AKT3A GENE; ANIMAL CELL; ANIMAL EXPERIMENT; ANIMAL MODEL; ANTIGEN PRESENTATION; ARTICLE; CARP SPRING VIREMIA VIRUS; CHUK GENE; CONTROLLED STUDY; DNA MICROARRAY; DNA SEQUENCE; DOWN REGULATION; EMBRYO; GENE; GENE EXPRESSION REGULATION; GENE FUNCTION; GENE IDENTIFICATION; GENETIC ASSOCIATION; GENETIC TRANSCRIPTION; HRAS GENE; IFNG1 GENE; IFNG2 GENE; IFNPHI3 GENE; IL1B GENE; IMMUNE RESPONSE; IMMUNE RESPONSE GENE; INTRACELLULAR SIGNALING; MAJOR HISTOCOMPATIBILITY COMPLEX; MAP2K1 GENE; MAP3K7 GENE; MAPK14A GENE; MICROARRAY ANALYSIS; MULTIPATH GENE; NFKB2 GENE; NFKBIAB GENE; NONHUMAN; NUCLEOTIDE SEQUENCE; PIK3R5 GENE; PROMOTER REGION; PROTEIN LOCALIZATION; RAC1 GENE; RAF1B GENE; RECEPTOR GENE; RHABDOVIRUS; SPRING VIREMIA OF CARP; T LYMPHOCYTE ACTIVATION; TNFA GENE; TRAF6 GENE; UPREGULATION; VIRUS CELL INTERACTION; ZEBRA FISH;

ANIMALS; FISH DISEASES; VESICULOVIRUS; ZEBRAFISH;

EID: 84884175036     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0073553     Document Type: Article

References (60)

1. Ahne W, Bjorklund HV, Essbauer S, Fijan N, Kurath G, et al. (2002) Spring viremia of carp (SVC). Dis Aquat Organ 52: 261-272. doi:10.3354/dao052261. PubMed: 12553453.
2. Bovo G, (2005) Major health features in the EU squaculture following the recent entry of 10 new members countries. Vet Res Commun 29: 123-127. doi:10.1023/B:VERC.0000047497.57392.8c.
3. Gomez-Casado E, Estepa A, Coll JM, (2011) A comparative review on European-farmed finfish RNA viruses and their vaccines. Vaccine 29: 2657-2671. doi:10.1016/j.vaccine.2011.01.097. PubMed: 21320546.
4. Kurath G, (2008) Biotechnology and DNA vaccines for aquatic animals. Rev Sci Tech 27: 175-196. PubMed: 18666487.
5. Ballesteros NA, Saint-Jean SS, Encinas PA, Perez-Prieto SI, Coll JM, (2012) Oral immunization of rainbow trout to infectious pancreatic necrosis virus (Ipnv) induces different immune gene expression profiles in head kidney and pyloric ceca. Fish Shellfish Immunol 33: 174-185. doi:10.1016/j.fsi.2012.03.016. PubMed: 22521628.
6. delasHeras AI, Saint-Jean SR, Pérez-Prieto SI, (2010) Immunogenic and protective effects of an oral DNA vaccine against infectious pancreatic necrosis virus in fish. Fish & Shellfish Immunology 28: 562-570.
7. Secombes C, (2008) Will advances in fish immunology change vaccination strategies? Fish Shellfish Immunol 25: 409-416. doi:10.1016/j.fsi.2008.05.001. PubMed: 18562212.
8. Goetz FW, MacKenzie S, (2008) Functional genomics with microarrays in fish biology and fisheries. Fish Fish 9: 378-395. doi:10.1111/j.1467-2979.2008.00301.x.
9. Purcell MK, Laing KJ, Winton JR, (2012) Immunity to Fish Rhabdoviruses. VirusesBasel 4: 140-166. PubMed: 22355456.
10. Ludwig M, Palha N, Torhy C, Briolat V, Colucci-Guyon E, et al. (2011) Whole-body analysis of a viral infection: vascular endothelium is a primary target of infectious hematopoietic necrosis virus in zebrafish larvae. PLOS Pathog 7: e1001269.
