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DOE OSTI · 3020148

MONet/1000 Soils metagenome pathway modelling narrative w/ auto batch import

Song, Young [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000305801600)·Ayala-Ortiz, Christian [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000181542378)·Graham, Emily [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000246237076)
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Abstract

This narrative performs metabolic modeling and flux balance analysis (FBA) using metagenome-assembled genomes (MAGs) from the 1000 Soils samples, as described by Song et al. (2026, accepted). The set of MAGs (in FASTA format) is converted into a set of assembly objects compatible with functional annotation via RASTtk, yielding a set of genome objects that undergo metabolic modeling via OMEGGA. These genome objects are then used to conduct FBA, generating tables of metabolite uptake rates across the MAGs under investigation.

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59 BASIC BIOLOGICAL SCIENCESmetabolic modelssoil metagenome

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Song, Young [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000305801600), Ayala-Ortiz, Christian [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000181542378), Graham, Emily [Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)] (ORCID:0000000246237076). 2026-02-21. MONet/1000 Soils metagenome pathway modelling narrative w/ auto batch import. https://doi.org/10.25982/3020148

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