- Poster presentation
- Open Access
A systems biology approach to modelling tea (Camellia sinensis)
© Marshall et al; licensee BioMed Central Ltd. 2007
- Published: 8 May 2007
- Short Path
- Expression Data
- Microarray Data
- System Biology
- Network Data
Tea manufacture induces a variety of stresses that affect tea quality. We are using microarray data to track transcriptional changes occurring during wounding and withering of the leaves to identify metabolic pathways that could influence tea aroma and flavour. Current transcriptomic approaches include the use of a partial, tea-specific array. In order to monitor a larger number of genes we have performed cross-species analyses using Affymetrix Arabidopsis genome arrays . Arabidopsis metabolic SBML  network data from AraCyc , KEGG and Reactome were collated and merged, then subsequently overlaid with the tea expression data. Subnetworks were constructed by connecting the shortest paths between the differentially expressed genes and the downstream aroma-related compounds, therefore identifying the pathways involved in aroma.
Many thanks to the NASC Arrays X-species Service, Peter Clarke, Shao Chih Kuo and Thomas Spriggs for their help throughout the project.
- Hammond JP, Broadley MR, Craigon DJ, Higgins J, Emmerson ZF, Townsend HJ, White PJ, May ST: Using genomic DNA-based probe-selection to improve the sensitivity of high-density oligonucleotide arrays when applied to heterologous species. Plant Methods. 2005, 1:Google Scholar
- Hucka M, Finney A, Sauro HM, Bolouri H, Doyle JC, Kitano H, Arkin AP, Bornstein BJ, Bray D, Cornish-Bowden A: The Systems Biology Markup Language (SBML): A medium for the representation and exchange of biochemical network models. Bioinformatics. 2003, 19: 524-531. 10.1093/bioinformatics/btg015.PubMedView ArticleGoogle Scholar
- Mueller LA, Zhang P, Rhee SY: AraCyc: A Biochemical Pathway Database for Arabidopsis. Plant Physiology. 2003, 132: 453-460. 10.1104/pp.102.017236.PubMedPubMed CentralView ArticleGoogle Scholar
- Shannon P, Markiel A, Ozier O, Baliga NS, Wang JT, Ramage D, Amin N, Schwikowski B, Ideker T: Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks. Genome Research. 2003, 13: 2498-2504. 10.1101/gr.1239303.PubMedPubMed CentralView ArticleGoogle Scholar
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