11. Sanders GE, Batts WN, Winton JR, (2003) Susceptibility of zebrafish (Danio rerio) to a model pathogen, spring viremia of carp virus. Comp Med 53: 514-521. PubMed: 14655994.
12. López-Muñoz A, Roca FJ, Sepulcre MP, Meseguer J, Mulero V, (2010) Zebrafish larvae are unable to mount a protective antiviral response against waterborne infection by spring viremia of carp virus. Dev Comp Immunol 34: 546-552. doi:10.1016/j.dci.2009.12.015. PubMed: 20045026.
13. Novoa B, Romero A, Mulero V, Rodríguez I, Fernández I, et al. (2006) Zebrafish (Danio rerio) as a model for the study of vaccination against viral haemorrhagic septicemia virus (VHSV). Vaccine 24: 5806-5816. doi:10.1016/j.vaccine.2006.05.015. PubMed: 16777275.
14. LaPatra SE, Barone L, Jones GR, Zon LI, (2000) Effects on infectious hematopoietic necrosis virus and infectious necrosis virus infection on hematopoietic precursosrs of the zebrafish. Blood Cell Molecular Dis 26: 445-452. doi:10.1006/bcmd.2000.0320.
15. Phelan PE, Pressley ME, Witten PE, Mellon MT, Blake S, et al. (2005) Characterization of snakehead rhabdovirus infection in zebrafish (Danio rerio). J Virol 79: 1842-1852. doi:10.1128/JVI.79.3.1842-1852.2005. PubMed: 15650208.
16. Encinas P, Rodriguez-Milla MA, Novoa B, Estepa A, Figueras A, et al. (2010) Zebrafish fin immune responses during high mortality infections with viral haemorrhagic septicemia rhabdovirus. A proteomic and transcriptomic approach. BMC Genomics 11: 518-534. doi:10.1186/1471-2164-11-518. PubMed: 20875106.
17. Hoffmann B, Schütze H, Mettenleiter TC, (2002) Determination of the complete genomic sequence and analysis of the gene products of the virus of Spring Viremia of Carp, a fish rhabdovirus. Virus Res 84: 89-100. doi:10.1016/S0168-1702(01)00441-5. PubMed: 11900842.
18. Padhi A, Verghese B, (2011) Molecular evolutionary and epidemiological dynamics of a highly pathogenic fish rhabdovirus, the spring viremia of carp virus (SVCV). Vet Microbiol 156: 54-63. PubMed: 22033044.
19. Byon JY, Ohira T, Hirono I, Aoki T, (2005) Use of a cDNA microarray to study immunity against viral hemorrhagic septicemia (VHS) in Japanese flounder (Paralichthys olivaceus) following DNA vaccination. Fish Shellfish Immunol 18: 135-147. doi:10.1016/j.fsi.2004.06.008. PubMed: 15475310.
20. Byon JY, Ohira T, Hirono I, Aoki T, (2006) Comparative immune responses in Japanese flounder, Paralichthys olivaceus after vaccination with viral hemorrhagic septicemia virus (VHSV) recombinant glycoprotein and DNA vaccine using a microarray analysis. Vaccine 24: 921-930. doi:10.1016/j.vaccine.2005.08.087. PubMed: 16185791.
21. Díaz-Rosales P, Romero A, Balseiro P, Dios S, Novoa B, et al. (2012) Microarray-Based Identification of Differentially Expressed Genes in Families of Turbot (Scophthalmus maximus) After Infection with Viral Haemorrhagic Septicaemia Virus (VHSV). Mar Biotechnol (NY) 14: 515-529. doi:10.1007/s10126-012-9465-0. PubMed: 22790792.
