Targeted Metatranscriptomics of Soil Microbial Communities with Stable Isotope Probing

  • Ang HuEmail author
  • Yahai Lu
  • Marcela Hernández García
  • Marc G. Dumont
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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Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  • Ang Hu
    • 1
    Email author
  • Yahai Lu
    • 2
  • Marcela Hernández García
    • 3
    • 4
  • Marc G. Dumont
    • 4
  1. 1.College of Resources and EnvironmentHunan Agricultural UniversityChangshaChina
  2. 2.College of Urban and Environmental SciencesPeking UniversityBeijingChina
  3. 3.School of Biological SciencesUniversity of SouthamptonSouthamptonUK
  4. 4.Max-Planck-Institute for Terrestrial MicrobiologyMarburgGermany

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