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Genome-resolved correlation mapping links microbial community structure to metabolic interactions driving methane production from wastewater

Author

Listed:
  • Brandon Kieft

    (University of British Columbia)

  • Niko Finke

    (University of British Columbia)

  • Ryan J. McLaughlin

    (University of British Columbia
    University of British Columbia)

  • Aditi N. Nallan

    (University of British Columbia
    University of British Columbia)

  • Martin Krzywinski

    (BC Cancer Agency)

  • Sean A. Crowe

    (University of British Columbia
    University of British Columbia)

  • Steven J. Hallam

    (University of British Columbia
    University of British Columbia
    University of British Columbia
    University of British Columbia)

Abstract

Anaerobic digestion of municipal mixed sludge produces methane that can be converted into renewable natural gas. To improve economics of this microbial mediated process, metabolic interactions catalyzing biomass conversion to energy need to be identified. Here, we present a two-year time series associating microbial metabolism and physicochemistry in a full-scale wastewater treatment plant. By creating a co-occurrence network with thousands of time-resolved microbial populations from over 100 samples spanning four operating configurations, known and novel microbial consortia with potential to drive methane production were identified. Interactions between these populations were further resolved in relation to specific process configurations by mapping metagenome assembled genomes and cognate gene expression data onto the network. Prominent interactions included transcriptionally active Methanolinea methanogens and syntrophic benzoate oxidizing Syntrophorhabdus, as well as a Methanoregulaceae population and putative syntrophic acetate oxidizing bacteria affiliated with Bateroidetes (Tenuifilaceae) expressing the glycine cleavage bypass of the Wood–Ljungdahl pathway.

Suggested Citation

  • Brandon Kieft & Niko Finke & Ryan J. McLaughlin & Aditi N. Nallan & Martin Krzywinski & Sean A. Crowe & Steven J. Hallam, 2023. "Genome-resolved correlation mapping links microbial community structure to metabolic interactions driving methane production from wastewater," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-40907-5
    DOI: 10.1038/s41467-023-40907-5
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    References listed on IDEAS

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    1. Alyse K. Hawley & Masaru K. Nobu & Jody J. Wright & W. Evan Durno & Connor Morgan-Lang & Brent Sage & Patrick Schwientek & Brandon K. Swan & Christian Rinke & Monica Torres-Beltrán & Keith Mewis & Wen, 2017. "Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients," Nature Communications, Nature, vol. 8(1), pages 1-10, December.
    2. Westerholm, Maria & Moestedt, Jan & Schnürer, Anna, 2016. "Biogas production through syntrophic acetate oxidation and deliberate operating strategies for improved digester performance," Applied Energy, Elsevier, vol. 179(C), pages 124-135.
    3. Zachary D Kurtz & Christian L Müller & Emily R Miraldi & Dan R Littman & Martin J Blaser & Richard A Bonneau, 2015. "Sparse and Compositionally Robust Inference of Microbial Ecological Networks," PLOS Computational Biology, Public Library of Science, vol. 11(5), pages 1-25, May.
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