Transcriptomic response of the Pacific oyster Crassostrea gigas to hypoxia

Marine Genomics

Volumn 3, Issue 3-4, 2010, Pages 133-143

  Sussarellu, Rossana ^a   Fabioux, Caroline ^a   Le Moullac, Gilles ^b   Fleury, Elodie ^b   Moraga, Dario ^a  

^a INSTITUT UNIVERSITAIRE EUROPÉEN DE LA MER   (France)

^b IFREMER   (France)

Author keywords

CDNA microarray; Gene expression; Hypoxia; Mollusca; Oxidative stress; Respiratory chain

Indexed keywords

CRASSOSTREA GIGAS; MOLLUSCA; OSTREIDAE;

EID: 78649497795     PISSN: 18747787     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.margen.2010.08.005     Document Type: Article

References (46)

1. Blain S., Guillou J., Treguer P., Woerther P., Delauney L., Follenfant E., et al. High frequency monitoring of the coastal marine environment using the MAREL buoy. J. Environ. Monitor. 2004, 6:569-575.
2. Boyd J., Burnett L. Reactive oxygen intermediate production by oyster hemocytes exposed to hypoxia. J. Exp. Biol. 1999, 202:3135-3143.
3. Bricker S., Clement C., Pirhalla D., Orlando S., Farrow D. National Estuarine Eutrophication Assessment: Effects of Nutrient Enrichment in the Nation's Estuaries, National Oceanic and Atmospheric Administration (NOAA) 1999, Science Silver Spring.
4. Burgeot T., Gagnaire B., Renault T., Moraga D., David E., Boutet I., et al. Oyster summer morality risks associated with environmental stress, in: Summer Mortality of Pacific Oyster Crassostrea Gigas. The Morest Project 2008, 107-151. J.F. Éd Ifremer/Quæ, H. McCombie (Eds.).
5. Chen J., Mai K., Ma H., Wang X., Deng D., Liu X., et al. Effects of dissolved oxygen on survival and immune responses of scallop (Chlamys farreri Jones et Preston). Fish Shellfish Immunol. 2007, 22:272-281.
6. Conesa A., Gotz S., Garcia-Gomez J.M., Terol J., Talon M., Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 2005, 21:3674-3676.
7. Cooper R.U., Clough L.M., Farwell M.A., West T.L. Hypoxia-induced metabolic and antioxidant enzymatic activities in the estuarine fish Leiostomus xanthurus. J. Exp. Mar. Biol. Ecol. 2002, 279:1-20.
8. David E., Tanguy A., Pichavant K., Moraga D. Response of the Pacific oyster Crassostrea gigas to hypoxia exposure under experimental conditions. FEBS J. 2005, 272:5635-5652.
9. Didier G., Brezellec P., Remy E., Henaut A. GeneANOVA-gene expression analysis of variance. Bioinformatics 2002, 18:490-491.
10. Fabioux C., Huvet A., Lelong C., Robert R., Pouvreau S., Daniel J.Y., et al. Oyster vasa-like gene as a marker of the germline cell development in Crassostrea gigas. Biochem. Biophys. Res. Commun. 2004, 320:592-598.
11. Farcy E., Fleury C., Lelong C., Dubos M., Voiseux C., Fiévet B., et al. Molecular cloning of a new member of the p53 family from the Pacific oyster Crassostrea gigas and seasonal pattern of its transcriptional expression level. Mar. Environ. Res. 2008, 66:300-308.
12. Fleury E., Huvet A., Lelong C., de Lorgeril J., Boulo V., Gueguen Y., et al. Generation and analysis of a 29, 745 unique Expressed Sequence Tags from the Pacific oyster (Crassostrea gigas) assembled into a publicly accessible database: the GigasDatabase. BMC Genomics 2009, 10:341.
13. Fleury E., Moal J., Boulo V., Daniel J., Mazurais D., Hénaut A., et al. Microarray-based identification of gonad transcripts differentially expressed between lines of Pacific oyster selected to be resistant or susceptible to summer mortality. Mar. Biotechnol. 2010, 12:326-339.