22. Purcell MK, Nichols KM, Winton JR, Kurath G, Thorgaard GH, et al. (2006) Comprehensive gene expression profiling following DNA vaccination of rainbow trout against infectious hematopoietic necrosis virus. Mol Immunol 43: 2089-2106. doi:10.1016/j.molimm.2005.12.005. PubMed: 16426680.
23. MacKenzie S, Balasch JC, Novoa B, Ribas L, Roher N, et al. (2008) Comparative analysis of the acute response of the trout, O. mykiss, head kidney to in vivo challenge with virulent and attenuated infectious hematopoietic necrosis virus and LPS-induced inflammation. BMC Genomics 9: 141. doi:10.1186/1471-2164-9-141. PubMed: 18366750.
24. Yasuike M, Kondo H, Hirono I, Aoki T, (2007) Difference in Japanese flounder, Paralichthys olivaceus gene expression profile following hirame rhabdovirus (HIRRV) G and N protein DNA vaccination. Fish Shellfish Immunol 23: 531-541. doi:10.1016/j.fsi.2006.12.006. PubMed: 17449275.
25. Encinas P, Gomez-Casado E, Estepa A, Coll JM, (2012) Use of microarray technology to improve DNA vaccines in fish aquaculture: the rhabdoviral model Health and environment in Aquaculture, INTECH, Croatia edEDCarvalho, GSDavid, and RJda Silva ISBN 978-953-51-0497-1 chapter 10: 251-276.
26. Pereiro P, Balseiro P, Romero A, Dios S, Forn-Cuni G, et al. (2012) High-Throughput Sequence Analysis of Turbot (Scophthalmus maximus) Transcriptome Using 454-Pyrosequencing for the Discovery of Antiviral Immune Genes. PLOS ONE 7: e35369. doi:10.1371/journal.pone.0035369. PubMed: 22629298.
27. Nam BH, Yamamoto E, Hirono I, Aoki T, (2000) A survey of expressed genes in the leukocytes of Japanese flounder, Paralichthys olivaceus, infected with Hirame rhabdovirus. Dev Comp Immunol 24: 13-24. doi:10.1016/S0145-305X(99)00058-0.
28. Aoki T, Nam BH, Hirono II, Yamamoto E, (1999) Sequences of 596 cDNA Clones (565,977 bp) of Japanese Flounder (Paralichthys olivaceus) Leukocytes Infected with Hirame Rhabdovirus. Mar Biotechnol NY 1: 477-0488. doi:10.1007/PL00011804.
29. Kurobe T, Yasuike M, Kimura T, Hirono I, Aoki T, (2005) Expression profiling of immune-related genes from Japanese flounder Paralichthys olivaceus kidney cells using cDNA microarrays. Dev Comp Immunol 29: 515-523. doi:10.1016/j.dci.2004.10.005. PubMed: 15752548.
30. von Schalburg KR, Rise ML, Cooper GA, Brown GD, Gibbs AR, et al. (2005) Fish and chips: various methodologies demonstrate utility of a 16,006-gene salmonid microarray. BMC Genomics 6: 126. doi:10.1186/1471-2164-6-126.
31. Driever W, Rangini Z, (1993) Characterization of a cell line derived from zebrafish (Brachydanio rerio) embryos. In Vitro Cell Dev Biol 294: 749-754.
32. Fijan N, Petrinec Z, Sulimanovic D, Zwillenberg LO, (1971) Isolation of the viral causative agent from the acute form of infectious dropsy of carp. Veterinary Arch 41: 125-138.
33. Cartharius K, Frech K, Grote K, Klocke B, Haltmeier M, et al. (2005) MatInspector and beyond: promoter analysis based on transcription factor binding sites. Bioinformatics 21: 2933-2942. doi:10.1093/bioinformatics/bti473.
34. Nair S, Doh ST, Chan JY, Kong AN, Cai L, (2008) Regulatory potential for concerted modulation of Nrf2- and Nfkb1-mediated gene expression in inflammation and carcinogenesis. Br J Cancer 99: 2070-2082. doi:10.1038/sj.bjc.6604703.
