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Multiplexed Digital Gene Expression Analysis for Genetical Genomics in Large Plant Populations

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Book cover Plant Genotyping

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1245))

Abstract

Digital gene expression (DGE) analysis is a cost-effective method for large-scale quantitative transcriptome analysis using second generation sequencing. Here we describe how adaptation of DGE with barcode indexing in large segregating plant populations of over 100 genotypes can be applied for successful expression QTL (eQTL) and gene expression network analysis to develop transcript-based markers for breeding.

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Acknowledgements

The development of this protocol for high-throughput mapping in large plant populations was funded by the Deutsche Forschungsgemeinschaft (DFG) grants SN14/7-2, SN14/11-1 and WA 2161/2-1.The authors thank Bashir Hosseini, Anja Pöltl, and Liane Renno for technical assistance.

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Authors and Affiliations

  1. Department of Plant Breeding, Justus Liebig University Giessen, Heinrich-Buff-Ring 26-32, Giessen, 35392, Germany

    Christian Obermeier, Bertha M. Salazar-Colqui, Viola Spamer & Rod Snowdon

Authors
  1. Christian Obermeier
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  2. Bertha M. Salazar-Colqui
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  3. Viola Spamer
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  4. Rod Snowdon
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Corresponding author

Correspondence to Christian Obermeier .

Editor information

Editors and Affiliations

  1. School of Plant Biology, The University of Western Australia, Crawley, West Australia, Australia

    Jacqueline Batley

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Obermeier, C., Salazar-Colqui, B.M., Spamer, V., Snowdon, R. (2015). Multiplexed Digital Gene Expression Analysis for Genetical Genomics in Large Plant Populations. In: Batley, J. (eds) Plant Genotyping. Methods in Molecular Biology, vol 1245. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-1966-6_9

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  • DOI: https://doi.org/10.1007/978-1-4939-1966-6_9

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-1965-9

  • Online ISBN: 978-1-4939-1966-6

  • eBook Packages: Springer Protocols

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