Mixtures of similarly acting compounds in Daphnia magna: From gene to metabolite and beyond

Environment International

Volumn 36, Issue 3, 2010, Pages 254-268

  Vandenbrouck, Tine ^a   Jones, Oliver A H ^b   Dom, Nathalie ^a   Griffin, Julian L ^b   De Coen, Wim ^a  

^a Ecophysiology   (Belgium)

^b UNIVERSITY OF CAMBRIDGE   (United Kingdom)

Author keywords

Environmental toxicology; Gas Chromatography Mass Spectrometry; Metabolomics; Metabonomics; Microarray; Mixtures; Nuclear Magnetic Resonance Spectroscopy; PAHs; Reproduction

Indexed keywords

AROMATIC HYDROCARBONS; BINS; BIOASSAY; BIOLOGY; CHROMATOGRAPHY; CLUSTER ANALYSIS; COST EFFECTIVENESS; DISCRIMINANT ANALYSIS; GAS CHROMATOGRAPHY; HIERARCHICAL SYSTEMS; LEAST SQUARES APPROXIMATIONS; LIQUID CHROMATOGRAPHY; MAGNETIC RESONANCE SPECTROMETERS; MAGNETIC RESONANCE SPECTROSCOPY; MASS SPECTROMETRY; METABOLISM; METABOLITES; MICROARRAYS; MIXTURES; NUCLEAR MAGNETIC RESONANCE; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; POLYCYCLIC AROMATIC HYDROCARBONS; PRINCIPAL COMPONENT ANALYSIS; SPECTROMETRY;

ENVIRONMENTAL TOXICOLOGY; GAS CHROMATOGRAPHY-MASS SPECTROMETRY; METABOLOMICS; METABONOMICS; REPRODUCTION;

BINARY MIXTURES;

AMINOSUGAR; FLUORANTHENE; PYRENE;

CLUSTER ANALYSIS; CRUSTACEAN; FLUORANTHENE; GAS CHROMATOGRAPHY; GENE; MASS SPECTROMETRY; METABOLISM; METABOLITE; NUCLEAR MAGNETIC RESONANCE; PAH; PYRENE; TOXICOLOGY;

ARTICLE; CARBOHYDRATE METABOLISM; CLUSTER ANALYSIS; DAPHNIA; ENVIRONMENTAL MONITORING; FRESHWATER ENVIRONMENT; GAS CHROMATOGRAPHY; INVERTEBRATE; LIQUID CHROMATOGRAPHY; METABOLITE; METABOLOMICS; MICROARRAY ANALYSIS; NONHUMAN; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PRIORITY JOURNAL; REPRODUCTION; TRANSCRIPTOMICS;

DAPHNIA; DAPHNIA MAGNA; DAPHNIIDAE; INVERTEBRATA;

EID: 76349113800     PISSN: 01604120     EISSN: 18736750     Source Type: Journal    
DOI: 10.1016/j.envint.2009.12.006     Document Type: Article

References (50)

