Gene expression analysis of collembola in cadmium containing soil

Environmental Science and Technology

Volumn 42, Issue 21, 2008, Pages 8152-8157

  Nota, Benjamin ^a   Timmermans, Martijn J T N ^a   Franken, Oscar ^a   Montagne Wajer, Kora ^a   Mariën, Janine ^a   De Boer, Muriel E ^a   De Boer, Tjalf E ^a   Ylstra, Bauke ^b   Van Straalen, Nico M ^a   Roelofs, Dick ^a  

^a VU UNIVERSITY AMSTERDAM   (Netherlands)

^b VU UNIVERSITY MEDICAL CENTER   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

ANTIBIOTICS; BIOACTIVITY; BIOCHEMICAL ENGINEERING; BIOCHEMISTRY; BIOSYNTHESIS; CADMIUM; CONCENTRATION (PROCESS); DETOXIFICATION; GENE EXPRESSION; GENES; ONTOLOGY; SEWAGE TREATMENT PLANTS; SOILS; TOXICITY;

BIOSYNTHESIS PATHWAYS; CANDIDA; COLLEMBOLA; CONTAMINATED SOILS; ECOLOGICAL TOXICITIES; ENVIRONMENTAL STRESSES; ENVIRONMENTAL STUDIES; EXPOSURE DURATIONS; FOLSOMIA CANDIDA; GENE EXPRESSION ANALYSIS; GENE ONTOLOGIES; GLOBAL VIEWS; NOVEL METHODS; RAPID METHODS; SOIL QUALITIES; SOIL TOXICITIES; STRESS RESPONSES; SYNTHESIS OF; TIME POINTS;

SOIL POLLUTION;

CADMIUM;

ANTIBIOTICS; CADMIUM; ECOTOXICOLOGY; ENVIRONMENTAL STRESS; GENE EXPRESSION; IMMUNE SYSTEM; INSECT; POLLUTION EXPOSURE; SOIL FAUNA; SOIL POLLUTION; SOIL QUALITY; SOIL TEST;

ARTHROPOD; ARTICLE; FOLSOMIA CANDIDA; GENE EXPRESSION; GENETIC ANALYSIS; NONHUMAN; SOIL POLLUTANT; SOIL POLLUTION; SOIL QUALITY; TOXICITY TESTING;

ANIMALS; ANOXIA; ARTHROPODS; CADMIUM; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; HEAT-SHOCK RESPONSE; IMMUNE SYSTEM; REPRODUCTION; SOIL;

ANIMALIA; ARTHROPODA; COLLEMBOLA; FOLSOMIA CANDIDA;

EID: 55349090260     PISSN: 0013936X     EISSN: None     Source Type: Journal    
DOI: 10.1021/es801472r     Document Type: Article

References (32)

