A moderate increase in ambient temperature modulates the Atlantic cod (Gadus morhua) spleen transcriptome response to intraperitoneal viral mimic injection

BMC Genomics

Volumn 13, Issue 1, 2012, Pages

  Hori, Tiago S ^a   Gamperl, A K ^a   Booman, Marije ^a   Nash, Gordon W ^a   Rise, Matthew L ^a  

^a MEMORIAL UNIVERSITY OF NEWFOUNDLAND   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

HYDROCORTISONE; MESSENGER RNA; POLYINOSINIC POLYCYTIDYLIC ACID; TRANSCRIPTOME;

ANIMAL EXPERIMENT; ANIMAL TISSUE; ARTICLE; ATLANTIC COD; CANADA; CLIMATE CHANGE; CONTROLLED STUDY; DHX58 GENE; ENVIRONMENTAL TEMPERATURE; GENE EXPRESSION; GENE IDENTIFICATION; GENETIC TRANSCRIPTION; HYDROCORTISONE BLOOD LEVEL; I KAPPA B ALPHA GENE; IMMUNE RESPONSE; IMMUNOGLOBULIN ENHANCER BINDING PROTEIN GENE; INTERFERON GENE; IRF7 GENE; ISG15 GENE; MICROARRAY ANALYSIS; NONHUMAN; POLYMERASE CHAIN REACTION; RSAD2 GENE; SIGNAL TRANSDUCTION; SIMULATION; SPLEEN; SPLEEN TRANSCRIPTOME RESPONSE; STAT1 GENE; WATER TEMPERATURE;

ANIMALS; CYTOKINES; FISH PROTEINS; FISHERIES; GADUS MORHUA; GENE EXPRESSION PROFILING; HYDROCORTISONE; INJECTIONS, INTRAPERITONEAL; NEWFOUNDLAND AND LABRADOR; NF-KAPPA B; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLY I-C; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, MESSENGER; SPLEEN; TEMPERATURE; TRANSCRIPTOME;

GADUS MORHUA;

EID: 84865317030     PISSN: None     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-13-431     Document Type: Article

References (70)

