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RNA Sequencing Applied to Livestock Production

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Systems Biology in Animal Production and Health, Vol. 1

Abstract

High-throughput sequencing technology is rapidly replacing expression arrays and becoming the standard method for global expression profiling studies. The development of low-cost, rapid sequencing technologies has enabled detailed quantification of gene expression levels, affecting almost every field in the life sciences. In this chapter, we will overview the key points for gene expression analysis using RNA-seq data. First, we will discuss the workflows of RNA-seq data analysis followed by a discussion about the currently available tools for data analysis and a comparison between these tools. The chapter concludes with a discussion about the application of RNA-seq data analysis in livestock. In the appendix, using an example from livestock RNA-seq data, we show a simple script for RNA-seq data analysis.

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Acknowledgements

This project was funded by an Australian Research Council Discovery Project (DP130100542), the Next-Generation BioGreen 21 Program (no. PJ01134906), the Rural Development Administration, the Republic of Korea, and the Cooperative Research Program for Agriculture Science and Technology Development (PJ006405), RDA, Korea.

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Authors and Affiliations

  1. The Centre for Genetic Analysis and Applications, University of New England, Armidale, NSW, 2351, Australia

    Sara de las Heras-Saldana, Hawlader A. Al-Mamun & Cedric Gondro

  2. Animal Genetics and Breeding Unit, University of New England, Armidale, NSW, 2351, Australia

    Mohammad H. Ferdosi

  3. Faculty of Veterinary and Agricultural Sciences, University of Melbourne, Melbourne, VIC, 3052, Australia

    Majid Khansefid

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  1. Sara de las Heras-Saldana
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Correspondence to Cedric Gondro .

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  1. Faculty of Health and Medical Sciences, University of Copenhagen , Frederiksberg C, Denmark

    Haja N. Kadarmideen

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de las Heras-Saldana, S., Al-Mamun, H.A., Ferdosi, M.H., Khansefid, M., Gondro, C. (2016). RNA Sequencing Applied to Livestock Production. In: Kadarmideen, H. (eds) Systems Biology in Animal Production and Health, Vol. 1. Springer, Cham. https://doi.org/10.1007/978-3-319-43335-6_4

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