Fig. 1: Genome-to-ecosystem (G2E) conceptual framework integrating genomic information, site characterization, and ecosys.
From: A framework for integrating genomics, microbial traits, and ecosystem biogeochemistry
Genome sequencing data from field soil samples is annotated and traits are derived using a two-step workflow (i.e., microTrait and DEBmicroTrait). The products are inferred microbial traits including maximum specific respiration rates and half-saturation constants (Rmax, Km), which are used to parameterize a mechanistic-based ecosystem model (ecosys) that represents a functionally diverse microbial community. The diverse microbial community structure has been established in previous studies59,72 with literature-derived microbial kinetic traits. A complete list of functional groups and reactions is shown in Supplementary Table 1. ecosys then simulates depth-resolved hydrological, thermal, and plant processes and produces ecosystem-scale outputs that are compared against field observations. Detailed descriptions of these components can be found in “Methods”. HMM profile-hidden Markov Models, SOM soil organic matter, DOM dissolved organic matter, T temperature, N nitrogen, P phosphorous, Rn net radiation, LE latent heat flux, H sensible heat flux, G ground heat flux.