1. Myers RA, Hutchings JA, Barrowman NJ. Why do fish stocks collapse? The example of cod in Atlantic Canada. Ecol Appl 1997, 7(1):91-106.
2. Kjesbu OS, Taranger GL, Trippel EA. Gadoid mariculture: development and future challenges. ICES J Mar Sci 2006, 63:187-191.
3. Rose GA. Cod: the ecological history of the North Atlantic fisheries 2007, Breakwater Books, St. John's.
4. Brown JA, Minkoff G, Puvanendran V. Larviculture of Atlantic cod (Gadus morhua): progress, protocols and problems. Aquaculture 2003, 227:357-372.
5. Roselund G, Halldórsson O. Cod juvenile production: Research and commercial developments. Aquaculture 2007, 268:188-194.
6. Roselund G, Skretting M. Worldwide status and perspectives on gadoid culture. ICES J Mar Sci 2006, 63:194-197.
7. Pérez-Casanova JC, Afonso LOB, Johnson SC, Currie S, Gamperl AK. The stress and metabolic responses of juvenile Atalntic cod Gadus morhua L. to an acute thermal challenge. J Fish Biol 2008, 72:899-916.
8. Gollock MJ, Currie S, Petersen LH, Gamperl AK. Cardiovascular and hematological responses of Atlantic cod (Gadus morhua) to acute temperature increase. J Exp Biol 2006, 209:2961-2970.
9. Pérez-Casanova JC, Rise ML, Dixon B, Afonso LO, Hall JR, Johnson SC, Gamperl AK. The immune and stress response of Atlantic cod to long-term increases in water temperature. Fish Shellfish Immunol 2008, 24:600-609.
10. Alishahi M, Buchmann K. Temperature-dependent protection against Ichthyophthirius multifiliis following immunisation of rainbow trout using live theronts. Dis Aquat Organ 2006, 72:269-273.
11. Raida MK, Buchmann K. Temperature-dependent expression of immune-relevant genes in rainbow trout following Yersinia ruckeri vaccination. Dis Aquat Organ 2007, 77:41-52.
12. Raida MK, Buchmann K. Bath vaccination of rainbow trout (Oncorhynchus mykiss) againstYersinia ruckeri: effects of temperature on protection and gene expression. Vaccine 2008, 26:1050-1062.
13. Bettge K, Segner H, Burki R, Schmidt-Posthaus H, Wahli T. Proliferative kidney disease (PKD) of rainbow trout: temperature- and time-related changes of Tetracapsuloides bryosalmonae DNA in the kidney. Parasitol 2009, 136:615-625.
14. Varsamos S, Flik G, Pepin JF, Wendelaar Bonga SE, Breuil G. Husbandry stress during early life stages affects the stress response and health status of juvenile sea bass, Dicentrarchus labrax. Fish Shellfish Immunol 2006, 20:83-96.
15. Cheng A-C, Cheng S-A, Chen Y-Y, Chen J-C. Effects of temperature change on innate cellular and humoral immune responses of the orange-spotted grouper Epinephelus coioides and its susceptibility to Vibrio alginolyticus. Fish Shellfish Immunol 2009, 26:768-722.
16. Eggset G, Mikkelsen H, Killie J-EA. Immunocompetence and duration of immunity against Vibrio salmonicida and Aeromonas salmonicida after vaccination of Atlantic salmon (Salmo salar L.) at low and high temperatures. Fish Shellfish Immunol 1997, 7:247-260.
17. Magnadottir B, Jonsdottir H, Helgason S, Bjornsson B, Jorgensen TO, Pilstrom L. Humoral immune parameters in Atlantic cod (Gadus morhua L.): I. The effects of environmental temperature. Comp Biochem Physiol B Biochem Mol Biol 1999, 122:181-188.
18. Rise ML, Jones SRM, Brown GD, von Schalburg KR, Davidson WS, Koop BF. Microarray analyses identify molecular biomarkers of Atlantic salmon macrophage and hematopoietic kidney responses to Piscirickettsia salmonis infection. Physiol Genomics 2004, 20:21-35.
19. Milev-Milovanovic I, Majji S, Thodima V, Deng Y, Hanson L, Arnizaut A, Waldbieser G, Chinchar VG. Identification and expression analyses of poly [I:C]-stimulated genes in channel catfish (Ictalurus punctatus). Fish Shellfish Immunol 2009, 26:811-820.
20. Workenhe ST, Hori TS, Rise ML, Kibenge MJ, Kibenge FS. Infectious salmon anaemia virus (ISAV) isolates induce distinct gene expression responses in the Atlantic salmon (Salmo salar) macrophage/dendritic-like cell line TO, assessed using genomic techniques. Mol Immunol 2009, 46(15):2955-2974.
21. Booman M, Borza T, Feng CY, Hori TS, Higgins B, Culf A, Léger D, Chute IC, Belkaid A, Rise M, Gamperl AK, Hubert S, Kimball J, Ouellette RJ, Johnson SC, Bowman S, Rise ML. Development and experimental validation of a 20 K Atlantic cod (Gadus morhua) oligonucleotide microarray based on a collection of over 150,000 ESTs. Mar Biotechnol (NY) 2011, 13(4):733-750.
