Protocol

Protein-Carbohydrate Interactions

Volume 1588 of the series Methods in Molecular Biology pp 255-277

Date:

Metagenomics and CAZyme Discovery

  • Benoit J. KunathAffiliated withDepartment of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences
  • , Andreas BremgesAffiliated withComputational Biology of Infection Research, Helmholtz Centre for Infection ResearchGerman Center for Infection Research (DZIF)
  • , Aaron WeimannAffiliated withComputational Biology of Infection Research, Helmholtz Centre for Infection Research
  • , Alice C. McHardyAffiliated withComputational Biology of Infection Research, Helmholtz Centre for Infection Research
  • , Phillip B. PopeAffiliated withDepartment of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences Email author 

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Abstract

Microorganisms play a primary role in regulating biogeochemical cycles and are a valuable source of enzymes that have biotechnological applications, such as carbohydrate-active enzymes (CAZymes). However, the inability to culture the majority of microorganisms that exist in natural ecosystems using common culture-dependent techniques restricts access to potentially novel cellulolytic bacteria and beneficial enzymes. The development of molecular-based culture-independent methods such as metagenomics enables researchers to study microbial communities directly from environmental samples, and presents a platform from which enzymes of interest can be sourced. We outline key methodological stages that are required as well as describe specific protocols that are currently used for metagenomic projects dedicated to CAZyme discovery.

Key words

Metagenomics Carbohydrate active enzymes Microbial communities Assembly Binning