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Targeted Metatranscriptomics of Soil Microbial Communities with Stable Isotope Probing

Part of the Methods in Molecular Biology book series (MIMB,volume 2046)


Metatranscriptomics is a powerful tool for capturing gene expression patterns in microbial communities and investigating their responses to environmental conditions. Stable isotope probing (SIP) is a method to target specific functional groups of microorganisms in environmental samples. The combination of RNA-SIP with metatranscriptomic analysis enhances the detection and identification of mRNA from target microorganisms. In this chapter we provide a protocol for RNA-SIP, mRNA enrichment, and mRNA preparation for high-throughput sequencing using an example of targeting methanotrophs in rice field soil.

Key words

  • Metatranscriptome
  • Stable isotope probing
  • Soil microbiome
  • 13C-mRNA
  • High-throughput sequencing

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Correspondence to Ang Hu .

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Hu, A., Lu, Y., Hernández García, M., Dumont, M.G. (2019). Targeted Metatranscriptomics of Soil Microbial Communities with Stable Isotope Probing. In: Dumont, M., Hernández García, M. (eds) Stable Isotope Probing. Methods in Molecular Biology, vol 2046. Humana, New York, NY.

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-4939-9720-6

  • Online ISBN: 978-1-4939-9721-3

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