1. Allen J.I., and Moore M.N. Environmental prognostics: is the current use of biomarkers appropriate for environmental risk evaluation?. Mar Environ Res 58 (2004) 227-232
2. Barata C., Carlos Navarro J., Varo I., Carmen Riva M., Arun S., and Porte C. Changes in antioxidant enzyme activities, fatty acid composition and lipid peroxidation in Daphnia magna during the aging process. Comp Biochem Physiol B Biochem Mol Biol 140 (2005) 81-90
3. Bligh E.G., and Dyer W.J. A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37 (1959) 911-917
4. Buszczak M., Freeman M.R., Carlson J.R., Bender M., Cooley L., and Segraves W.A. Ecdysone response genes govern egg chamber development during mid-oogenesis in Drosophila. Development 126 (1999) 4581-5489
5. Bychek E.A., and Gushchina I.A. Age-dependent changes of lipid composition in Daphnia magna. Biochem Biokhimiia 64 (1999) 543-545
6. Bychek E.A., Dobson G.A., Harwood J.L., and Guschina I.A. Daphnia magna can tolerate short-term starvation without major changes in lipid metabolism. Lipids 40 (2005) 599-608
7. Colbourne J., Singan V., and Gilbert D. wFleaBase: the Daphnia Genome Database. BMC Bioinformatics 6 (2005) 45
8. Conesa A., Götz S., Garcia-Gomez J.M., Terol J., Talon M., and Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 21 182005 (2005) 3674-3676
9. Daphnia Genomics Consortium. Proposal to sequence the genome of Daphnia pulex (2005), University of Indiana, Indiana, USA
10. Denslow N., Colbourne J.K., Dix D., Freedman J.H., Helbing C.C., Kennedy S., et al. Selection of surrogate animal species for comparative toxicogenomics. In: DiGiulio R., and Benson W.H. (Eds). In genomic approaches for cross-species extrapolation in toxicology (2007), Taylor and Francis, Washington, DC
11. De Schamphelaere K.A.C., Vandenbrouck T., Muyssen B.T.A., Soetaert A., Blust R., De Coen W., et al. Integration of molecular with higher-level effects of dietary zinc exposure in Daphnia magna. Comp Biochem Physiol D 3 (2008) 307-314
12. Eriksson L., Johansson E., Kettaneh-Wold N., and Wold S. Multi- and megavariate data analysis: principles and applications (2001), Umetrics, Umeå, Sweden
13. Finne E.F., Cooper G.A., Koop B.F., Hylland K., and Tollefsen. Toxicogenomics responses in rainbow trout hepatocytes exposed to model chemicals and a synthetic mixture. Aquat Toxicol 81 (2007) 293-303
14. Fröhlich T., Arnold G.J., Fritsch R., Mayr T., and Laforsch C. LC-MS/MS-based proteome profiling in Daphnia pulex and Daphnia longicephala: the Daphnia pulex Genome Database as a key for high throughput proteomics in Daphnia. BMC Genomics 10 (2009) 171
15. Garen A., Kauvar L., and Lepesant J.A. Roles of ecdysone in Drosphila development. Proc Natl Acad Sci USA 74 (1977) 5099-5103
16. Gaziova I., Bonnette P.C., Henrich V.C., and Jindra M. Cell-autonomous roles of the ecdysoneless gene in Drosophila development and oogenesis. Development 131 (2004) 2715-2725
17. Gullberg J., Jonsson P., Nordstrom A., Sjostrom M., and Moritz T. Design of experiments: an efficient strategy to identify factors influencing extraction and derivatization of Arabidopsis thaliana samples in metabolomic studies with gas chromatography/mass spectrometry. Anal Biochem 331 (2004) 283-295
18. Heckmann L.H., Connon R., Hutchinson T.H., Maund S.J., Sibly R.M., and Callaghan A. Expression of target and reference genes in Daphnia magna exposed to ibuprofen. BMC Genomics 7 (2006) 175
19. Heckmann L.H., Sibly R.M., Connon R., Hooper H.L., Hutchinson T., Maund S.J., et al. Systems biology meets stress ecology: linking molecular and organismal stress responses in Daphnia magna. Genome Biol 9 (2008) R40
20. Hines A., Oladiran G.S., Bignell J.P., Stentiford G.D., and Viant M.R. Direct sampling of organisms from the field and knowledge of their phenotype: key recommendations for environmental metabolomics. Environ Sci Technol 41 (2007) 3375-3381
21. Holmes E., and Antti H. Chemometric contributions to the evolution of metabonomics: mathematical solutions to characterising and interpreting complex biological NMR spectra. Analyst 127 (2002) 1549-1557
22. Hook S.E., Skillman A.D., Gopalan B., Small J.A., and Schultz I.R. Gene expression profiles in rainbow trout, Onchorynchus mykiss, exposed to a simple mixture. Toxicol Sci 102 1 (2008) 42-60
23. Huber W., von Heydebreck A., Sultmann H., Poustka A., and Vingron M. Variance stabilization applied to microarray data calibration and to the quantification of differential expression. Bioinformatics 18 (2002) S96-S104
24. Iguchi T., Watanabe H., and Katsu Y. Application of ecotoxicogenomics for studying endocrine disruption in vertebrates and invertebrates. Environ Health Perspect 114 (2006) 101-105
25. Jager T., Vandenbrouck T., Baas J., De Coen W.M., and Kooijman S.A.L.M. A biology-based approach for mixture toxicity of multiple endpoints over the life cycle. Ecotoxicology (2009) 10.1007/s10646-009-0417-z
26. Karinen J.F., and Rice S.D. Effects of Purdhoe Bay crude oil on molting Tanner crabs, Cionecetes bairdi. Mar Fish Rev 36 (1974) 31-37
