Analysis of the San Luis Obispo Bay Microbiome from a Network Perspective

Nguyen, Viet; Anderson, Paul E.; Pasulka, Alexis L.; Migler, Theresa

doi:10.1007/978-3-030-93413-2_55

Cited by 2 publications

(1 citation statement)

References 25 publications

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“…Therefore, bioinformaticians have developed a range of tools that can infer putative interactions from high-throughput sequencing. The correlation analysis and co-occurrence network based on the analysis of amplicon data have been commonly used to infer species interactions [35,38–41]. Despite some initial scepticism about the application of this method, the use of theories such as random matrix theory in co-occurrence network construction has gradually improved the reliability of this method [34].…”

Section: Discussionmentioning

confidence: 99%

Enhanced nutrient supply promotes mutualistic interactions between cyanobacteria and bacteria in oligotrophic ocean

Liu,

Zhao,

et al. 2024

Proc. R. Soc. B.

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Cyanobacteria can form complex interactions with heterotrophic microorganisms, but this relationship is susceptible to nutrient concentrations. Disentangling the cyanobacteria–bacteria interactions in relation to nutrient supply is essential to understanding their roles in geochemical cycles under global change. We hypothesize that enhanced nutrient supply in oligotrophic oceans can promote interactions among cyanobacteria and bacteria. Therefore, we investigated the planktonic bacteria and their interactions with cyanobacteria in relation to elevated nutrients caused by enhanced upwelling around a shallow and a deep seamount in the tropical western Pacific Ocean. We found obviously higher complexity of network occurred with significantly more cyanobacteria in the deep chlorophyll maximum layer of the shallow seamount when compared with that of the deep seamount. Cyanobacteria can shape bacterial interaction and community evenness in response to relatively high nutrient concentrations. The effects of the nutrients on cyanobacteria-related networks were further estimated based on the Tara Oceans data. Statistical analyses further showed a facilitative effect of nitrate concentrations on cyanobacteria–bacteria mutualistic interactions in the global oligotrophic ocean. By analysing the Tara Ocean macrogenomic data, we detected functional genes related to cyanobacteria–bacteria interactions in all samples, indicating the existence of a mutualistic relationship. Our results reveal cyanobacteria–bacteria interaction in response to nutrient elevation in oligotrophic ocean and highlight the potentially negative effects of global change on the bacterial community from the view of the bio-interaction.

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Section: Discussionmentioning

confidence: 99%

Enhanced nutrient supply promotes mutualistic interactions between cyanobacteria and bacteria in oligotrophic ocean

Liu,

Zhao,

et al. 2024

Proc. R. Soc. B.

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Granular biomass technology for providing drinking water: microbial versatility and nitrate performance in response to carbon source

et al. 2023

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The aerobic granular biomass technology was optimized for treating nitrate-polluted groundwater based on the biological denitrification processes in order to provide drinking water. Reactors inoculated with granular biomass were operated at progressively lower C/N rate using acetate and methanol to encourage heterotrophic denitrification, in order to meet the recommended requirements described by European Drinking Water Framework Directive. The granulation and long-term stability of granular biomass under low C/N were successful for all stages, demonstrated compactness of granules and absence of filamentous microorganisms. The nitrate removal was similar in methanol- and acetate-fed reactors, occurring in both cases nitrate removal ratios > 80%, and fact allows the selection of one of both depending groundwater polluted case. Also, feeding reactors with 2 C/N ratio showed nitrate removal values of ≥ 95%, treating highly polluted groundwater (100 mg·L−1). The microbial diversity was higher in the methanol-fed reactor with representative phylotypes as Flavobacterium, Cytophagaceae, NS9 marine group, while species richness was higher in the acetate-fed reactor, which was mainly represented by Flavobacterium genus. Statistical analyses revealed the higher resilience of bacterial population on granules fed with acetate, showing more resistance under drop C/N ratio. Oscillating pollution in groundwater during seasonal periods should be treated using acetate as carbon source for denitrification carried out by granular biomass, while stable pollution concentrations over time allow the use of methanol as a carbon source since the greater microbial diversity allows the elimination of other contaminants present in groundwater.

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Analysis of the San Luis Obispo Bay Microbiome from a Network Perspective

Cited by 2 publications

References 25 publications

Enhanced nutrient supply promotes mutualistic interactions between cyanobacteria and bacteria in oligotrophic ocean

Enhanced nutrient supply promotes mutualistic interactions between cyanobacteria and bacteria in oligotrophic ocean

Granular biomass technology for providing drinking water: microbial versatility and nitrate performance in response to carbon source

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