35. Kanther M, Sun X, Muhlbauer M, Mackey LC, Flynn EJ 3rd, et al. (2011) Microbial colonization induces dynamic temporal and spatial patterns of NF-kappaB activation in the zebrafish digestive tract. Gastroenterology 141: 197-207. doi:10.1053/j.gastro.2011.03.042.
36. López-Muñoz A, Roca FJ, Meseguer J, Victoriano Mulero V, (2009) New insights into the evolution of IFNs: zebrafish group II IFNs induce a rapid and transient expression of IFN-dependent genes and display powerful antiviral activities. J Immunol 182: 3440-3449. doi:10.4049/jimmunol.0802528.
37. Lopez-Munoz A, Sepulcre MP, Roca FJ, Figueras A, Meseguer J, et al. (2011) Evolutionary conserved pro-inflammatory and antigen presentation functions of zebrafish IFNgamma revealed by transcriptomic and functional analysis. Mol Immunol 48: 1073-1083. doi:10.1016/j.molimm.2011.01.015.
38. Stolte EH, Savelkoul HFJ, Wiegertjes G, Flik G, Verburg-van Kemenade BML, (2008) Differential expression of two interferon-gamma genes in common carp (Cyprinus carpio L.). Dev Comp Immunol 32: 1467-1481. doi:10.1016/j.dci.2008.06.012.
39. Aggad D, Stein C, Sieger D, Mazel M, Boudinot P, et al. (2010) In vivo analysis of Ifn-gamma1 and Ifn-gamma2 signaling in zebrafish. J Immunol 185: 6774-6782. doi:10.4049/jimmunol.1000549.
40. Falco A, Cartwright JR, Wiegertjes GF, Hoole D, (2012) Molecular characterization and expression analysis of two new C-reactive protein genes from common carp (Cyprinus carpio). Dev Comp Immunol 37: 127-138. doi:10.1016/j.dci.2011.10.005.
41. Vallabhapurapu S, Karin M, (2009) Regulation and function of NF-kappaB transcription factors in the immune system. Annu Rev Immunol 27: 693-733. doi:10.1146/annurev.immunol.021908.132641.
42. Cotter CR, Kim WK, Nguyen ML, Yount JS, Lopez CB, et al. (2011) The virion host shutoff protein of herpes simplex virus 1 blocks the replication-independent activation of NF-kappaB in dendritic cells in the absence of type I interferon signaling. J Virol 85: 12662-12672. doi:10.1128/JVI.05557-11.
43. Doukas T, Sarnow P, (2011) Escape from transcriptional shutoff during poliovirus infection: NF-kappaB-responsive genes IkappaBa and A20. J Virol 85: 10101-10108. doi:10.1128/JVI.00575-11.
44. Georgel P, Jiang ZF, Kunz S, Janssen E, Mols J, et al. (2007) Vesicular stomatitis virus glycoprotein G activates a specific antiviral Toll-like receptor 4-dependent pathway. Virology 362: 304-313. doi:10.1016/j.virol.2006.12.032.
45. Wang WL, Liu W, Gong HY, Hong JR, Lin CC, et al. (2011) Activation of cytokine expression occurs through the TNFa/NF-kB-mediated pathway in birnavirus-infected cells. Fish Shellfish Immunol 31: 10-21. doi:10.1016/j.fsi.2011.01.015.
46. Sepulcre MP, Alcaraz-Perez F, Lopez-Munoz A, Roca FJ, Meseguer J, et al. (2009) Evolution of Lipopolysaccharide (LPS) Recognition and Signaling: Fish TLR4 Does Not Recognize LPS and Negatively Regulates NF-kappaB Activation. J Immunol 182: 1836-1845. doi:10.4049/jimmunol.0801755.
47. Sepulcre MP, Sarropoulou E, Kotoulas G, Meseguer J, Mulero V, (2007) Vibrio anguillarum evades the immune response of the bony fish sea bass (Dicentrarchus labrax L.) through the inhibition of leukocyte respiratory burst and down-regulation of apoptotic caspases. Mol Immunol 44: 3751-3757. doi:10.1016/j.molimm.2007.03.021.