1. Gans, J.; Wolinsky, M.; Dunbar, J. Computational improvements reveal great bacterial diversity and high metal toxicity in soil. Science 2005, 309, 1387-1390.
2. Dix, D. J.; Gallagher, K.; Benson, W. H.; Groskinsky, B. L.; McClintock, J. T.; Dearfield, K. L.; Farland, W. H. A framework for the use of genomics data at the EPA. Nat. Biotechnol. 2006, 24, 1108-1111.
3. Fountain, M. T.; Hopkin, S. P. Folsomia candida (Collembola): A "standard" soil arthropod. Annu Rev Entomol 2005, 50, 201-222.
4. Soil Quality-Inhibition of Reproduction of Collembola (Folsomia candida) by Soil Pollutants, 11267; International Standards Organization, I.O.F.S.: Geneva, 1999.
5. Timmermans, M. J.; de Boer, M. E.; Nota, B.; de Boer, T. E.; Marien, J.; Klein-Lankhorst, R. M.; van Straalen, N. M.; Roelofs, D. Collembase: a repository for springtail genomics and soil quality assessment. Bmc Genomics 2007, 8, -.
6. van Gestel, C. A. M.; Mol, S. The influence of soil characteristics on cadmium toxicity for Folsomia candida (Collembola: Isotomidae). Pedobiologia 2003, 47, 387-395.
7. Rouillard, J. M.; Zuker, M.; Gulari, E. OligoArray 2.0: design of oligonucleotide probes for DNA microarrays using a thermodynamic approach. Nucleic Acids Res. 2003, 31, 3057-3062.
8. Smyth, G. K. Limma: Linear Models for Microarray Data. In Bioinformatics and Computational Biology Solutions Using R and Bioconductor; Gentleman, R., Carey, V., Dudoit, S., Irizarry, R., Huber, W., Eds.; Springer, New York, 2005; 397-420.
9. Edwards, D. Non-linear normalization and background correction in one-channel cDNA microarray studies. Bioinformatics 2003, 19, 825-833.
10. Yang, Y. H.; Dudoit, S.; Luu, P.; Lin, D. M.; Peng, V.; Ngai, J.; Speed, T. P. Normalization for cDNA microarray data: A robust composite method addressing single and multiple slide systematic variation. Nucleic Acids Res. 2002, 30, -.
11. Benjamini, Y.; Hochberg, Y. Controlling the false discovery rate - A practical and powerful approach to multiple testing. J. R. Stat. Soc. B Met 1995, 57, 289-300.
12. Alexa, A.; Rahnenfuhrer, J.; Lengauer, T. Improved scoring of functional groups from gene expression data by decorrelating GO graph structure. Bioinformatics 2006, 22, 1600-1607.
13. Muller, P. Y.; Janovjak, H.; Miserez, A. R.; Dobbie, Z. Processing of gene expression data generated by quantitative real-time RT-PCR. Biotechniques 2002, 32, 1372-+.
14. Jin, W.; Riley, R. M.; Wolfinger, R. D.; White, K. P.; Passador-Gurgel, G.; Gibson, G. The contributions of sex, genotype and age to transcriptional variance in Drosophila melanogaster. Nat. Genet. 2001, 29, 389-395.
15. Yepiskoposyan, H.; Egli, D.; Fergestad, T.; Selvaraj, A.; Treiber, C.; Multhaup, G.; Georgiev, O.; Schaffner, W. Transcriptome response to heavy metal stress in Drosophila reveals a new zinc transporter that confers resistance to zinc. Nucleic Acids Res. 2006, 34, 4866-4877.
16. Poynton, H. C.; Varshavsky, J. R.; Chang, B.; Cavigiolio, G.; Chan, S.; Holman, P. S.; Loguinov, A. V.; Bauer, D. J.; Komachi, K.; Theil, E. C.; Perkins, E. J.; Hughes, O.; Vulpe, C. D. Daphnia magna ecotoxicogenomics provides mechanistic insights into metal toxicity. Environ. Sci. Technol. 2007, 41, 1044-1050.
17. Momose, Y.; Iwahashi, H. Bioassay of cadmium using a DNA microarray: Genome-wide expression patterns of Saccharomyces cerevisiae response to cadmium. Environ. Toxicol. Chem. 2001, 20, 2353-2360.
18. Muta, T.; Hashimoto, R.; Miyata, T.; Nishimura, H.; Toh, Y.; Iwanaga, S. Proclotting enzyme from horseshoe-crab hemocytes - Cdna cloning, disulfide locations, and subcellular-localization. J. Biol. Chem. 1990, 265, 22426-22433.
19. Franc, N. C.; White, K. Innate recognition systems in insect immunity and development: new approaches in Drosophila. Microbes Infect. 2000, 2, 243-250.
20. De Gregorio, E.; Spellman, P. T.; Tzou, P.; Rubin, G. M.; Lemaitre, B. The Toll and Imd pathways are the major regulators of the immune response in Drosophila. EMBO J. 2002, 21, 2568-2579.
21. Koizumi, S.; Yamada, H. DNA microarray analysis of altered gene expression in cadmium-exposed human cells. J. Occup. Health 2003, 45, 331-334.
22. Czarnetzki, A. B.; Tebbe, C. C. Detection and phylogenetic analysis of Wolbachia in Collembola. Environ. Microbiol. 2004, 6, 35-44.
23. Hochachka, P. W.; Buck, L. T.; Doll, C. J.; Land, S. C. Unifying theory of hypoxia tolerance: Molecular metabolic defense and rescue mechanisms for surviving oxygen lack. Proc. Natl. Acad. Sci. U. S. A. 1996, 93, 9493-9498.
24. Gracey, A. Y.; Troll, J. V.; Somero, G. N. Hypoxia-induced gene expression profiling in the euryoxic fish Gilllchthys mirabilis -. Proc. Natl. Acad. Sci. U. S. A. 2001, 98, 1993-1998.
25. Semenza, G. L. Targeting HIF-1 for cancer therapy. Nat. Rev. Cancer 2003, 3, 721-732.
26. Chen, S. L.; Xu, M. Y.; Hu, S. N.; Li, L. Analysis of immune-relevant genes expressed in red sea bream (Chrysophrys major) spleen. Aquaculture 2004, 240, 115-130.
27. Chun, Y. S.; Choi, E.; Kim, G. T.; Choi, H.; Kim, C. H.; Lee, M. J.; Kim, M. S.; Park, J. W. Cadmium blocks hypoxia-inducible factor (HIF)-1-mediated response to hypoxia by stimulating the proteasome-dependent degradation of HIF-1 alpha. Eur. J. Biochem. 2000, 267, 4198-4204.
28. Horiguchi, H.; Oguma, E.; Kayama, F. Cadmium and cisplatin damage erythropoietin-producing proximal renal tubular cells. Arch. Toxicol. 2006, 80, 680-686.
29. Ercal, N.; Gurer-Orhan, H.; Aykin-Burns, N. Toxic metals and oxidative stress Part I: Mechanisms involved in metal-induced oxidative damage. Curr. Top. Med. Chem. 2001, 1, 529-539.
30. Hayes, J. D.; Pulford, D. J. The glutathione S-Transferase supergene family: Regulation of GST and the contribution of the isoenzymes to cancer chemoprotection and drug resistance. Crit. Rev. Biochem. Mol. 1995, 30, 445-600.
31. Li, Z. S.; Szczypka, M.; Lu, Y. P.; Thiele, D. J.; Rea, P. A. The yeast cadmium factor protein (YCF1) is a vacuolar glutathione S-conjugate pump. J. Biol. Chem. 1996, 271, 6509-6517.
32. Broeks, A.; Gerrard, B.; Allikmets, R.; Dean, M.; Plasterk, R. H. A. Homologues of the human multidrug resistance genes MRP and MDR contribute to heavy metal resistance in the soil nematode Caenorhabditis elegans. EMBO J. 1996, 15, 6132-6143.