Cross-Feedings, Competition, and Positive and Negative Synergies in a Four-Species Synthetic Community for Anaerobic Degradation of Cellulose to Methane

Wang, Dongyu; Hunt, Kristopher A.; Candry, Pieter; Tao, Xuanyu; Wofford, Neil Q.; Zhou, Jizhong; McInerney, Michael J.; Stahl, David A.; Tanner, Ralph S.; Zhou, Aifen; Winkler, Mari K.H.; Pan, Chongle

doi:10.1128/mbio.03189-22

Cited by 11 publications

(6 citation statements)

References 53 publications

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“…To avoid ambiguity in data analysis, protein groups were excluded from biological analysis. Protein quantification was achieved through Intensity-based label-free analysis using ProRata 14 . Protein abundances were quantified by the total peak height of all quantified peptides from a protein, normalized against the average total of all data sets 53 – 55 .…”

Section: Methodsmentioning

confidence: 99%

“…Microbial interactions are vital in modulating organic matter decomposition and greenhouse gas emissions within wetland ecosystems 10 , 11 . These interactions are driven by fermentation and respiration, coupling the oxidation of organic compounds by electron transfer to electron acceptors 12 – 14 . In the absence of disturbance by droughts and seawater intrusions, obligatory anaerobic fermenters become dominant 15 .…”

Section: Introductionmentioning

confidence: 99%

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Metaproteomics-informed stoichiometric modeling reveals the responses of wetland microbial communities to oxygen and sulfate exposure

Wang,

Candry,

Hunt

et al. 2024

npj Biofilms Microbiomes

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Climate changes significantly impact greenhouse gas emissions from wetland soil. Specifically, wetland soil may be exposed to oxygen (O2) during droughts, or to sulfate (SO42-) as a result of sea level rise. How these stressors – separately and together – impact microbial food webs driving carbon cycling in the wetlands is still not understood. To investigate this, we integrated geochemical analysis, proteogenomics, and stoichiometric modeling to characterize the impact of elevated SO42- and O2 levels on microbial methane (CH4) and carbon dioxide (CO2) emissions. The results uncovered the adaptive responses of this community to changes in SO42- and O2 availability and identified altered microbial guilds and metabolic processes driving CH4 and CO2 emissions. Elevated SO42- reduced CH4 emissions, with hydrogenotrophic methanogenesis more suppressed than acetoclastic. Elevated O2 shifted the greenhouse gas emissions from CH4 to CO2. The metabolic effects of combined SO42- and O2 exposures on CH4 and CO2 emissions were similar to those of O2 exposure alone. The reduction in CH4 emission by increased SO42- and O2 was much greater than the concomitant increase in CO2 emission. Thus, greater SO42- and O2 exposure in wetlands is expected to reduce the aggregate warming effect of CH4 and CO2. Metaproteomics and stoichiometric modeling revealed a unique subnetwork involving carbon metabolism that converts lactate and SO42- to produce acetate, H2S, and CO2 when SO42- is elevated under oxic conditions. This study provides greater quantitative resolution of key metabolic processes necessary for the prediction of CH4 and CO2 emissions from wetlands under future climate scenarios.

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Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Metaproteomics-informed stoichiometric modeling reveals the responses of wetland microbial communities to oxygen and sulfate exposure

Wang,

Candry,

Hunt

et al. 2024

npj Biofilms Microbiomes

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“…These trade‐offs are also apparent in the application of both model types. Stoichiometric models have proven powerful at pinpointing metabolic pathways, and carbon and nutrient exchange in either synthetic communities (Stolyar et al, 2007; Wang et al, 2023) or in field studies focusing on a single organism (Scheibe et al, 2009). Simple microbial kinetic models on the other hand have significantly improved ecosystem‐scale prediction of CH 4 ‐fluxes (Chadburn et al, 2020), despite abstracting some physiological detail.…”

Section: Connecting Microbes To the Global Climate Through Field Obse...mentioning

confidence: 99%

Microbially mediated climate feedbacks from wetland ecosystems

Candry

Abrahamson

Stahl

et al. 2023

Global Change Biology

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Wetlands are crucial nodes in the carbon cycle, emitting approximately 20% of global CH4 while also sequestering 20%–30% of all soil carbon. Both greenhouse gas fluxes and carbon storage are driven by microbial communities in wetland soils. However, these key players are often overlooked or overly simplified in current global climate models. Here, we first integrate microbial metabolisms with biological, chemical, and physical processes occurring at scales from individual microbial cells to ecosystems. This conceptual scale‐bridging framework guides the development of feedback loops describing how wetland‐specific climate impacts (i.e., sea level rise in estuarine wetlands, droughts and floods in inland wetlands) will affect future climate trajectories. These feedback loops highlight knowledge gaps that need to be addressed to develop predictive models of future climates capturing microbial contributions. We propose a roadmap connecting environmental scientific disciplines to address these knowledge gaps and improve the representation of microbial processes in climate models. Together, this paves the way to understand how microbially mediated climate feedbacks from wetlands will impact future climate change.

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“…The high sensitivity of anaerobes towards ambient conditions, viz. pH, temperature, toxicity, alkalinity, makes it necessary to maintain the controlled environment to achieve the efficient metabolic activity of microbes during AD [92,93].…”

Section: Biogas Production From Waste Biomassmentioning

confidence: 99%

Yeast-Mediated Biomass Valorization for Biofuel Production: A Literature Review

Ahuja,

Arora,

Chauhan

et al. 2023

Fermentation

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The European Union has recommended that about 10–50% of the global energy requirement should be supplemented by waste biomass resources by 2050 in order to achieve the objective of having net-zero-emission economies. This has led to intensive research being conducted on developing appropriate biofuel production technologies using advanced or integrated systems to tackle local, national, and global energy challenges using waste feedstock. Researchers have realized the potential of microbes (e.g., yeast strains) for bioenergy production. For this paper, both non-oleaginous and oleaginous yeasts were reviewed, with a specific focus being placed on their diversity in metabolism and tolerance to the various challenges that arise from the use of waste feedstock and influence bioprocessing. Gathering in-depth knowledge and information on yeast metabolism has paved the way for newer and better technologies to employ them for consolidated biorefineries to not only produce biofuels but also to cut down process expenses and decrease the risks of net carbon emissions. The rationale for using yeast strains improved by metabolic engineering and genetic manipulation that can substantially meet the challenges of alternate fuel resources is also described in this paper. This literature review presents the advantages and disadvantages of yeast-based biofuel production and highlights the advancements in technologies and how they contrast to conventional methods. Over the last decade, scientific publications have endorsed the idea of biorefineries for environmentally friendly, cost-effective, and sustainable biofuel production.

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Cross-Feedings, Competition, and Positive and Negative Synergies in a Four-Species Synthetic Community for Anaerobic Degradation of Cellulose to Methane

Cited by 11 publications

References 53 publications

Metaproteomics-informed stoichiometric modeling reveals the responses of wetland microbial communities to oxygen and sulfate exposure

Metaproteomics-informed stoichiometric modeling reveals the responses of wetland microbial communities to oxygen and sulfate exposure

Microbially mediated climate feedbacks from wetland ecosystems

Yeast-Mediated Biomass Valorization for Biofuel Production: A Literature Review

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