22. Rise ML, Hall J, Rise M, Hori T, Gamperl AK, Kimball J, Hubert S, Bowman S, Johnson SC. Functional genomic analysis of the response of Atlantic cod (Gadus morhua) spleen to the viral mimic polyriboinosinic polyribocytidylic acid (pIC). Dev Comp Immunol 2008, 32:916-971.
23. Feng CY, Johnson SC, Hori TS, Rise M, Hall JR, Gamperl AK, Hubert S, Kimball J, Bowman S, Rise ML. Identification and analysis of differentially expressed genes in immune tissues of Atlantic cod stimulated with formalin-killed, atypical Aeromonas salmonicida. Physiol Genomics 2009, 37:149-163.
24. Hori TS, Gamperl AK, Afonso LO, Johnson SC, Hubert S, Kimball J, Bowman S, Rise ML. Heat-shock responsive genes identified and validated in Atlantic cod (Gadus morhua) liver, head kidney and skeletal muscle using genomic techniques. BMC Genomics 2010, 11:72.
25. Rise ML, Hall JR, Rise M, Hori TS, Browne MJ, Gamperl AK, Hubert S, Kimball J, Bowman S, Johnson SC. Impact of asymptomatic nodavirus carrier state and intraperitoneal viral mimic injection on brain transcript expression in Atlantic cod (Gadus morhua). Physiol Genomics 2010, 42:266-280.
26. Bowman S, Hubert S, Higgins B, Stone C, Kimball J, Borza T, Bussey JT, Simpson G, Kozera C, Curtis BA, Hall JR, Hori TS, Feng CY, Rise M, Booman M, Gamperl AK, Trippel E, Symonds J, Johnson SC, Rise ML. An integrated approach to gene discovery and marker development in Atlantic cod (Gadus morhua). Mar Biotechnol (NY) 2011, 13(2):242-255.
27. Steinhagen D, Hespe K, Ellmer B, Körting W. Goussia carpelli (Protozoa: Coccidia) infection in stressed and immunosupressed common carp Cyprinus carpio. Dis Aquat Org 1998, 34:199-204.
28. Hamel OS. Immunosupression in progeny of Chinook salmon infected with Renibacterium salmoninarum: re-analysis of a brood stock segregation experiment. Dis Aquat Org 2005, 65:29-41.
29. Verma AK, Pal AK, Manush SM, Das T, Dalvi RS, Chandrachoodan PP, Ravi PM, Apte SK. Persistent sub-lethal chlorine exposure augments temperature induced immunosupression in Cyprinus carpio advanced fingerlings. Fish Shellfish Immunol 2007, 22:547-555.
30. Hansen J, Sato M, Ruedy R, Lo K, Lea DW, Medina-Elizade M. Global temperature change. PNAS 2006, 103(39):14288-14293.
31. Tusher VG, Tibshirani R, Chu G. Significance analysis of microarrays applied to the ionizing radiation response. Proc Natl Acad Sci USA 2001, 98:5116-5121.
32. Johansson D, Juell J-E, Oppedal F, Stiansen J-E, Ruohonen K. The influence of the pycnocline and cage resistance on current flow, oxygen flow and swimming behaviour of Atlantic salmon (Salmo salar L.) in production cages. Aquaculture 2007, 265:271-287.
33. Oppedal F, Juell J-E, Johansson D. Thermo- and photoregulatory-behaviour influence swimming depth and schooling density of caged Atlantic salmon. Aquaculture 2007, 265:70-81.
34. Wang J-T, Li J-T, Zhang X-F, Sun X-W. Transcriptome analysis reveals the time of the fourth round of genome duplication in common carp (Cyprinus carpio). BMC Genomics 2012, 13:96.
35. Sánchez CC, Weber GM, Gao G, Cleveland BM, Yao J, Rexroad CE. Generation of a reference transcriptome for evaluating rainbow trout responses to various stressors. BMC Genomics 2011, 12:626.
36. Xiang L-X, He D, Dong W-R, Zheng Y-W, Shao J-Z. Deep sequencing-based transcriptome profiling analysis of bacteria-challanged Lateolabrax japonicus reveals insights into the immune-relevant genes in marine fish. BMC Genomics 2010, 11:472.
37. Robertsen B. The interferon system of teleost fish. Fish Shellfish Immunol 2006, 20:172-191.
38. Robertsen B. Expression of interferon and interferon-induced genes in salmonids in response to virus infection, interferon-inducing compounds and vaccination. Fish Shellfish Immunol 2008, 25:351-357.
39. Phelan PE, Mellon MT, Kim CH. Functional characterization of full-length TLR3, IRAK-4, and TRAF6 in zebrafish (Danio rerio). Mol Immunol 2005, 42:1057-1071.
40. Galligan CL, Murooka TT, Rahbar R, Baig E, Majchrzak-Kita B, Fish EN. Interferon and viruses, signaling for supremacy. Immunol Res 2006, 35:27-39.
41. Rebl A, Goldammer T, Seyfert H-M. Toll-like receptor signaling in bony fish. Vet Immunol Immunopathol 2010, 134:139-150.
