Abstract
Information on the specificity of cis-sequences enables the design of functional synthetic plant promoters that are responsive to specific stresses. Potential cis-sequences may be experimentally tested, however, correlation of genomic sequence with gene expression data enables an in silico expression analysis approach to bioinformatically assess the stress specificity of candidate cis-sequences prior to experimental verification. The present chapter demonstrates an example for the in silico validation of a potential cis-regulatory sequence responsive to cold stress. The described online tool can be applied for the bioinformatic assessment of cis-sequences responsive to most abiotic and biotic stresses of plants. Furthermore, a method is presented based on a reverted in silico expression analysis approach that predicts highly specific potentially functional cis-regulatory elements for a given stress.
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Acknowledgements
The authors thank Artyom Romanow for implementation of the “cis-elements” web interface. This work was supported by the Federal Ministry for Education and Research of Germany (BMBF) through grants 0315037B and 0315459A.
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Bolívar, J., Hehl, R., Bülow, L. (2016). In Silico Expression Analysis. In: Hehl, R. (eds) Plant Synthetic Promoters. Methods in Molecular Biology, vol 1482. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6396-6_16
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DOI: https://doi.org/10.1007/978-1-4939-6396-6_16
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