48. Sepulcre MP, Munoz I, Roca FJ, Lopez-Munoz A, Mulero V, (2010) Molecular strategies used by fish pathogens to interfere with host-programmed cell death. Dev Comp Immunol 34: 603-610. doi:10.1016/j.dci.2010.01.010. PubMed: 20097221.
49. Acosta F, Collet B, Lorenzen N, Ellis AE, (2006) Expression of the glycoprotein of viral haemorrhagic septicaemia virus (VHSV) on the surface of the fish cell line RTG-P1 induces type 1 interferon expression in neighbouring cells. Fish Shellfish Immunol 21: 272-278. doi:10.1016/j.fsi.2005.12.006.
50. Samuel CE, (2001) Antiviral Actions of Interferons. Clin Microbiol Rev 14: 778-809. doi:10.1128/CMR.14.4.778-809.2001.
51. Tafalla C, Coll J, Secombes CJ, (2005) Expression of genes related to the early immune response in rainbow trout (Oncorhynchus mykiss) after viral haemorrhagic septicemia virus (VHSV) infection. Dev Comp Immunol 29: 615-626. doi:10.1016/j.dci.2004.12.001.
52. Tafalla C, Chico V, Pérez L, Coll JM, Estepa A, (2007) In vitro and in vivo differential expression of rainbow trout (Oncorhynchus mykiss) Mx isoforms in response to viral haemorrhagic septicaemia virus (VHSV) G gene, poly I:C and VHSV. Fish Shellfish Immunol 23: 210-221. doi:10.1016/j.fsi.2006.10.009. PubMed: 17157032.
53. Yao XD, Rosenthal KL, (2011) Herpes simplex virus type 2 virion host shutoff protein suppresses innate dsRNA antiviral pathways in human vaginal epithelial cells. J Gen Virol 92: 1981-1993. doi:10.1099/vir.0.030296-0.
54. Horst D, Burmeister WP, Boer IG, van Leeuwen D, Buisson M, et al. (2012) The "Bridge" in the Epstein-Barr Virus Alkaline Exonuclease Protein BGLF5 Contributes to Shutoff Activity during Productive Infection. J Virol 86: 9175-9187. doi:10.1128/JVI.00309-12. PubMed: 22696660.
55. Korom M, Wylie KM, Morrison LA, (2008) Selective ablation of virion host shutoff protein RNase activity attenuates herpes simplex virus 2 in mice. J Virol 82: 3642-3653. doi:10.1128/JVI.02409-07. PubMed: 18234805.
56. Page HG, Read GS, (2010) The virion host shutoff endonuclease (UL41) of herpes simplex virus interacts with the cellular cap-binding complex eIF4F. J Virol 84: 6886-6890. doi:10.1128/JVI.00166-10. PubMed: 20427534.
57. Desforges M, Charron J, Bérard S, Beausoleil S, Stojdl DF, et al. (2001) Different host-cell shutoff strategies related to the matrix protein lead to persistence of vesicular stomatitis virus mutants on fibroblast cells. Virus Res 76: 87-102. doi:10.1016/S0168-1702(01)00251-9. PubMed: 11376849.
58. Picotti P, Bodenmiller B, Aebersold R, (2013) Proteomics meets the scientific method. Nat Methods 10: 24-27. PubMed: 23269373.
59. Gillette MA, Carr SA, (2013) Quantitative analysis of peptides and proteins in biomedicine by targeted mass spectrometry. Nat Methods 10: 28-34. PubMed: 23269374.
60. Smith SB, Dampier W, Tozeren A, Brown JR, Magid-Slav M, (2012) Identification of common biological pathways and drug targets across multiple respiratory viruses based on human host gene expression analysis. PLOS ONE 7: e33174. doi:10.1371/journal.pone.0033174. PubMed: 22432004.