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Array Platforms and Bioinformatics Tools for the Analysis of Plant Transcriptome in Response to Abiotic Stress

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Plant Stress Tolerance

Part of the book series: Methods in Molecular Biology ((MIMB,volume 639))

Abstract

Current microarray technologies allow high-density in situ synthesis of oligonucleotides or ex situ spotting of target molecules (cDNA) for conducting genome-wide comparative gene expression profiling studies. The avalanche of available microarray gene expression data from model plant species covering cell-related, tissue-specific, and developmental events, as well as perturbations to a variety of environmental stimuli has triggered many activities regarding the development of adequate bioinformatics tools for the analysis of these complex data sets. In this chapter we summarize the technical issues of different microarray technologies, discuss the availability of bioinformatics tools, and present approaches to extract biologically meaningful knowledge. For case studies of abiotic stress transcriptome analysis we highlight the unprecedented opportunities provided by these high-throughput technologies to understand networks of regulatory and metabolic pathway responses of plant cells to the application of abiotic stress stimuli.

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Acknowledgments

This work was supported by the Federal Ministry of Education and Research (BMBF; GABI-GRAIN grant FKZ: 0315041A) to NS and Oklahoma Agricultural Experiment Station to RS.

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Authors and Affiliations

  1. Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Gatersleben, Germany

    Nese Sreenivasulu, Ulrich Wobus & Marc Strickert

  2. Department of Biochemistry and Molecular Biology, Oklahoma State University, Stillwater, OK, USA

    Ramanjulu Sunkar

Authors
  1. Nese Sreenivasulu
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  2. Ramanjulu Sunkar
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  3. Ulrich Wobus
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  4. Marc Strickert
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Editors and Affiliations

  1. 246 NRC-D, Department of Biochemistry and Molecular, Oklahoma State University, Stillwater, 74078, Oklahoma, USA

    Ramanjulu Sunkar

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© 2010 Humana Press

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Sreenivasulu, N., Sunkar, R., Wobus, U., Strickert, M. (2010). Array Platforms and Bioinformatics Tools for the Analysis of Plant Transcriptome in Response to Abiotic Stress. In: Sunkar, R. (eds) Plant Stress Tolerance. Methods in Molecular Biology, vol 639. Humana Press. https://doi.org/10.1007/978-1-60761-702-0_5

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  • DOI: https://doi.org/10.1007/978-1-60761-702-0_5

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  • Print ISBN: 978-1-60761-701-3

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