42. Rodriguez MF, Wiens GD, Purcell MK, Palti Y. Characterization of Toll-like receptor 3 gene in rainbow-trout (Oncorhynchus mykiss). Immunogenetics 2005, 57:510-519.
43. Chiou PP, Lin C-H, Bols NC, Chen TT. Characterization of virus/double-stranded RNA-dependent induction of the antimicrobial peptide hepcidin in trout macrophages. Dev Comp Immunol 2007, 31:1297-1309.
44. Matsumoto M, Seya T. TLR3: Interferon induction by double-stranded RNA including poly(I:C). Adv Drug Deliv Rev 2008, 60:805-812.
45. Palti Y. Toll-like receptors in bony fish: from genomics to function. Dev Comp Immunol 2011, 35(12):1263-1272.
46. Kaway T, Akira S. Toll-like receptor and RIG-I-like receptor signaling. Ann NY Acad Sci 2008, 1143:1-20.
47. Wilkins C, Gale M. Recognition of viruses by cytoplasmic sensors. Curr Opin Immunol 2010, 22:41-47.
48. Gil J, Alcamí J, Esteban M. Activation of NF-κB by the dsRNA-dependent protein kinase, PKR involves the IκB kinase complex. Oncogene 2000, 19:1369-1378.
49. García MA, Meurs EF, Esteban M. The dsRNA protein kinase PKR: virus and cell control. Biochimie 2007, 89:799-811.
50. Kaway T, Akira S. TLR signaling. Cell Death Differ 2006, 13:816-825.
51. Li Q, Verma IM. NF-κB regulation in the immune system. Nature Rev Immunol 2002, 2(10):725-734.
52. Bonizzi G, Karin M. The two NF-κB activation pathways and their roles in innate and adaptive immunity. Trends Immunol 2004, 25(6):280-288.
53. Tamura T, Yanai H, Savitsky D, Taniguchi T. The IRF family transcription factors in immunity and oncogenesis. Annu Rev Immunol 2008, 26:535-584.
54. Noppert SJ, Fitzgerald KA, Hertzog PJ. The role of type I interferon's in TLR responses. Immunol Cell Biol 2007, 85:446-457.
55. Bao X, Indukuri H, Liu T, Liao S-H, Tian B, Brasier AR, Garofalo RP, Casola A. IKKε modulates RSV-induced NF-κB-dependent gene transcription. Virology 2010, 408:224-231.
56. Liu S-Y, Sanchez DJ, Cheng G. New developments on the induction and anti-viral effectors of type I interferon. Curr Opin Immunol 2011, 23:57-64.
57. Furnes C, Kileng T, Rinaldo CH, Seppola M, Jensen I, Robertsen B. Atlantic cod (Gadus morhua L) possesses three homologues of ISG15 with different expression kinetics and conjugation properties. Dev Comp Immunol 2009, 33:1239-1246.
58. Borza T, Stone C, Rise ML, Bowman S, Johnson SC. Atlantic cod (Gadus morhua) CC chemokines: diversity and expression analysis. Dev Comp Immunol 2010, 34:904-913.
59. Engert JC, Bérubé P, Mercier J, Doré C, Lepage P, Ge B, Bouchard J-P, Mathieu J, Melançon SB, Schalling M, Lander ES, Morgan K, Hudson TJ, Richter A. ARSACS, a spastic ataxia common in northeastern Québec, is caused by mutations in a new gene encoding a 11.5-kb ORF. Nature Genet 2000, 24:120-125.
60. Anderson JF, Siller E, Barral JM. The Sacsin repeating region (SRR): a novel hsp90-related supra-domain associated with neurodegeneration. J Mol Biol 2010, 400:665-674.
61. Kultz D. Molecular and evolutionary basis of the cellular stress response. Annu Rev Physiol 2005, 67:225-257.
62. Salminen A, Paimel T, Suuronen T, Kaarniranta K. Innate immunity meets with cellular stress at the IKK complex: regulation of the IKK complex by HSP70 and HSP90. Immunol Lett 2008, 117:9-15.
63. Bø TH, Dysvik B, Jonassen I. LSimpute: accurate estimation of missing values in microarray data with least squares methods. Nucleic Acids Res 2004, 32:e34.
64. Celton M, Malpertuy A, Lelandais G, de Brevern AG. Comparative analysis of missing value imputation methods to improve clustering and interpretation of microarray experiments. BMC Genomics 2010, 11:15.
65. Schwender H, Krause A, Ickstadt K. Identifying interesting genes with siggenes. RNews 2006, 6:45-50.
66. Sturn A, Quackenbush J, Trajanoski Z. Genesis: cluster analysis of microarray data. Bioinformatics 2002, 18:207-208.
67. Conesa A, Götz S, Gracía-Gómez JM, Terol J, Talón M, Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 2005, 21(18):3674-3676.
68. Pfaffl MW. A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res 2001, 29:e45.
69. Livak KJ, Schmittgen TD. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method. Methods 2001, 2:402-408.
70. Cui X, Churchill GA. Statistical tests for differential expression in cDNA microarray experiments. Genome Biol 2003, 4:210.