27. Le Belle J., Harris N., Williams S., and Bhakoo K. A comparison of cell and tissue extraction techniques using high-resolution 1H-NMR spectroscopy. NMR Biomed 15 (2002) 37-44
28. Lotka A. A natural population norm. J Wash Acad Sci 3 (1913) 241-248
29. Morrison W.R., and Smith L.M. Preparation of fatty acid methyl esters and dimethylacetals from lipids with boron fluoride-methanol. J Lipid Res 5 (1964) 600-608
30. Morrison N., Bearden D., Bundy J., Collette T., Currie F., Davey M., et al. Standard reporting requirements for biological samples in metabolomics experiments: environmental context. Metabolomics 3 (2007) 203-210
31. Oberdörster E., Cottam D.M., Wilmot F.A., Milner M.J., and McLachlan J.A. Interaction of PAHs and PCBs with ecdysone-dependent gene expression and cell proliferation. Toxicol Appl Pharmacol 160 (1999) 101-108
32. Oberemm A., Onyon L., and Gundert-Remy U. How can toxicogenomics inform risk assessment?. Toxicol Appl Pharmacol 207 (2005) 592-598
33. Persson J., and Vrede T. Polyunsaturated fatty acids in zooplankton: variation due to taxonomy and trophic position. Freshw Biol 51 (2006) 887-900
34. ©) for group-wise comparison and statistical analysis of relative expression results in real-time PCR. Nucleic Acids Res 30 (2002) 36-45
35. Poynton H.C., Varshavsky J.R., Chang B., Cavigiolio G., Chan S., Holman P.S., et al. Daphnia magna ecotoxicogenomics provides mechanistic insights into metal toxicity. Environ Sci Technol 41 (2007) 1044-1050
36. Poynton H.C., Zuzow R., Loguinov A.V., Perkins E.J., and Vulpe C.D. Gene expression profiling in Daphnia magna, part II: validation of a copper specific gene expression signature with effluent from two copper mines in California. Environ Sci Technol 42 (2008) 6257-6263
37. Rosenblum E.S., Tjeerdema R.S., and Viant M.R. Effects of temperature on host-pathogen-drug interactions in red abalone, Haliotis rufescens, determined by 1H NMR metabolomics. Environ Sci Technol 40 (2006) 7077-7084
38. Samuelsson L.M., Forlin L., Karlsson G., Adolfsson-Erici M., and Larsson D.G.J. Using NMR metabolomics to identify responses of an environmental estrogen in blood plasma of fish. Aquat Toxicol 78 (2006) 341-349
39. Schwerin S., Zeis B., Lamkemeyer T., Paul R.J., Koch M., Madlung J., et al. Acclimatory responses of the Daphnia pulex proteome to environmental changes. II. Chronic exposure to different temperatures (10 and 20 °C) mainly affects protein metabolism. BMC Physiol 9 8 (2008)
40. Sepic E., Bricelj M., and Leskovsek H. Toxicity of fluoranthene and its biodegradation metabolites to aquatic organisms. Chemosphere 52 (2003) 1125-1133
41. Smyth G.K. Linear models and empirical Bayes methods for assessing differential expression in microarray experiments. Stat Appl Genet Mol Biol 3 (2004) Article 3
42. Soetaert A., Moens L.N., Van der Ven K., Van Leemput K., Naudts B., Blust R., et al. Molecular impact of propiconazole on Daphnia magna using a reproduction-related cDNA array. Comp Biochem Physiol C Toxicol Pharmacol 142 (2006) 66-76
43. Soetaert A., van der Ven K., Moens L.N., Vandenbrouck T., van Remortel P., and De Coen W.M. Daphnia magna and ecotoxicogenomics: gene expression profiles of the anti-ecdysteroidal fungicide fenarimol using energy-, molting- and life stage-related cDNA libraries. Chemosphere 67 (2007) 60-71
44. Solanky K.S., Burton I.W., MacKinnon S.L., Walter J.A., and Dacanay A. Metabolic changes in Atlantic salmon exposed to Aeromonas salmonicida detected by 1H-Nuclear Magnetic Resonance Spectroscopy of plasma. Dis Aquat Org 65 (2005) 107-114
45. Taylor N.S., Weber R.J.M., Southam A.D., Payne T.G., Hrydziuszko O., Arvanitis T.N., et al. A new approach to toxicity testing in Daphnia magna: application of high throughput FT-ICR mass spectrometry metabolomics. Metabolomics 5 (2009) 44-58
46. Tessier A.J., Leibold M.A., and Tsao J. A fundamental trade-off in resource exploitation by Daphnia and consequences to plankton communities. Ecology 81 (2000) 826-841
47. Vandenbrouck T., Soetaert A., van der Ven K., Blust R., and De Coen W.M. Nickel and binary metal mixture responses in Daphnia magna: molecular fingerprints and (sub)organismal effects. Aquat Toxicol 92 (2009) 18-29
48. Van der Ven K., De Wit M., Keil D., Moens L., Van Leemput K., Naudts B., et al. Development and application of a brain-specific cDNA microarray for effect evaluation of neuro-active pharmaceuticals in zebrafish (Danio rerio). Comp Biochem Physiol B Biochem Mol Biol 141 4 (2005) 408-417
49. Watanabe H., Takahashi E., Nakamura Y., Oda S., Tatarazako N., and Iguchi T. Development of a Daphnia magna DNA microarray for evaluating the toxicity of environmental chemicals. Environ Toxicol Chem 26 4 (2007) 669-676
50. Zeis B., Lamkemeyer T., Paul R.J., Nunes F., Schwerin S., Koch M., et al. Acclimatory responses of the Daphnia pulex proteome to environmental changes. I. Chronic exposure to hypoxia affects the oxygen transport system and carbohydrate metabolism. BMC Physiol 9 (2009) 7