Linking Nitrifying Biofilm Structure and Function through Fluorescent In Situ Hybridization and Evaluation of Nitrification Capacity

Biesterfeld, Sidney; Russell, Phil; Figueroa, Linda

doi:10.2175/106143003x140980

Cited by 18 publications

(4 citation statements)

References 29 publications

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“…Many studies have analyzed the microbial community of biofilms using denaturing gradient gel electrophoresis (DGGE) (Boon et al 2002;Lyautey et al 2005) or fluorescence in situ hybridization (FISH) (Schramm et al 1996;Biesterfeld et al 2003). However, DGGE and FISH analysis are not able to determine the specific population composition and their relative abundance within these filters.…”

Section: Discussionmentioning

confidence: 99%

Bacterial diversity, community structure and function associated with biofilm development in a biological aerated filter in a recirculating marine aquaculture system

Gao

Liu

et al. 2011

Mar Biodiv

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A biological aerated filter (100 l), filled with bamboo ball media, was set up for treatment of low ammonia-containing recirculating water in a marine aquaculture system. Chemical analysis showed that it took 70 days to establish a stable efficiency, at which more than 30% of the ammonia was removed. During the biofilm development, bacterial diversity and community structure were determined by construction of 16S rRNA gene libraries. Bacterial diversity and population richness were quite abundant and increased gradually, as revealed by the indexes of Shannon (from 3.34 to 3.94), Simpson (from 0.94 to 0.97) and Margalef (from 7.91 to 14.25). Dominant groups in the whole process showed a regular variation trend: a decrease of uncultured bacteria and Bacteroidetes from 38% to 32% and from 18% to 7%, respectively; and an increase of Alphaproteobacteria from 22% to 41%. In particular, clones closely relating to Denitromonas increased from 1.7% to 6.5% and then to 10% in the libraries A, B and C, respectively; in addition to the only detection of six clones (3%) representing Nitrospira in library C. Furthermore, a few strains capable of heterotrophic ammonia-oxidizing or aerobic denitrifying were isolated from the late phase of the biofilm development. All these results might infer that the biofilm bacterial community gradually shifts from chemical oxygen demand (COD)-removing flora to COD-and nitrogen-removing ones with the biofilm development, and that nitrification, heterotrophic ammonia oxidizing and denitrification all contribute to nitrogen removal of the biofilter.

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Section: Discussionmentioning

confidence: 99%

Bacterial diversity, community structure and function associated with biofilm development in a biological aerated filter in a recirculating marine aquaculture system

Gao

Liu

et al. 2011

Mar Biodiv

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“…This was shown for clusters of ammonia oxidisers that produce nitrite for clusters of nitrite oxidisers. The separate metabolic activities of these 2 groups led to a consumption of ammonia and oxygen near the biofilm surface and the simultaneous production and consumption of nitrite deeper underneath the surface 103,104 .…”

Section: Diffusion and Gradient Formation Of Reactive Species In Biofmentioning

confidence: 99%

Interactions of plasma-activated water with biofilms: inactivation, dispersal effects and mechanisms of action

Mai‐Prochnow

Zhou

Zhang

et al. 2021

npj Biofilms Microbiomes

124

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Biofilms have several characteristics that ensure their survival in a range of adverse environmental conditions, including high cell numbers, close cell proximity to allow easy genetic exchange (e.g., for resistance genes), cell communication and protection through the production of an exopolysaccharide matrix. Together, these characteristics make it difficult to kill undesirable biofilms, despite the many studies aimed at improving the removal of biofilms. An elimination method that is safe, easy to deliver in physically complex environments and not prone to microbial resistance is highly desired. Cold atmospheric plasma, a lightning-like state generated from air or other gases with a high voltage can be used to make plasma-activated water (PAW) that contains many active species and radicals that have antimicrobial activity. Recent studies have shown the potential for PAW to be used for biofilm elimination without causing the bacteria to develop significant resistance. However, the precise mode of action is still the subject of debate. This review discusses the formation of PAW generated species and their impacts on biofilms. A focus is placed on the diffusion of reactive species into biofilms, the formation of gradients and the resulting interaction with the biofilm matrix and specific biofilm components. Such an understanding will provide significant benefits for tackling the ubiquitous problem of biofilm contamination in food, water and medical areas.

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“…The degree to which microbial populations specialize in RAS and whether this specialization is indicative of specific environmental factors is not yet fully understood, but some studies have demonstrated an explicit relationship between the presence of distinct microbial populations and environmental conditions in RAS. For example, Based on fluorescence in situ hybridization (FISH) studies, changes in both the abundance of ammonia-oxidizing bacteria and its species composition have been postulated as in situ indicators of the biological impact of ammonia (Okabe et al 1999;Biesterfeld et al 2003). Michaud et al (2014) further revealed a negative relationship between the nitrification efficiency and carbon/ nitrogen (C/N) ratio through the construction of cDNA clone libraries.…”

Section: Introductionmentioning

confidence: 99%

A preliminary stochastic model for managing microorganisms in a recirculating aquaculture system

Liu

et al. 2014

Ann Microbiol

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Predicting the growth of key microorganisms is essential to improve the efficiency of wastewater treatment of recirculating aquaculture systems (RAS). We have developed a stochastic model to assess quantitatively the microbial populations in RAS. This stochastic model encompassed the growth model into the Monte Carlo simulation and was constructed with risk analysis software. A modified logistic model combined with the saturation growth-rate model was successfully developed to regress the growth curves of six microorganisms. Monte Carlo simulation was employed to model the effects of chemical oxygen demand (COD) on the maximum specific growth rate. Probabilistic distributions and predictions under the different COD ranges were generated for each simulated scenario. The coefficient of determination (R 2 ) and bias factor (Bf) were used to assess the performance of an established model. Logistic model produced a good fit to the growth curve of Flavobacterium sp. (R 2 = 0.9511), Acinetobacter baumannii (R 2 = 0.9970), Sphingomonas paucimobilis (R 2 =0.9086), Vibrio natriegens (R 2 =0.9993), Lutimonas sp. (R 2 = 0.9872) and Bacillus pumilus (R 2 = 0.9816). Bacterial population structure was determined by the construction of 16S rRNA gene libraries. A regular variation trend was observed for the dominant groups during the entire process, with a decrease of Cytophaga-Flavobacterium-Bacteroidetes from 37.6 to 18.7 % and an increase in Gammaproteobacteria from 8.5 to 30.6 %. The predicted model agreed well with observed values except for Flavobacterium sp., and the results can be applied to predict key microorganisms in actual environments. The results of this study provide a method to monitor the dynamics of key microorganisms, which can also help to evaluate the impacts of microorganisms on the operations of RAS.

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Linking Nitrifying Biofilm Structure and Function through Fluorescent In Situ Hybridization and Evaluation of Nitrification Capacity

Cited by 18 publications

References 29 publications

Bacterial diversity, community structure and function associated with biofilm development in a biological aerated filter in a recirculating marine aquaculture system

Bacterial diversity, community structure and function associated with biofilm development in a biological aerated filter in a recirculating marine aquaculture system

Interactions of plasma-activated water with biofilms: inactivation, dispersal effects and mechanisms of action

A preliminary stochastic model for managing microorganisms in a recirculating aquaculture system

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