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Open Access Research article

Comparative transcriptome analysis coupled to X-ray CT reveals sucrose supply and growth velocity as major determinants of potato tuber starch biosynthesis

Stephanus J Ferreira1, Melanie Senning1, Sophia Sonnewald1, Petra-Maria Keßling2, Ralf Goldstein3 and Uwe Sonnewald1*

Author affiliations

1 Friedrich-Alexander-University Erlangen-Nuremberg, Department of Biology, Staudtstrasse 5, 91058 Erlangen, Germany

2 Fraunhofer Institute for Integrated Circuits IIS, Development Centre X-Ray Technology, Dr-Mack-Straße 81, 90762 Fürth, Germany

3 Fraunhofer Institute for Integrated Circuits IIS, Contactless Test and Measuring Systems, Am Wolfsmantel 33, 91058 Erlangen, Germany

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Citation and License

BMC Genomics 2010, 11:93  doi:10.1186/1471-2164-11-93

Published: 5 February 2010

Abstract

Background

Even though the process of potato tuber starch biosynthesis is well understood, mechanisms regulating biosynthesis are still unclear. Transcriptome analysis provides valuable information as to how genes are regulated. Therefore, this work aimed at investigating transcriptional regulation of starch biosynthetic genes in leaves and tubers of potato plants under various conditions. More specifically we looked at gene expression diurnally in leaves and tubers, during tuber induction and in tubers growing at different velocities. To determine velocity of potato tuber growth a new method based on X-ray Computed Tomography (X-ray CT) was established.

Results

Comparative transcriptome analysis between leaves and tubers revealed striking similarities with the same genes being differentially expressed in both tissues. In tubers, oscillation of granule bound starch synthase (GBSS) expression) was observed which could be linked to sucrose supply from source leaves. X-ray CT was used to determine time-dependent changes in tuber volume and the growth velocity was calculated. Although there is not a linear correlation between growth velocity and expression of starch biosynthetic genes, there are significant differences between growing and non-growing tubers. Co-expression analysis was used to identify transcription factors positively correlating with starch biosynthetic genes possibly regulating starch biosynthesis.

Conclusion

Most starch biosynthetic enzymes are encoded by gene families. Co-expression analysis revealed that the same members of these gene families are co-regulated in leaves and tubers. This suggests that regulation of transitory and storage starch biosynthesis in leaves and tubers, respectively, is surprisingly similar. X-ray CT can be used to monitor growth and development of belowground organs and allows to link tuber growth to changes in gene expression. Comparative transcriptome analysis provides a useful tool to identify transcription factors possibly involved in the regulation of starch biosynthesis.