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Review
. 2008 Jul 14;7(6):19.
doi: 10.1186/jbiol80.

Genomics technology for assessing soil pollution

Nico M van Straalen  1 , Dick Roelofs
Affiliations
Review

Genomics technology for assessing soil pollution

Nico M van Straalen et al. J Biol. .

Abstract

Transcription and metabolite analysis is a powerful way to reveal physiological shifts in response to environmental pollution. Recent studies on earthworms, including one in BMC Biology, show that the type of pollution and its availability for uptake by organisms can differentially affect transcription and metabolism.

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Figures

Figure 1
Figure 1
How a combination of genomics and environmental toxicology can support risk assessment of soil pollution. An indicator species is exposed to a sample of soil. Traditional soil assessment evaluates soils only on the basis of whole-body endpoints, such as survival, growth and reproduction. Genomic analysis can add specificity, sensitivity and rapidity, as discussed in the text, and can give more detail of how the contaminants in the soil affect cellular processes such as signal transduction or DNA damage. In addition, consideration of metabolite patterns (such as the graphs at the bottom of the figure) can help with the sifting and interpretation of the transcriptional response, as illustrated by recent work on earthworms [10-13]. 'Xbase' refers to bioinformatic analyses.
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References

    1. Gans J, Wolinsky M, Dunbar J. Computational improvements reveal great bacterial diversity and high metal toxicity in soil. Science. 2005;309:1387–1390. doi: 10.1126/science.1112665. - DOI - PubMed
    1. Daniel R. The metagenomics of soil. Nature Rev Microbiol. 2005;3:470–478. doi: 10.1038/nrmicro1160. - DOI - PubMed
    1. Snape JR, Maund SJ, Pickford DB, Hutchinson TH. Ecotoxicogenomics: the challenge of integrating genomics into aquatic and terrestrial ecotoxicology. Aquat Toxicol. 2004;67:143–154. doi: 10.1016/j.aquatox.2003.11.011. - DOI - PubMed
    1. Van Straalen NM, Roelofs D. An Introduction to Ecological Genomics. Oxford: Oxford University Press; 2006.
    1. Parro V, Moreno-Paz M, González-Toril E. Analysis of environmental transcriptomes by DNA microarrays. Environ Microbiol. 2006;9:453–464. doi: 10.1111/j.1462-2920.2006.01162.x. - DOI - PubMed

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