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Seed Development: OMICS Technologies toward Improvement of Seed Quality and Crop Yield pp 367–385Cite as

Coupled Transcript-Metabolite Profiling: Towards Systems Biology Approaches to Unravel Regulation of Seed Secondary Metabolism

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Abstract

Seeds are an attractive model to decipher the regulation of secondary metabolite biosynthesis. Furthermore, given that seeds are a major source of food for humans and that numerous secondary metabolites play a role in the nutritional value and organoleptic quality of food products, a better understanding of seed secondary metabolic networks may be a key step for seed crop breeding. Network genomics offers outstanding opportunities to unravel the underlying regulation of metabolism in seeds. For now, only a few recent studies have coupled transcriptomics and metabolomics to investigate metabolism in developing seeds, either at the genome-wide level or at the quantitative level using pathway-guided approaches and multigenotype or multienvironment designs. Using three distinct examples, the present chapter aims to show how coupled transcript-metabolite profiling can help decipher the regulation of secondary metabolite synthesis in seeds. This chapter first summarizes the latest advances made in the model plant Arabidopsis at the genome-wide level. The second example is the metabolism of carotenoids in maize, which is a model system for provitamin A biofortification. Finally, this chapter also describes the coffee seed, whose endosperm stores spectacular amounts of alkaloids and phenylpropanoid-derived compounds. These three studies concern the biosynthesis of secondary metabolites, but similar approaches may undoubtedly be used for other seed metabolic pathways.

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Acknowledgements

The Wurtzel laboratory is supported by grants from the United States National Institutes of Health (GM081160) and New York State. The research performed by S. Dussert and T. Joët is financially supported by the European Union, Région Réunion, and IRD (DOCUP Réunion 2007–2013).

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Authors and Affiliations

  1. IRD, UMR DIADE, Diversity, Adaptation and Development of Cultivated Crops, BP 64501, 34394, Montpellier, France

    Thierry Joët & Stéphane Dussert

  2. Department of Biological Sciences, Lehman College and The Graduate School, The City University of New York, 250 Bedford Park Blvd. West, Bronx, 10468, New York, NY, USA

    Eleanore T. Wurtzel

  3. RIKEN Plant Science Center, Tsurumi-ku, 230–0045, Yokohama, Japan

    Fumio Matsuda & Kazuki Saito

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  1. Thierry Joët
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  2. Eleanore T. Wurtzel
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Correspondence to Thierry Joët .

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  1. RLABB, Sanepa, Lalitpur, Nepal

    Ganesh K. Agrawal

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    Randeep Rakwal

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Joët, T., Wurtzel, E.T., Matsuda, F., Saito, K., Dussert, S. (2012). Coupled Transcript-Metabolite Profiling: Towards Systems Biology Approaches to Unravel Regulation of Seed Secondary Metabolism. In: Agrawal, G., Rakwal, R. (eds) Seed Development: OMICS Technologies toward Improvement of Seed Quality and Crop Yield. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-4749-4_18

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