14. Gentleman R., Carey V., Bates D., Bolstad B., Dettling M., Dudoit S., et al. Bioconductor: open software development for computational biology and bioinformatics. Genome Biol. 2004, 5:R80.
15. Gorr T.A., Wichman D., Hu J., HermesLima M., Welker A.F., Terwilliger N., Wren J.F., et al. Hypoxia Tolerance in Animals: Biology and Application. Physiol. Biochem. Zool. 2010, 83(5):733-752.
16. Gracey A.Y., Troll J.V., Somero G.N. Hypoxia-induced gene expression profiling in the euryoxic fish Gillichthys mirabilis. Proc. Natl Acad. Sci. USA 2001, 98:1993-1998.
17. Gray J.S., Wu R.S., Or Y.Y. Effects of hypoxia and organic enrichment on the coastal marine environment. Mar. Ecol. Prog. Ser. 2002, 238:249-279.
18. Guzy R.D., Schumacker P.T. Oxygen sensing by mitochondria at complex III: the paradox of increased reactive oxygen species during hypoxia. Exp. Physiol. 2006, 91:807-819.
19. Hermes-Lima, Marcelo, e Tania Zenteno-Savin Animal response to drastic changes in oxygen availability and physiological oxidative stress. Comp. Biochem. Physiol. C: Toxicol. Pharmacol. 2002, 133(4):537-556. Dicembre.
20. Huvet A., Royer J., Moal J., Burgeot T., Lapègue S., Buolo V., et al. Phenotypic characteristics of "R" and "S" oysters lines, selected for resistance or susceptibility to summer mortality, in: Summer Mortality of Pacific Oyster Crassostrea Gigas. The Morest Project 2008, 197-241. J.F. Éd Ifremer/Quæ, H. McCombie (Eds.).
21. Huvet A., Normand J., Fleury E., Quillien V., Fabioux C., Boudry P. Reproductive effort of Pacific oysters: a trait associated with susceptibility to summer mortality. Aquaculture. 2010, 304:95-99.
22. Ju Z., Wells M.C., Heater S.J., Walter R.B. Multiple tissue gene expression analyses in Japanese medaka (Oryzias latipes) exposed to hypoxia. Comp. Biochem. Physiol. C Pharmacol. Toxicol. Endocrinol. 2007, 145:134-144.
23. Kawabe S., Takada M., Shibuya R., Yokoyama Y. Biochemical changes in oyster tissues and hemolymph during long-term air exposure. Fish. Sci. 2010, 76:641-655.
24. Laine R.O., Shay N.F., Kilberg M.S. Nuclear retention of the induced mRNA following amino acid-dependent transcriptional regulation of mammalian ribosomal proteins L17 and S25. J. Biol. Chem. 1994, 269:9693-9697.
25. Larade K., Storey K.B. Chapter 3 A profile of the metabolic responses to anoxia in marine invertebrates. Sensing, Signaling and Cell Adaptation 2002, 27-46. Elsevier. K.B. Storey, J.M. Storey (Eds.).
26. Le Moullac G., Bacca H., Huvet A., Moal J., Pouvreau S., Van Wormhoudt A. Transcriptional regulation of pyruvate kinase and phosphoenolpyruvate carboxykinase in the adductor muscle of the oyster Crassostrea gigas during prolonged hypoxia. J. Exp. Zool. A Ecol. Genet. Physiol. 2007, 307A:371-382.
27. Le Moullac G., Quéau I., Souchu P.L., Pouvreau S., Moal J., Coz J.R.L., et al. Metabolic adjustments in the oyster Crassostrea gigas according to oxygen level and temperature. Mar. Biol. Res. 2007, 3:357-366.
28. Lelong C., Badariotti F., Le Quéré H., Rodet F., Dubos M., Favrel P. Cg-TGF-[beta], a TGF-[beta]/activin homologue in the Pacific Oyster Crassostrea gigas, is involved in immunity against Gram-negative microbial infection. Dev. Comp. Immunol. 2007, 31:30-38.
