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Using next generation transcriptome sequencing to predict an ectomycorrhizal metabolome.

Peter E Larsen1, Avinash Sreedasyam, Geetika Trivedi

  • 1Biosciences Division, Argonne National Laboratory, Lemont, IL 60490, USA. plarsen@anl.gov

BMC Systems Biology
|May 17, 2011
PubMed
Summary

This study models the mycorrhizal metabolome, predicting that the fungus Laccaria bicolor synthesizes compounds like glycine for aspen trees in exchange for sugars. This advances understanding of forest ecosystems.

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Area of Science:

  • Ecology
  • Mycology
  • Plant Science

Background:

  • Mycorrhizae are vital symbiotic relationships between fungi and tree roots in terrestrial ecosystems.
  • Fungi provide trees with nutrients (phosphorus, nitrogen) and mobilize soil organic matter.
  • In return, fungi receive carbohydrates produced by trees through photosynthesis.

Purpose of the Study:

  • To understand the molecular basis of the mycorrhizal metabolome.
  • To investigate the molecular exchange processes in ectomycorrhizal symbiosis.
  • To develop a predictive model of the ectomycorrhizal metabolome.

Main Methods:

  • Generated next-generation transcriptomic sequencing data from Laccaria bicolor and aspen (Populus tremuloides) ectomycorrhizae.
  • Identified statistically significantly expressed gene models using a bootstrap-style approach.
  • Mapped expressed genes to metabolic pathways and integrated them with membrane transporters to model the metabolome.

Main Results:

  • Developed a predictive model of the ectomycorrhizal metabolome.
  • Predicted that Laccaria bicolor synthesizes glycine, glutamate, and allantoin.
  • These compounds or their metabolites are exchanged for tree-derived sugars like fructose and glucose.

Conclusions:

  • The study presents an approach to generate testable hypotheses for mycorrhizal symbiosis.
  • The predictive models align with experimental environmental data.
  • The RNA sequencing-based method for predicting metabolomic models is broadly applicable to complex biological systems.