Exploration of Soil Resistome Through a Metagenomic Approach

  • Sankalp Misra
  • Vijay Kant Dixit
  • Swapnil Pandey
  • Shashank Kumar Mishra
  • Nikita Bisht
  • Puneet Singh ChauhanEmail author


Resistance toward antibiotics in microbes is considered to be one of the most significant challenges to modern medicine. The sum total of resistance genes against antibiotics in microorganism present in the soil is called the soil resistome and could serve as a source of resistance in microbes that can ultimately serve as a sink for drug discoveries. A deep knowledge of soil resistome and its multilateral interaction with advancement in drug development is essential for implementing suitable actions reducing spread of resistance in an efficient way. However, the soil resistome and its evolution are still in their infancy. The amalgamation of metagenomics with next-generation sequencing technology proved to be a robust methodological approach for exploring the soil microbiome, along with other related factors, especially the resistome. In this chapter, we have tried to incorporate the current knowledge on how the soil resistome is designed and discuss application of metagenomics to decipher hidden processes, particularly in respect to novel findings for medical diagnostics, controlling infections, and improving public health.


Metagenomics Antibiotic resistome Rhizosphere Microbial diversity 



The authors acknowledge Director, CSIR-National Botanical Research Institute, for providing facilities and support during the study. The authors also acknowledge the financial assistance from CSIR-Network project (MLP022; OLP 0105). The authors have no conflict of interest.


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Copyright information

© Springer Nature Singapore Pte Ltd. 2019

Authors and Affiliations

  • Sankalp Misra
    • 1
    • 2
  • Vijay Kant Dixit
    • 1
  • Swapnil Pandey
    • 1
    • 2
  • Shashank Kumar Mishra
    • 1
    • 2
  • Nikita Bisht
    • 1
    • 2
  • Puneet Singh Chauhan
    • 1
    • 2
    Email author
  1. 1.Microbial Technologies DivisionCSIR-National Botanical Research Institute (CSIR-NBRI)LucknowIndia
  2. 2.Academy of Scientific and Innovative Research (AcSIR)GhaziabadIndia

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