29. Li T., Brouwer M. Gene expression profile of grass shrimp Palaemonetes pugio exposed to chronic hypoxia. Comp. Biochem. Physiol. Part D Genomics Proteomics 2009, 4:196-208.
30. Li C., Jackson R.M. Reactive species mechanisms of cellular hypoxia-reoxygenation injury. Am. J. Physiol. Cell Physiol. 2002, 282:C227-C241.
31. Medeiros I.D., Siebert M.N., Toledo-Silva G., Rodrigues T.B., Marques M.R., Bainy A.C. Induced gene expression in oyster Crassostrea gigas exposed to sewage. Environ. Toxicol. Pharmacol. 2008, 26:362-365.
32. Michaelidis B., Haas D., Grieshaber M.K. Extracellular and Intracellular acid-base status with regard to the energy metabolism in the oyster Crassostrea gigas during exposure to air. Physiol. Biochem. Zool. 2005, 78:373-383.
33. Morey J., Ryan J., Van Dolah F. Microarray validation: factors influencing correlation between oligonucleotide microarrays and real-time PCR. Biol. Proced. Online 2006, 8:175-193.
34. Parache A. Growth performance of oyster Crassostrea angulata and Crassostrea gigas reared in Arcachon Bay between 1950 and 1986: First results. Haliotis 1989, 19:227-236.
35. Ruan H., Heider H., Hohfeld I., Lyck R., Schmidt E., Nover L. Analysis of ribosome loading onto mRNA species: implications for translational control. mRNA Formation and Function 1997, 305-321. Academic Press, New York. J. Richter (Ed.).
36. Saeed A.I., Bhagabati N.K., Braisted J.C., Liang W., Sharov V., Howe E.A., et al. TM4 Microarray software suite. DNA Microarrays, Part B: Databases and Statistics 2006, 134-193. Academic Press.
37. Samain J.F., McCombie H. Summer mortality of Pacific oyster Crassostrea gigas. The Morest Project 2008, Quae Eds.
38. Samain J.F., Degremont L., Soletchnik P., Haure J., Bedier E., Ropert M., et al. Genetically based resistance to summer mortality in the Pacific oyster (Crassostrea gigas) and its relationship with physiological, immunological characteristics and infection process. Aquaculture 2007, 268:227-243.
39. Smyth G.K., Speed T. Normalization of cDNA microarray data. Methods 2003, 31:265-273.
40. Spirin A. Masked and translatable messenger ribonucleoproteins in higher eukaryotes. Translational Control 1996, 319-334. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY. J.W.B. Hershey, M.B. Mathews, N. Sonenberg (Eds.).
41. Stahlberg A., Aman P., Ridell B., Mostad P., Kubista M. Quantitative Real-time PCR method for detection of B-Lymphocyte monoclonality by comparison of Κ and λ immunoglobulin light chain expression. Clin. Chem. 2003, 49:51-59.
42. Storey K.B. Molecular mechanisms of anoxia tolerance. Int. Congr. Ser. 2004, 1275:47-54.
43. Taris N., Lang R., Camara M. Sequence polymorphism can produce serious artefacts in real-time PCR assays: hard lessons from Pacific oysters. BMC Genomics 2008, 9:234.
44. Tran D., Boudou A., Massabuau J. Mechanism for maintaining oxygen consumption under varying oxygenation levels in the freshwater clam Corbicula fluminea. Can. J. Zool. 2000, 78:2027-2036.
45. Vandesompele J., De Preter K., Pattyn F., Poppe B., Van Roy N., De Paepe A., et al. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol. 2002, 3. research0034.1 - 0034.11.
46. Wu R.S.S. Hypoxia: from molecular responses to ecosystem responses. Mar. Pollut. Bull. 2002, 45:35-45.