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Bisley - Soil Microbes, Soil Biogeochemistry - Iron redox, Soil Microbiome (2012-2017)

Transient O2 pulses direct Fe crystallinity and Fe(III)-reducer gene expression within a soil microbiome

Variables:  ferric ion, ferrous ion, Biomass, soil bacterial DNA,

Standard Variables:  Biomass|Biomass, soil bacterial deoxyribonucleic acid (DNA)

Date Range:  (2012-2017)

Dataset Creators/Authors:  Wilmoth, Jared Lee ; Moran, Mary Ann; Thompson, Aaron

Contact:  Miguel Leon,

Field Area:   Bisley

Keywords & XML
  • Description


    Many environments contain redox transition zones, where transient oxygenation events can modulate anaerobic reactions that influence the cycling of iron (Fe) and carbon (C) on a global scale. In predominantly anoxic soils, this biogeochemical cycling depends on Fe mineral composition and the activity of mixed Fe(III)-reducer populations that may be altered by periodic pulses of molecular oxygen (O2).


    We repeatedly exposed anoxic (4% H2:96% N2) suspensions of soil from the Luquillo Critical Zone Observatory to 1.05 × 102, 1.05 × 103, and 1.05 × 104 mmol O2 kg−1 soil h−1 during pulsed oxygenation treatments. Metatranscriptomic analysis and 57Fe Mössbauer spectroscopy were used to investigate changes in Fe(III)-reducer gene expression and Fe(III) crystallinity, respectively.


    Slow oxygenation resulted in soil Fe-(oxyhydr)oxides of higher crystallinity (38.1 ± 1.1% of total Fe) compared to fast oxygenation (30.6 ± 1.5%, P < 0.001). Transcripts binning to the genomes of Fe(III)-reducers Anaeromyxobacter, Geobacter, and Pelosinus indicated significant differences in extracellular electron transport (e.g., multiheme cytochrome c, multicopper oxidase, and type-IV pilin gene expression), adhesion/contact (e.g., S-layer, adhesin, and flagellin gene expression), and selective microbial competition (e.g., bacteriocin gene expression) between the slow and fast oxygenation treatments during microbial Fe(III) reduction. These data also suggest that diverse Fe(III)-reducer functions, including cytochrome-dependent extracellular electron transport, are associated with type-III fibronectin domains. Additionally, the metatranscriptomic data indicate that Methanobacterium was significantly more active in the reduction of CO2 to CH4 and in the expression of class(III) signal peptide/type-IV pilin genes following repeated fast oxygenation compared to slow oxygenation.


    This study demonstrates that specific Fe(III)-reduction mechanisms in mixed Fe(III)-reducer populations are uniquely sensitive to the rate of O2 influx, likely mediated by shifts in soil Fe(III)-(oxyhydr)oxide crystallinity. Overall, we provide evidence that transient oxygenation events play an important role in directing anaerobic pathways within soil microbiomes, which is expected to alter Fe and C cycling in redox-dynamic environments.
  • Keywords

    Soil microbiome, redox cycling, microbial FE(III) reduction, carbon cyling, metatranscriptomics, mössbauer spectroscopy

    XML Metadata

    XML is in ISO-19115 geographic metadata format, compatible with ESRI Geoportal Server.

  • Citation for This Dataset

    Jared Lee Wilmoth, Mary Ann Moran, Aaron Thompson (2018): Transient O2 pulses direct Fe crystallinity and Fe(III)-reducer gene expression within a soil microbiome. Microbiome. DOI: 10.1186/s40168-018-0574-5

    Citation for This Webpage

    Wilmoth, Jared Lee ; Moran, Mary Ann; Thompson, Aaron (2017). "CZO Dataset: Bisley - Soil Microbes, Soil Biogeochemistry (2012-2017) - Iron redox, Soil Microbiome." Retrieved 05 Apr 2020, from

  • Publications

    Primary Publications


    Transient O2 pulses direct Fe crystallinity and Fe(III)-reducer gene expression within a soil microbiome. Jared Lee Wilmoth, Mary Ann Moran, Aaron Thompson (2018): Microbiome


Bisley - Soil metagenome

(3306)   Data Level 0

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