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Rice soil methane emissions are modulated by microbial cohorts that shape redox succession over the growing season

Kolody, B. C.; Kim, J.; Sachdeva, R.; Shi, L.-D.; Linquist, B. A.; Banfield, J.

2026-08-11 microbiology
10.64898/2026.08.10.744021 bioRxiv
Show abstract

Rice paddies are major anthropogenic methane sources, yet the community interactions regulating emissions remain poorly resolved. This field experiment combined genome-resolved metagenomics, metatranscriptomics, and biogeochemistry to identify microbial cohorts directly and indirectly involved in methane cycling over a rice growing season. Cohorts routed reducing equivalents to different terminal electron-accepting processes and changed in abundance in response to depth and time-dependent shifts in environmental conditions. Methanogenic activity peaked late in the season in the rhizosphere and surface soil, whereas activity in 2-10 cm bulk soil peaked earlier, indicating that methanogenesis was temporally partitioned across soil compartments. Geobacter-like extracellular electron transfer was the most highly expressed alternate sink for reducing equivalents. Methane consumption was vertically partitioned between surface type I methanotrophs and deeper type II methanotrophs and anaerobic methane-oxidizing archaea. We infer that methane emissions reflect seasonal shifts in microbial cohorts that redirect methanogenic substrates through competing redox processes.

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"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.